# STOCKHOLM 1.0 #=GF ID DHFR #=GF DE DHFR only alignment using structural alignment for basis (without fungal DHFR structures; some editing in non-consensus areas); should be processed with hmmbuild --hand --nofrag #=GF AU Smith, Allen Watkins #=GF DR PROSITE; PS00075; ## Weights are from pb2 with idlevel 0.65 ## 1U72A Cluster #=GS 1U70A AC DYR_MOUSE #=GS 1U70A DR SWS; P00375; #=GS 1U70A DR PDB; 1u70 A; #=GS 1U70A OS Mus musculus #=GS 1U70A OC poss_fungi_metazoa #=GS 1U70A OC fungi_metazoa #=GS 1U70A OC metazoa #=GS 1U70A OC vertebrata #=GS 1U70A OC tetrapoda #=GS 1U70A OC mammalia #=GS 1U70A OC placentals #=GS 1U70A DE Mouse (Leu22Arg mutation removed) #=GS 1U70A WT 0.121227785945 ## 1U70A Cluster: 1U72A #=GS DYR_RAT AC Q920D2 #=GS DYR_RAT OS Rattus norvegicus #=GS DYR_RAT OC poss_fungi_metazoa #=GS DYR_RAT OC fungi_metazoa #=GS DYR_RAT OC metazoa #=GS DYR_RAT OC vertebrata #=GS DYR_RAT OC tetrapoda #=GS DYR_RAT OC mammalia #=GS DYR_RAT OC placentals #=GS DYR_RAT DE Rat DHFR (no structure; aligned to 1U70A) #=GS DYR_RAT WT 0.0986232087016 ## DYR_RAT Cluster: 1U72A #=GS DYR_MESAU AC Q2MH30_CRIGR #=GS DYR_MESAU DR EMBL; AAA36974; #=GS DYR_MESAU DR EMBL; AAA36970; #=GS DYR_MESAU DR EMBL; BAE78431; #=GS DYR_MESAU DR EMBL; FAA00073; #=GS DYR_MESAU DR TREMBL; Q78EE3; #=GS DYR_MESAU DR TREMBL; Q9JHB0; #=GS DYR_MESAU DR TREMBL; Q2MH30; #=GS DYR_MESAU OS Mesocricetus auratus #=GS DYR_MESAU OS Cricetulus griseus #=GS DYR_MESAU OC poss_fungi_metazoa #=GS DYR_MESAU OC fungi_metazoa #=GS DYR_MESAU OC metazoa #=GS DYR_MESAU OC vertebrata #=GS DYR_MESAU OC tetrapoda #=GS DYR_MESAU OC mammalia #=GS DYR_MESAU OC placentals #=GS DYR_MESAU DE Golden, Chinese hamsters (no structure; aligned to 1U70A) ## is form with L at 22, not MTX-resistant variant MQ19-97 with F (also doesn't have D->N at 95; I note an additional MTX-resistant variant also subbing F at 22, with no D->N at 95 but a T->S at 144 - http://www.jbc.org/cgi/content/abstract/265/14/8317; probable steric hinderance) #=GS DYR_MESAU WT 0.0971931740642 ## DYR_MESAU Cluster: 1U72A #=GS Q78EH1_9RODE AC Q78EH1 #=GS Q78EH1_9RODE DR EMBL; AAA36972; #=GS Q78EH1_9RODE OS Cricetulus griseus #=GS Q78EH1_9RODE OC poss_fungi_metazoa #=GS Q78EH1_9RODE OC fungi_metazoa #=GS Q78EH1_9RODE OC metazoa #=GS Q78EH1_9RODE OC vertebrata #=GS Q78EH1_9RODE OC tetrapoda #=GS Q78EH1_9RODE OC mammalia #=GS Q78EH1_9RODE OC placentals #=GS Q78EH1_9RODE DE Cricetulus sp ("Chinese hamster" - if griseus, variant 2; no structure; aligned to 1U70A) #=GS Q78EH1_9RODE WT 0.12953646481 ## Q78EH1_9RODE Cluster: 1U72A #=GS 1U72A AC P00374 #=GS 1U72A OS Homo sapiens #=GS 1U72A OC poss_fungi_metazoa #=GS 1U72A OC fungi_metazoa #=GS 1U72A OC metazoa #=GS 1U72A OC vertebrata #=GS 1U72A OC tetrapoda #=GS 1U72A OC mammalia #=GS 1U72A OC placentals #=GS 1U72A DR PDB; 1u72 A; #=GS 1U72A DR PDB; 1u71 A; #=GS 1U72A DR PDB; 1dhf A; #=GS 1U72A DR PDB; 1dhf B; #=GS 1U72A DR PDB; 2dhf A; #=GS 1U72A DR PDB; 2dhf B; #=GS 1U72A DE Human - data on binding also from [12]DHF[AB] paper #=GS 1U72A WT 0.112223669887 ## 1U72A Cluster: 1U72A #=GS 1DHFB AC P00374 #=GS 1DHFB OS Homo sapiens #=GS 1DHFB OC poss_fungi_metazoa #=GS 1DHFB OC fungi_metazoa #=GS 1DHFB OC metazoa #=GS 1DHFB OC vertebrata #=GS 1DHFB OC tetrapoda #=GS 1DHFB OC mammalia #=GS 1DHFB OC placentals #=GS 1DHFB DR PDB; 1dhf A; #=GS 1DHFB DR PDB; 1dhf B; #=GS 1DHFB DR PDB; 2dhf A; #=GS 1DHFB DR PDB; 2dhf B; #=GS 1DHFB DE Human - with folate bound; data on binding also from 1U72A #=GS 1DHFB WT 0.112223669887 ## 1DHFB Cluster: 1U72A #=GS 1PD8A AC P00374 #=GS 1PD8A OS Homo sapiens #=GS 1PD8A OC poss_fungi_metazoa #=GS 1PD8A OC fungi_metazoa #=GS 1PD8A OC metazoa #=GS 1PD8A OC vertebrata #=GS 1PD8A OC tetrapoda #=GS 1PD8A OC mammalia #=GS 1PD8A OC placentals #=GS 1PD8A DR PDB; 1pd8 A; #=GS 1PD8A DE Human #=GS 1PD8A WT 0.112223669887 ## 1PD8A Cluster: 1U72A #=GS XP_001110551 AC XP_001110551 #=GS XP_001110551 OS Macaca mulatta #=GS XP_001110551 OC poss_fungi_metazoa #=GS XP_001110551 OC fungi_metazoa #=GS XP_001110551 OC metazoa #=GS XP_001110551 OC vertebrata #=GS XP_001110551 OC tetrapoda #=GS XP_001110551 OC mammalia #=GS XP_001110551 OC placentals #=GS XP_001110551 DE Rhesus macaque (no structure; aligned to 1U72A) #=GS XP_001110551 WT 0.132289975882 ## XP_001110551 Cluster: 1U72A #=GS XP_001134992 AC XP_001134992 #=GS XP_001134992 OS Pan troglodytes #=GS XP_001134992 OC poss_fungi_metazoa #=GS XP_001134992 OC fungi_metazoa #=GS XP_001134992 OC metazoa #=GS XP_001134992 OC vertebrata #=GS XP_001134992 OC tetrapoda #=GS XP_001134992 OC mammalia #=GS XP_001134992 OC placentals #=GS XP_001134992 DE Chimpanzee (no structure; aligned to 1U72A) #=GS XP_001134992 WT 0.112223669887 ## XP_001134992 Cluster: 1U72A #=GS XP_851329 AC XP_851329 #=GS XP_851329 OS Canis lupus #=GS XP_851329 OC poss_fungi_metazoa #=GS XP_851329 OC fungi_metazoa #=GS XP_851329 OC metazoa #=GS XP_851329 OC vertebrata #=GS XP_851329 OC tetrapoda #=GS XP_851329 OC mammalia #=GS XP_851329 OC placentals #=GS XP_851329 DE Wolf/dog (variant 1; no structure; aligned to 1U72A|8DFR0 (matching results)) #=GS XP_851329 WT 0.178840309381 ## XP_851329 Cluster: 1U72A #=GS XP_536308 AC XP_536308 #=GS XP_536308 OS Canis lupus #=GS XP_536308 OC poss_fungi_metazoa #=GS XP_536308 OC fungi_metazoa #=GS XP_536308 OC metazoa #=GS XP_536308 OC vertebrata #=GS XP_536308 OC tetrapoda #=GS XP_536308 OC mammalia #=GS XP_536308 OC placentals ## trimmed tvvvgylvk at start #=GS XP_536308 DE Wolf/dog (variant 2 - incomplete; no structure; aligned to 1U70A|1U72A|8DFR0) #=GS XP_536308 WT 0.0817937925458 ## XP_536308 Cluster: 1U72A #=GS DYR_PIG AC P00377 #=GS DYR_PIG OS Sus scrofa #=GS DYR_PIG OC poss_fungi_metazoa #=GS DYR_PIG OC fungi_metazoa #=GS DYR_PIG OC metazoa #=GS DYR_PIG OC vertebrata #=GS DYR_PIG OC tetrapoda #=GS DYR_PIG OC mammalia #=GS DYR_PIG OC placentals #=GS DYR_PIG DE Pig (no structure; aligned to 1U70A|1U72A|8DFR0) #=GS DYR_PIG WT 0.115356206894 ## DYR_PIG Cluster: 1U72A #=GS DYR_BOVIN AC DYR_BOVIN ## not sure about cross-references... #=GS DYR_BOVIN DR SWS; P00376; #=GS DYR_BOVIN DR SWS; Q29RI1; #=GS DYR_BOVIN OS Bos taurus #=GS DYR_BOVIN OC poss_fungi_metazoa #=GS DYR_BOVIN OC fungi_metazoa #=GS DYR_BOVIN OC metazoa #=GS DYR_BOVIN OC vertebrata #=GS DYR_BOVIN OC tetrapoda #=GS DYR_BOVIN OC mammalia #=GS DYR_BOVIN OC placentals ## aligned to 1U70A|1U72A|8DFR0 #=GS DYR_BOVIN DE Cow (variant 1; no structure) #=GS DYR_BOVIN WT 0.114235892892 ## DYR_BOVIN Cluster: 1U72A #=GS P00376 AC P00376 ## not sure about cross-references... #=GS P00376 DR EMBL; AAI14163; #=GS P00376 DR SWS; P00376; #=GS P00376 OS Bos taurus #=GS P00376 OC poss_fungi_metazoa #=GS P00376 OC fungi_metazoa #=GS P00376 OC metazoa #=GS P00376 OC vertebrata #=GS P00376 OC tetrapoda #=GS P00376 OC mammalia #=GS P00376 OC placentals ## aligned to 1U70A|1U72A|8DFR0 #=GS P00376 DE Cow (variant 2; no structure) #=GS P00376 WT 0.115463130176 ## P00376 Cluster: 1U72A #=GS Q29RI1_BOVIN AC Q29RI1 ## not sure about cross-references... #=GS Q29RI1_BOVIN DR EMBL; AAI14163; #=GS Q29RI1_BOVIN DR TREMBL; Q29RI1; #=GS Q29RI1_BOVIN OS Bos taurus #=GS Q29RI1_BOVIN OC poss_fungi_metazoa #=GS Q29RI1_BOVIN OC fungi_metazoa #=GS Q29RI1_BOVIN OC metazoa #=GS Q29RI1_BOVIN OC vertebrata #=GS Q29RI1_BOVIN OC tetrapoda #=GS Q29RI1_BOVIN OC mammalia #=GS Q29RI1_BOVIN OC placentals ## aligned to 1U70A|1U72A|8DFR0 #=GS Q29RI1_BOVIN DE Cow (variant 3; no structure) #=GS Q29RI1_BOVIN WT 0.114886291325 ## Q29RI1_BOVIN Cluster: 1U72A #=GS PLACENT AC PLACENTAL #=GS PLACENT OS Placental ancestral #=GS PLACENT OC poss_fungi_metazoa #=GS PLACENT OC fungi_metazoa #=GS PLACENT OC metazoa #=GS PLACENT OC vertebrata #=GS PLACENT OC tetrapoda #=GS PLACENT OC mammalia #=GS PLACENT OC placentals ## Has I at 100 #=GS PLACENT DE Model of placental ancestral #=GS PLACENT WT 0.0939027890563 ## PLACENT Cluster: 1U72A #=GS XP_001363618 AC XP_001363618 #=GS XP_001363618 OS Monodelphis domestica #=GS XP_001363618 OC poss_fungi_metazoa #=GS XP_001363618 OC fungi_metazoa #=GS XP_001363618 OC metazoa #=GS XP_001363618 OC vertebrata #=GS XP_001363618 OC tetrapoda #=GS XP_001363618 OC mammalia #=GS XP_001363618 DE Opossum (no structure; aligned to 1U70A|1U72A|8DFR0) #=GS XP_001363618 WT 0.157856851816 ## XP_001363618 Cluster: 1U72A #=GS 8DFR0 AC DYR_CHICK #=GS 8DFR0 DR SWS; P00378; #=GS 8DFR0 DR PDB; 8dfr; #=GS 8DFR0 OS Gallus gallus #=GS 8DFR0 OC poss_fungi_metazoa #=GS 8DFR0 OC fungi_metazoa #=GS 8DFR0 OC metazoa #=GS 8DFR0 OC vertebrata #=GS 8DFR0 OC tetrapoda #=GS 8DFR0 DE Chicken #=GS 8DFR0 WT 0.169156074524 ## 8DFR0 Cluster: 1U72A #=GS 1DR10 AC DYR_CHICK #=GS 1DR10 DR SWS; P00378; #=GS 1DR10 DR PDB; 1dr1; #=GS 1DR10 OS Gallus gallus #=GS 1DR10 OC poss_fungi_metazoa #=GS 1DR10 OC fungi_metazoa #=GS 1DR10 OC metazoa #=GS 1DR10 OC vertebrata #=GS 1DR10 OC tetrapoda #=GS 1DR10 DE Chicken #=GS 1DR10 WT 0.169156074524 ## 1DR10 Cluster: 1U72A #=GS AGA AC AGA #=GS AGA OS Uramniota AGA #=GS AGA OC poss_fungi_metazoa #=GS AGA OC fungi_metazoa #=GS AGA OC metazoa #=GS AGA OC vertebrata #=GS AGA OC tetrapoda #=GS AGA DE Mammal/chicken ancestral model (seq with AGA) #=GS AGA WT 0.0936328917742 ## AGA Cluster: 1U72A #=GS PGV AC PGV #=GS PGV OS Uramniota PGV #=GS PGV OC poss_fungi_metazoa #=GS PGV OC fungi_metazoa #=GS PGV OC metazoa #=GS PGV OC vertebrata #=GS PGV OC tetrapoda #=GS PGV DE Mammal/chicken ancestral model (seq with PGV) #=GS PGV WT 0.0930436998606 ## PGV Cluster: 1U72A #=GS Q5U543_XENLA AC Q5U543 #=GS Q5U543_XENLA OS Xenopus laevis #=GS Q5U543_XENLA OC poss_fungi_metazoa #=GS Q5U543_XENLA OC fungi_metazoa #=GS Q5U543_XENLA OC metazoa #=GS Q5U543_XENLA OC vertebrata #=GS Q5U543_XENLA OC tetrapoda #=GS Q5U543_XENLA DE no structure; aligned to 8DFR0 (most consistent with others) #=GS Q5U543_XENLA WT 0.173069626093 ## Q5U543_XENLA Cluster: 1U72A #=GS ENSXETP49617 AC ENSXETP00000049617 #=GS ENSXETP49617 OS Xenopus tropicalis #=GS ENSXETP49617 OC poss_fungi_metazoa #=GS ENSXETP49617 OC fungi_metazoa #=GS ENSXETP49617 OC metazoa #=GS ENSXETP49617 OC vertebrata #=GS ENSXETP49617 OC tetrapoda #=GS ENSXETP49617 DE no structure; aligned to 8DFR0 (most consistent with others) #=GS ENSXETP49617 WT 0.167103275657 ## ENSXETP49617 Cluster: 1U72A #=GS AAK01951 AC AAK01951 #=GS AAK01951 OS Danio rerio #=GS AAK01951 OC poss_fungi_metazoa #=GS AAK01951 OC fungi_metazoa #=GS AAK01951 OC metazoa #=GS AAK01951 OC vertebrata #=GS AAK01951 DE Zebrafish variant 1 (no structure; aligned to 1U70A due to that being only metazoan aligning well to it) ## first 2 residues removed #=GS AAK01951 WT 0.194286435843 ## AAK01951 Cluster: 1U72A #=GS CAM14042 AC CAM14042 #=GS CAM14042 OS Danio rerio #=GS CAM14042 OC poss_fungi_metazoa #=GS CAM14042 OC fungi_metazoa #=GS CAM14042 OC metazoa #=GS CAM14042 OC vertebrata #=GS CAM14042 DE Zebrafish variant 2 (no structure; aligned to 1U70A due to that being only metazoan aligning well to it) #=GS CAM14042 WT 0.173997327685 ## CAM14042 Cluster: 1U72A #=GS NP_571850 AC NP_571850 #=GS NP_571850 OS Danio rerio #=GS NP_571850 OC poss_fungi_metazoa #=GS NP_571850 OC fungi_metazoa #=GS NP_571850 OC metazoa #=GS NP_571850 OC vertebrata #=GS NP_571850 DE Zebrafish variant 3 (no structure; aligned to 1U70A due to that being only metazoan aligning well to it) #=GS NP_571850 WT 0.178801462054 ## NP_571850 Cluster: 1U72A #=GS XP_001176553 AC XP_001176553 #=GS XP_001176553 OS Strongylocentrotus purpuratus #=GS XP_001176553 OC poss_fungi_metazoa #=GS XP_001176553 OC fungi_metazoa #=GS XP_001176553 OC metazoa #=GS XP_001176553 DE Sea urchin (no structure; aligned to 1U70A|1U72A, some 8DFR0 (consistent portion)) #=GS XP_001176553 WT 0.263832390308 ## XP_001176553 Cluster: 1U72A #=GS ES AC _E_SKFEDQ #=GS ES OS Deuterostomia ES #=GS ES OC poss_fungi_metazoa #=GS ES OC fungi_metazoa #=GS ES OC metazoa #=GS ES DE Deuterostomia ancestral model (_E_SKFEDQ seq) #=GS ES WT 0.0969611406326 ## ES Cluster: 1U72A #=GS KAG AC _KAGKFEDQ #=GS KAG OS Deuterostomia KAG #=GS KAG OC poss_fungi_metazoa #=GS KAG OC fungi_metazoa #=GS KAG OC metazoa #=GS KAG DE Deuterostomia ancestral model (_KAGKFEDQ seq) #=GS KAG WT 0.0977780967951 ## KAG Cluster: 1U72A #=GS XP_973338 AC XP_973338 #=GS XP_973338 OS Tribolium castaneum #=GS XP_973338 OC poss_fungi_metazoa #=GS XP_973338 OC fungi_metazoa #=GS XP_973338 OC metazoa #=GS XP_973338 DE Flour beetle (no structure; aligned via DHFR.metazoa.only.weighted.hmm) #=GS XP_973338 WT 0.469422280788 ## XP_973338 Cluster: 1U72A #=GS EAL28532 AC EAL28532 #=GS EAL28532 OS Drosophila pseudoobscura #=GS EAL28532 OC poss_fungi_metazoa #=GS EAL28532 OC fungi_metazoa #=GS EAL28532 OC metazoa #=GS EAL28532 DE Drosophila pseudoobscura (no structure; aligned via DHFR.metazoa.only.weighted.hmm) #=GS EAL28532 WT 0.220712319016 ## EAL28532 Cluster: 1U72A #=GS DYR_DROME AC DYR_DROME #=GS DYR_DROME DR SWS; P17719 #=GS DYR_DROME DR SWS; Q9VEU4 #=GS DYR_DROME DR EMBL; AAF55324 #=GS DYR_DROME OS Drosophila melanogaster #=GS DYR_DROME OC poss_fungi_metazoa #=GS DYR_DROME OC fungi_metazoa #=GS DYR_DROME OC metazoa #=GS DYR_DROME DE Drosophila melanogaster (no structure; aligned via DHFR.metazoa.only.weighted.hmm) #=GS DYR_DROME WT 0.207373455167 ## DYR_DROME Cluster: 1U72A #=GS AAA19051 AC AAA19051 #=GS AAA19051 DR EMBL; AAA19051; #=GS AAA19051 DR SWS; P17719 #=GS AAA19051 DR SWS; Q9VEU4 #=GS AAA19051 OS Drosophila melanogaster #=GS AAA19051 OC poss_fungi_metazoa #=GS AAA19051 OC fungi_metazoa #=GS AAA19051 OC metazoa #=GS AAA19051 DE Drosophila melanogaster (no structure; aligned via DHFR.metazoa.only.weighted.hmm; MTX-resistant variant) #=GS AAA19051 WT 0.223387271166 ## AAA19051 Cluster: 1U72A #=GS XP_393902 AC XP_393902 #=GS XP_393902 OS Apis mellifera #=GS XP_393902 OC poss_fungi_metazoa #=GS XP_393902 OC fungi_metazoa #=GS XP_393902 OC metazoa #=GS XP_393902 DE Honeybee (no structure; aligned via DHFR.metazoa.only.weighted.hmm) #=GS XP_393902 WT 0.326980292797 ## XP_393902 Cluster: 1U72A #=GS Q7Q0L5_ANOGA AC Q7Q0L5 #=GS Q7Q0L5_ANOGA OS Anopheles gambiae #=GS Q7Q0L5_ANOGA OC poss_fungi_metazoa #=GS Q7Q0L5_ANOGA OC fungi_metazoa #=GS Q7Q0L5_ANOGA OC metazoa #=GS Q7Q0L5_ANOGA DE Mosquito (no structure; aligned via DHFR.metazoa.only.weighted.hmm) #=GS Q7Q0L5_ANOGA WT 0.269749164581 ## Q7Q0L5_ANOGA Cluster: 1U72A #=GS DYR_CAEEL_1 AC Q93341 #=GS DYR_CAEEL_1 DR SWS; Q93341; #=GS DYR_CAEEL_1 DR EMBL; CAB02272; #=GS DYR_CAEEL_1 OS Caenorhabditis elegans #=GS DYR_CAEEL_1 OC poss_fungi_metazoa #=GS DYR_CAEEL_1 OC fungi_metazoa #=GS DYR_CAEEL_1 OC metazoa #=GS DYR_CAEEL_1 DE C. elegans (no structure; aligned via DHFR.caeno.weighted.hmm; alignment version 1) #=GS DYR_CAEEL_1 WT 0.266028881073 ## DYR_CAEEL_1 Cluster: 1U72A #=GS DYR_CAEEL_2 AC Q93341 #=GS DYR_CAEEL_2 DR SWS; Q93341; #=GS DYR_CAEEL_2 DR EMBL; CAB02272; #=GS DYR_CAEEL_2 OS Caenorhabditis elegans #=GS DYR_CAEEL_2 OC poss_fungi_metazoa #=GS DYR_CAEEL_2 OC fungi_metazoa #=GS DYR_CAEEL_2 OC metazoa #=GS DYR_CAEEL_2 DE C. elegans (no structure; aligned via DHFR.caeno.weighted.hmm; alignment version 2) #=GS DYR_CAEEL_2 WT 0.220306620002 ## DYR_CAEEL_2 Cluster: 1U72A #=GS Q61DT5_CAEBR_1 AC Q61DT5 #=GS Q61DT5_CAEBR_1 DR TREMBL; Q61DT5; #=GS Q61DT5_CAEBR_1 DR EMBL; CAE66962; #=GS Q61DT5_CAEBR_1 OS Caenorhabditis briggsae #=GS Q61DT5_CAEBR_1 OC poss_fungi_metazoa #=GS Q61DT5_CAEBR_1 OC fungi_metazoa #=GS Q61DT5_CAEBR_1 OC metazoa #=GS Q61DT5_CAEBR_1 DE C. briggsae (no structure; aligned via DHFR.caeno.weighted.hmm; alignment version 1) #=GS Q61DT5_CAEBR_1 WT 0.243840783834 ## Q61DT5_CAEBR_1 Cluster: 1U72A #=GS Q61DT5_CAEBR_2 AC Q61DT5 #=GS Q61DT5_CAEBR_2 DR TREMBL; Q61DT5; #=GS Q61DT5_CAEBR_2 DR EMBL; CAE66962; #=GS Q61DT5_CAEBR_2 OS Caenorhabditis briggsae #=GS Q61DT5_CAEBR_2 OC poss_fungi_metazoa #=GS Q61DT5_CAEBR_2 OC fungi_metazoa #=GS Q61DT5_CAEBR_2 OC metazoa #=GS Q61DT5_CAEBR_2 DE C. briggsae (no structure; aligned via DHFR.caeno.weighted.hmm; alignment version 2) #=GS Q61DT5_CAEBR_2 WT 0.201498270035 ## Q61DT5_CAEBR_2 Cluster: 1U72A #=GS 1111_GTF AC 1111_GTF #=GS 1111_GTF OS Fungimetazoa gtf #=GS 1111_GTF OC poss_fungi_metazoa #=GS 1111_GTF OC fungi_metazoa #=GS 1111_GTF DE fungi/metazoa ancestral sequence 1111_GTF #=GS 1111_GTF WT 0.0878647193313 ## 1111_GTF Cluster: 1U72A #=GS 1111_STF AC 1111_STF #=GS 1111_STF OS Fungimetazoa stf #=GS 1111_STF OC poss_fungi_metazoa #=GS 1111_STF OC fungi_metazoa #=GS 1111_STF DE fungi/metazoa ancestral sequence 1111_STF #=GS 1111_STF WT 0.0872488096356 ## 1111_STF Cluster: 1U72A #=GS AAQ02615_1 AC AAQ02615 #=GS AAQ02615_1 DR EMBL; AAQ02615; #=GS AAQ02615_1 DR TREMBL; Q6WEA8; #=GS AAQ02615_1 OS Hartmannella cantabrigiensis #=GS AAQ02615_1 OC poss_fungi_metazoa #=GS AAQ02615_1 DE Hartmannella cantabrigiensis (no structure; variant 1; aligned via DHFR.weighted.for.fungi.tmp3.hmm; alignment version 1) #=GS AAQ02615_1 WT 0.172971338034 ## AAQ02615_1 Cluster: 1U72A #=GS AAQ02617_1 AC AAQ02617 #=GS AAQ02617_1 DR EMBL; AAQ02617; #=GS AAQ02617_1 DR TREMBL; Q6WEA6; #=GS AAQ02617_1 OS Hartmannella cantabrigiensis #=GS AAQ02617_1 OC poss_fungi_metazoa #=GS AAQ02617_1 DE Hartmannella cantabrigiensis (no structure; variant 2; aligned via DHFR.weighted.for.fungi.tmp3.hmm; alignment version 1) #=GS AAQ02617_1 WT 0.154925167561 ## AAQ02617_1 Cluster: 1U72A #=GS AAQ02619_1 AC AAQ02619 #=GS AAQ02619_1 DR EMBL; AAQ02619; #=GS AAQ02619_1 DR TREMBL; Q6WEA4; #=GS AAQ02619_1 OS Hartmannella cantabrigiensis #=GS AAQ02619_1 OC poss_fungi_metazoa #=GS AAQ02619_1 DE Hartmannella cantabrigiensis (no structure; variant 3; aligned via DHFR.weighted.for.fungi.tmp3.hmm; alignment version 1) #=GS AAQ02619_1 WT 0.17264996469 ## AAQ02619_1 Cluster: 1U72A #=GS AAQ02621_1 AC AAQ02621 #=GS AAQ02621_1 DR EMBL; AAQ02621; #=GS AAQ02621_1 DR TREMBL; Q6WEA2; #=GS AAQ02621_1 OS Hartmannella cantabrigiensis #=GS AAQ02621_1 OC poss_fungi_metazoa #=GS AAQ02621_1 DE Hartmannella cantabrigiensis (no structure; variant 4; aligned via DHFR.weighted.for.fungi.tmp3.hmm; alignment version 1) #=GS AAQ02621_1 WT 0.173445239663 ## AAQ02621_1 Cluster: 1U72A #=GS AAQ02615_2 AC AAQ02615 #=GS AAQ02615_2 DR EMBL; AAQ02615; #=GS AAQ02615_2 DR TREMBL; Q6WEA8; #=GS AAQ02615_2 OS Hartmannella cantabrigiensis #=GS AAQ02615_2 OC poss_fungi_metazoa #=GS AAQ02615_2 DE Hartmannella cantabrigiensis (no structure; variant 1; aligned via DHFR.weighted.for.fungi.tmp3.hmm; alignment version 2) #=GS AAQ02615_2 WT 0.179195031524 ## AAQ02615_2 Cluster: 1U72A #=GS AAQ02617_2 AC AAQ02617 #=GS AAQ02617_2 DR EMBL; AAQ02617; #=GS AAQ02617_2 DR TREMBL; Q6WEA6; #=GS AAQ02617_2 OS Hartmannella cantabrigiensis #=GS AAQ02617_2 OC poss_fungi_metazoa #=GS AAQ02617_2 DE Hartmannella cantabrigiensis (no structure; variant 2; aligned via DHFR.weighted.for.fungi.tmp3.hmm; alignment version 2) #=GS AAQ02617_2 WT 0.161148831248 ## AAQ02617_2 Cluster: 1U72A #=GS AAQ02619_2 AC AAQ02619 #=GS AAQ02619_2 DR EMBL; AAQ02619; #=GS AAQ02619_2 DR TREMBL; Q6WEA4; #=GS AAQ02619_2 OS Hartmannella cantabrigiensis #=GS AAQ02619_2 OC poss_fungi_metazoa #=GS AAQ02619_2 DE Hartmannella cantabrigiensis (no structure; variant 3; aligned via DHFR.weighted.for.fungi.tmp3.hmm; alignment version 2) #=GS AAQ02619_2 WT 0.184245377779 ## AAQ02619_2 Cluster: 1U72A #=GS AAQ02621_2 AC AAQ02621 #=GS AAQ02621_2 DR EMBL; AAQ02621; #=GS AAQ02621_2 DR TREMBL; Q6WEA2; #=GS AAQ02621_2 OS Hartmannella cantabrigiensis #=GS AAQ02621_2 OC poss_fungi_metazoa #=GS AAQ02621_2 DE Hartmannella cantabrigiensis (no structure; variant 4; aligned via DHFR.weighted.for.fungi.tmp3.hmm; alignment version 2) #=GS AAQ02621_2 WT 0.185040608048 ## AAQ02621_2 Cluster: 1U72A ## end of real 1U72A cluster #=GS DYR_ENCCU_1 AC O62583 #=GS DYR_ENCCU_1 DR SWS; O62583; #=GS DYR_ENCCU_1 DR EMBL; CAA06647; #=GS DYR_ENCCU_1 DR EMBL; CAD24887; #=GS DYR_ENCCU_1 DR EMBL; CAD25017; #=GS DYR_ENCCU_1 DR EMBL; CAD26313; #=GS DYR_ENCCU_1 OS Encephalitozoon cuniculi #=GS DYR_ENCCU_1 OC poss_fungi_metazoa #=GS DYR_ENCCU_1 OC fungi_metazoa #=GS DYR_ENCCU_1 OC fungi #=GS DYR_ENCCU_1 DE Encephalitozoon cuniculi (no structure; aligned via DHFR.weighted.for.enceph.hmm; alignment version 1) #=GS DYR_ENCCU_1 WT 0.389784961939 ## DYR_ENCCU_1 Cluster: 1U72A #=GS DYR_ENCCU_2 AC O62583 #=GS DYR_ENCCU_2 DR SWS; O62583; #=GS DYR_ENCCU_2 DR EMBL; CAA06647; #=GS DYR_ENCCU_2 DR EMBL; CAD24887; #=GS DYR_ENCCU_2 DR EMBL; CAD25017; #=GS DYR_ENCCU_2 DR EMBL; CAD26313; #=GS DYR_ENCCU_2 OS Encephalitozoon cuniculi #=GS DYR_ENCCU_2 OC poss_fungi_metazoa #=GS DYR_ENCCU_2 OC fungi_metazoa #=GS DYR_ENCCU_2 OC fungi #=GS DYR_ENCCU_2 DE Encephalitozoon cuniculi (no structure; aligned via DHFR.weighted.for.enceph.hmm; alignment version 2) #=GS DYR_ENCCU_2 WT 0.408116817474 ## DYR_ENCCU_2 Cluster: 1U72A ## start of real 1DYR0 cluster #=GS EAK84413 AC EAK84413 #=GS EAK84413 DR EMBL; EAK84413; #=GS EAK84413 OS Ustilago maydis #=GS EAK84413 OC poss_fungi_metazoa #=GS EAK84413 OC fungi_metazoa #=GS EAK84413 OC fungi #=GS EAK84413 DE Ustilago maydis (no structure; aligned via DHFR.weighted.for.ust.hmm) ## initial part before, including m (alternative start site?) taken off #=GS EAK84413 WT 0.423381239176 ## EAK84413 Cluster: 1U72A #=GS BAC75955 AC BAC75955 #=GS BAC75955 DR EMBL; BAC75955; #=GS BAC75955 OS Coprinus cinereus #=GS BAC75955 OC poss_fungi_metazoa #=GS BAC75955 OC fungi_metazoa #=GS BAC75955 OC fungi #=GS BAC75955 DE Coprinus cinereus (no structure; aligned via DHFR.weighted.for.fungi.tmp3.hmm) #=GS BAC75955 WT 0.244362533092 ## BAC75955 Cluster: 1U72A #=GS DYR_CRYNE AC Q07801 #=GS DYR_CRYNE DR SWS; Q07801; #=GS DYR_CRYNE DR SWS; Q5KAF0; #=GS DYR_CRYNE DR TREMBL; Q55L31; #=GS DYR_CRYNE DR EMBL; AAB26198; #=GS DYR_CRYNE DR EMBL; AAW45849; #=GS DYR_CRYNE DR EMBL; EAL18511; #=GS DYR_CRYNE OS Cryptococcus neoformans #=GS DYR_CRYNE OC poss_fungi_metazoa #=GS DYR_CRYNE OC fungi_metazoa #=GS DYR_CRYNE OC fungi #=GS DYR_CRYNE DE Cryptococcus neoformans (no structure; aligned via DHFR.weighted.for.cryptococcus.hmm) #=GS DYR_CRYNE WT 0.33968180418 ## DYR_CRYNE Cluster: 1U72A #=GS DYR_SCHPO_1 AC P36591 #=GS DYR_SCHPO_1 DR SWS; P36591; #=GS DYR_SCHPO_1 OS Schizosaccharomyces pombe #=GS DYR_SCHPO_1 OC poss_fungi_metazoa #=GS DYR_SCHPO_1 OC fungi_metazoa #=GS DYR_SCHPO_1 OC fungi #=GS DYR_SCHPO_1 OC ascomycota #=GS DYR_SCHPO_1 DE Schizosaccharomyces pombe (no structure; aligned via DHFR.weighted.for.pombe.hmm; alignment version 1) ## initial part before, including m (alternative start site, am guessing - there is evidence for the full-length transcript being present...) taken off #=GS DYR_SCHPO_1 WT 0.289526998997 ## DYR_SCHPO_1 Cluster: 1U72A #=GS DYR_SCHPO_2 AC P36591 #=GS DYR_SCHPO_2 DR SWS; P36591; #=GS DYR_SCHPO_2 OS Schizosaccharomyces pombe #=GS DYR_SCHPO_2 OC poss_fungi_metazoa #=GS DYR_SCHPO_2 OC fungi_metazoa #=GS DYR_SCHPO_2 OC fungi #=GS DYR_SCHPO_2 OC ascomycota #=GS DYR_SCHPO_2 DE Schizosaccharomyces pombe (no structure; aligned via DHFR.weighted.for.pombe.hmm; alignment version 2) ## initial part before, including m (alternative start site, am guessing - there is evidence for the full-length transcript being present...) taken off #=GS DYR_SCHPO_2 WT 0.306025266647 ## DYR_SCHPO_2 Cluster: 1U72A #=GS DYR_PNECA AC P16184 #=GS DYR_PNECA DR SWS; P16184; #=GS DYR_PNECA DR PDB; 1dyr; #=GS DYR_PNECA DR PDB; 1cd2 A; #=GS DYR_PNECA DR PDB; 1daj; #=GS DYR_PNECA DR PDB; 1e26 A; #=GS DYR_PNECA DR PDB; 1klk A; #=GS DYR_PNECA DR PDB; 1ly3 A; #=GS DYR_PNECA DR PDB; 1ly4 A; #=GS DYR_PNECA DR PDB; 1s3y A; #=GS DYR_PNECA DR PDB; 1vj3 A; #=GS DYR_PNECA DR PDB; 2cd2 A; #=GS DYR_PNECA DR PDB; 3cd2 A; #=GS DYR_PNECA DR PDB; 4cd2 A; #=GS DYR_PNECA OS Pneumocystis carinii f. sp. rattus #=GS DYR_PNECA OC poss_fungi_metazoa #=GS DYR_PNECA OC fungi_metazoa #=GS DYR_PNECA OC fungi #=GS DYR_PNECA OC ascomycota #=GS DYR_PNECA DE Pneumocystis carinii (structures not used - aligned via DHFR.weighted.for.fungi.tmp4.hmm; variant 1 (rat)) #=GS DYR_PNECA WT 0.348079890013 ## DYR_PNECA Cluster: 1U72A #=GS AAF14071 AC AAF14071 #=GS AAF14071 DR EMBL; AAF14071; #=GS AAF14071 OS Pneumocystis carinii f. sp. hominis #=GS AAF14071 OC poss_fungi_metazoa #=GS AAF14071 OC fungi_metazoa #=GS AAF14071 OC fungi #=GS AAF14071 OC ascomycota #=GS AAF14071 DE Pneumocystis carinii (no structure for this variant; aligned via DHFR.weighted.for.fungi.tmp4.hmm; variant 2 (human)) #=GS AAF14071 WT 0.095573887229 ## AAF14071 Cluster: 1U72A #=GS AAL25720 AC AAL25720 #=GS AAL25720 DR EMBL; AAL25720; #=GS AAL25720 OS Pneumocystis carinii #=GS AAL25720 OC poss_fungi_metazoa #=GS AAL25720 OC fungi_metazoa #=GS AAL25720 OC fungi #=GS AAL25720 OC ascomycota #=GS AAL25720 DE Pneumocystis carinii (no structure for this variant; aligned via DHFR.weighted.for.fungi.tmp5.hmm; variant 3) #=GS AAL25720 WT 0.2409542799 ## AAL25720 Cluster: 1U72A #=GS AAT99406 AC AAT99406 #=GS AAT99406 DR EMBL; AAT99406; #=GS AAT99406 OS Pneumocystis carinii #=GS AAT99406 OC poss_fungi_metazoa #=GS AAT99406 OC fungi_metazoa #=GS AAT99406 OC fungi #=GS AAT99406 OC ascomycota #=GS AAT99406 DE Pneumocystis carinii (no structure for this variant; aligned via DHFR.weighted.for.fungi.tmp5.hmm; variant 4) #=GS AAT99406 WT 0.134850770235 ## AAT99406 Cluster: 1U72A #=GS AAT99411 AC AAT99411 #=GS AAT99411 DR EMBL; AAT99411; #=GS AAT99411 OS Pneumocystis carinii #=GS AAT99411 OC poss_fungi_metazoa #=GS AAT99411 OC fungi_metazoa #=GS AAT99411 OC fungi #=GS AAT99411 OC ascomycota #=GS AAT99411 DE Pneumocystis carinii (no structure for this variant; aligned via DHFR.weighted.for.fungi.tmp5.hmm; variant 5) #=GS AAT99411 WT 0.100311994553 ## AAT99411 Cluster: 1U72A #=GS AAT99412 AC AAT99412 #=GS AAT99412 DR EMBL; AAT99412; #=GS AAT99412 OS Pneumocystis carinii #=GS AAT99412 OC poss_fungi_metazoa #=GS AAT99412 OC fungi_metazoa #=GS AAT99412 OC fungi #=GS AAT99412 OC ascomycota #=GS AAT99412 DE Pneumocystis carinii (no structure for this variant; aligned via DHFR.weighted.for.fungi.tmp5.hmm; variant 6) #=GS AAT99412 WT 0.0986605361104 ## AAT99412 Cluster: 1U72A #=GS AAT99413 AC AAT99413 #=GS AAT99413 DR EMBL; AAT99413; #=GS AAT99413 OS Pneumocystis carinii #=GS AAT99413 OC poss_fungi_metazoa #=GS AAT99413 OC fungi_metazoa #=GS AAT99413 OC fungi #=GS AAT99413 OC ascomycota #=GS AAT99413 DE Pneumocystis carinii (no structure for this variant; aligned via DHFR.weighted.for.fungi.tmp5.hmm; variant 7) #=GS AAT99413 WT 0.0989902466536 ## AAT99413 Cluster: 1U72A #=GS AAT99417 AC AAT99417 #=GS AAT99417 DR EMBL; AAT99417; #=GS AAT99417 OS Pneumocystis carinii #=GS AAT99417 OC poss_fungi_metazoa #=GS AAT99417 OC fungi_metazoa #=GS AAT99417 OC fungi #=GS AAT99417 OC ascomycota #=GS AAT99417 DE Pneumocystis carinii (no structure for this variant; aligned via DHFR.weighted.for.fungi.tmp5.hmm; variant 8) #=GS AAT99417 WT 0.174187868834 ## AAT99417 Cluster: 1U72A #=GS ABB84704 AC ABB84704 #=GS ABB84704 DR EMBL; ABB84704; #=GS ABB84704 OS Pneumocystis carinii #=GS ABB84704 OC poss_fungi_metazoa #=GS ABB84704 OC fungi_metazoa #=GS ABB84704 OC fungi #=GS ABB84704 OC ascomycota #=GS ABB84704 DE Pneumocystis carinii (no structure for this variant; aligned via DHFR.weighted.for.fungi.tmp5.hmm; variant 9) #=GS ABB84704 WT 0.127951309085 ## ABB84704 Cluster: 1U72A #=GS ABB84712 AC ABB84712 #=GS ABB84712 DR EMBL; ABB84712; #=GS ABB84712 OS Pneumocystis carinii #=GS ABB84712 OC poss_fungi_metazoa #=GS ABB84712 OC fungi_metazoa #=GS ABB84712 OC fungi #=GS ABB84712 OC ascomycota #=GS ABB84712 DE Pneumocystis carinii (no structure for this variant; aligned via DHFR.weighted.for.fungi.tmp5.hmm; variant 10) #=GS ABB84712 WT 0.0966892316937 ## ABB84712 Cluster: 1U72A #=GS ABB84716 AC ABB84716 #=GS ABB84716 DR EMBL; ABB84716; #=GS ABB84716 OS Pneumocystis carinii #=GS ABB84716 OC poss_fungi_metazoa #=GS ABB84716 OC fungi_metazoa #=GS ABB84716 OC fungi #=GS ABB84716 OC ascomycota #=GS ABB84716 DE Pneumocystis carinii (no structure for this variant; aligned via DHFR.weighted.for.fungi.tmp5.hmm; variant 11) #=GS ABB84716 WT 0.0981981754303 ## ABB84716 Cluster: 1U72A #=GS ABB84718 AC ABB84718 #=GS ABB84718 DR EMBL; ABB84718; #=GS ABB84718 OS Pneumocystis carinii #=GS ABB84718 OC poss_fungi_metazoa #=GS ABB84718 OC fungi_metazoa #=GS ABB84718 OC fungi #=GS ABB84718 OC ascomycota #=GS ABB84718 DE Pneumocystis carinii (no structure for this variant; aligned via DHFR.weighted.for.fungi.tmp5.hmm; variant 12) #=GS ABB84718 WT 0.0955388620496 ## ABB84718 Cluster: 1U72A #=GS ABB84720 AC ABB84720 #=GS ABB84720 DR EMBL; ABB84720; #=GS ABB84720 OS Pneumocystis carinii #=GS ABB84720 OC poss_fungi_metazoa #=GS ABB84720 OC fungi_metazoa #=GS ABB84720 OC fungi #=GS ABB84720 OC ascomycota #=GS ABB84720 DE Pneumocystis carinii (no structure for this variant; aligned via DHFR.weighted.for.fungi.tmp5.hmm; variant 13) #=GS ABB84720 WT 0.0955388620496 ## ABB84720 Cluster: 1U72A #=GS ABB84722 AC ABB84722 #=GS ABB84722 DR EMBL; ABB84722; #=GS ABB84722 OS Pneumocystis carinii #=GS ABB84722 OC poss_fungi_metazoa #=GS ABB84722 OC fungi_metazoa #=GS ABB84722 OC fungi #=GS ABB84722 OC ascomycota #=GS ABB84722 DE Pneumocystis carinii (no structure for this variant; aligned via DHFR.weighted.for.fungi.tmp5.hmm; variant 14) #=GS ABB84722 WT 0.0953710973263 ## ABB84722 Cluster: 1U72A #=GS ABB84726 AC ABB84726 #=GS ABB84726 DR EMBL; ABB84726; #=GS ABB84726 OS Pneumocystis carinii #=GS ABB84726 OC poss_fungi_metazoa #=GS ABB84726 OC fungi_metazoa #=GS ABB84726 OC fungi #=GS ABB84726 OC ascomycota #=GS ABB84726 DE Pneumocystis carinii (no structure for this variant; aligned via DHFR.weighted.for.fungi.tmp5.hmm; variant 15) #=GS ABB84726 WT 0.0955388620496 ## ABB84726 Cluster: 1U72A #=GS ABB84744 AC ABB84744 #=GS ABB84744 DR EMBL; ABB84744; #=GS ABB84744 OS Pneumocystis carinii #=GS ABB84744 OC poss_fungi_metazoa #=GS ABB84744 OC fungi_metazoa #=GS ABB84744 OC fungi #=GS ABB84744 OC ascomycota #=GS ABB84744 DE Pneumocystis carinii (no structure for this variant; aligned via DHFR.weighted.for.fungi.tmp5.hmm; variant 16) #=GS ABB84744 WT 0.0955388620496 ## ABB84744 Cluster: 1U72A #=GS ABB84751 AC ABB84751 #=GS ABB84751 DR EMBL; ABB84751; #=GS ABB84751 OS Pneumocystis carinii #=GS ABB84751 OC poss_fungi_metazoa #=GS ABB84751 OC fungi_metazoa #=GS ABB84751 OC fungi #=GS ABB84751 OC ascomycota #=GS ABB84751 DE Pneumocystis carinii (no structure for this variant; aligned via DHFR.weighted.for.fungi.tmp5.hmm; variant 17) #=GS ABB84751 WT 0.0965188220143 ## ABB84751 Cluster: 1U72A #=GS ABF06467 AC ABF06467 #=GS ABF06467 DR EMBL; ABF06467; #=GS ABF06467 OS Pneumocystis carinii #=GS ABF06467 OC poss_fungi_metazoa #=GS ABF06467 OC fungi_metazoa #=GS ABF06467 OC fungi #=GS ABF06467 OC ascomycota #=GS ABF06467 DE Pneumocystis carinii (no structure for this variant; aligned via DHFR.weighted.for.fungi.tmp5.hmm; variant 18) #=GS ABF06467 WT 0.100236237049 ## ABF06467 Cluster: 1U72A #=GS ABF06468 AC ABF06468 #=GS ABF06468 DR EMBL; ABF06468; #=GS ABF06468 OS Pneumocystis carinii #=GS ABF06468 OC poss_fungi_metazoa #=GS ABF06468 OC fungi_metazoa #=GS ABF06468 OC fungi #=GS ABF06468 OC ascomycota #=GS ABF06468 DE Pneumocystis carinii (no structure for this variant; aligned via DHFR.weighted.for.fungi.tmp5.hmm; variant 19) #=GS ABF06468 WT 0.110260106623 ## ABF06468 Cluster: 1U72A #=GS ABF06469 AC ABF06469 #=GS ABF06469 DR EMBL; ABF06469; #=GS ABF06469 OS Pneumocystis carinii #=GS ABF06469 OC poss_fungi_metazoa #=GS ABF06469 OC fungi_metazoa #=GS ABF06469 OC fungi #=GS ABF06469 OC ascomycota #=GS ABF06469 DE Pneumocystis carinii (no structure for this variant; aligned via DHFR.weighted.for.fungi.tmp5.hmm; variant 20) #=GS ABF06469 WT 0.108349896967 ## ABF06469 Cluster: 1U72A #=GS ABF06470 AC ABF06470 #=GS ABF06470 DR EMBL; ABF06470; #=GS ABF06470 OS Pneumocystis carinii #=GS ABF06470 OC poss_fungi_metazoa #=GS ABF06470 OC fungi_metazoa #=GS ABF06470 OC fungi #=GS ABF06470 OC ascomycota #=GS ABF06470 DE Pneumocystis carinii (no structure for this variant; aligned via DHFR.weighted.for.fungi.tmp5.hmm; variant 21) #=GS ABF06470 WT 0.0944603905082 ## ABF06470 Cluster: 1U72A #=GS Q6CC38_YARLI_1 AC Q6CC38 #=GS Q6CC38_YARLI_1 DR TREMBL; Q6CC38; #=GS Q6CC38_YARLI_1 DR EMBL; CAG82084; #=GS Q6CC38_YARLI_1 OS Yarrowia lipolytica #=GS Q6CC38_YARLI_1 OC poss_fungi_metazoa #=GS Q6CC38_YARLI_1 OC fungi_metazoa #=GS Q6CC38_YARLI_1 OC fungi #=GS Q6CC38_YARLI_1 OC ascomycota #=GS Q6CC38_YARLI_1 DE Yarrowia lipolytica (no structure; aligned via DHFR.weighted.for.yarrowia.hmm; alignment version 1) #=GS Q6CC38_YARLI_1 WT 0.253606647253 ## Q6CC38_YARLI_1 Cluster: 1U72A #=GS Q6CC38_YARLI_2 AC Q6CC38 #=GS Q6CC38_YARLI_2 DR TREMBL; Q6CC38; #=GS Q6CC38_YARLI_2 DR EMBL; CAG82084; #=GS Q6CC38_YARLI_2 OS Yarrowia lipolytica #=GS Q6CC38_YARLI_2 OC poss_fungi_metazoa #=GS Q6CC38_YARLI_2 OC fungi_metazoa #=GS Q6CC38_YARLI_2 OC fungi #=GS Q6CC38_YARLI_2 OC ascomycota #=GS Q6CC38_YARLI_2 DE Yarrowia lipolytica (no structure; aligned via DHFR.weighted.for.yarrowia.hmm; alignment version 2) #=GS Q6CC38_YARLI_2 WT 0.27892306447 ## Q6CC38_YARLI_2 Cluster: 1U72A #=GS CAG60823_1 AC CAG60823 #=GS CAG60823_1 DR EMBL; CAG60823; #=GS CAG60823_1 DR TREMBL; Q6FPH0; #=GS CAG60823_1 OS Candida glabrata #=GS CAG60823_1 OC poss_fungi_metazoa #=GS CAG60823_1 OC fungi_metazoa #=GS CAG60823_1 OC fungi #=GS CAG60823_1 OC ascomycota #=GS CAG60823_1 DE "Candida" glabrata (no structure; aligned via DHFR.weighted.for.saccharomycetaceae.hmm; alignment version 1) #=GS CAG60823_1 WT 0.268898814917 ## CAG60823_1 Cluster: 1U72A #=GS CAG60823_2 AC CAG60823 #=GS CAG60823_2 DR EMBL; CAG60823; #=GS CAG60823_2 DR TREMBL; Q6FPH0; #=GS CAG60823_2 OS Candida glabrata #=GS CAG60823_2 OC poss_fungi_metazoa #=GS CAG60823_2 OC fungi_metazoa #=GS CAG60823_2 OC fungi #=GS CAG60823_2 OC ascomycota #=GS CAG60823_2 DE "Candida" glabrata (no structure; aligned via DHFR.weighted.for.saccharomycetaceae.hmm; alignment version 2) #=GS CAG60823_2 WT 0.212503701448 ## CAG60823_2 Cluster: 1U72A #=GS AAS51350_1 AC AAS51350 #=GS AAS51350_1 DR EMBL; AAS51350; #=GS AAS51350_1 DR TREMBL; Q75BZ5; #=GS AAS51350_1 OS Eremothecium gossypii #=GS AAS51350_1 OC poss_fungi_metazoa #=GS AAS51350_1 OC fungi_metazoa #=GS AAS51350_1 OC fungi #=GS AAS51350_1 OC ascomycota #=GS AAS51350_1 DE Eremothecium/Ashbya gossypii (no structure; aligned via DHFR.weighted.for.saccharomycetaceae.hmm; alignment version 1) #=GS AAS51350_1 WT 0.346816539764 ## AAS51350_1 Cluster: 1U72A #=GS AAS51350_2 AC AAS51350 #=GS AAS51350_2 DR EMBL; AAS51350; #=GS AAS51350_2 DR TREMBL; Q75BZ5; #=GS AAS51350_2 OS Eremothecium gossypii #=GS AAS51350_2 OC poss_fungi_metazoa #=GS AAS51350_2 OC fungi_metazoa #=GS AAS51350_2 OC fungi #=GS AAS51350_2 OC ascomycota #=GS AAS51350_2 DE Eremothecium/Ashbya gossypii (no structure; aligned via DHFR.weighted.for.saccharomycetaceae.hmm; alignment version 2) #=GS AAS51350_2 WT 0.32664513588 ## AAS51350_2 Cluster: 1U72A #=GS DYR_YEAST_1 AC P07807 #=GS DYR_YEAST_1 DR SWS; P07807; #=GS DYR_YEAST_1 OS Saccharomyces cerevisiae #=GS DYR_YEAST_1 OC poss_fungi_metazoa #=GS DYR_YEAST_1 OC fungi_metazoa #=GS DYR_YEAST_1 OC fungi #=GS DYR_YEAST_1 OC ascomycota #=GS DYR_YEAST_1 DE Saccharomyces cerevisiae (no structure; aligned via DHFR.weighted.for.saccharomycetaceae.hmm; alignment version 1; variant 1) #=GS DYR_YEAST_1 WT 0.1827275455 ## DYR_YEAST_1 Cluster: 1U72A #=GS DYR_YEAST_2 AC P07807 #=GS DYR_YEAST_2 DR SWS; P07807; #=GS DYR_YEAST_2 OS Saccharomyces cerevisiae #=GS DYR_YEAST_2 OC poss_fungi_metazoa #=GS DYR_YEAST_2 OC fungi_metazoa #=GS DYR_YEAST_2 OC fungi #=GS DYR_YEAST_2 OC ascomycota #=GS DYR_YEAST_2 DE Saccharomyces cerevisiae (no structure; aligned via DHFR.weighted.for.saccharomycetaceae.hmm; alignment version 2; variant 1) #=GS DYR_YEAST_2 WT 0.171738773584 ## DYR_YEAST_2 Cluster: 1U72A #=GS EDN63566_1 AC EDN63566 #=GS EDN63566_1 DR SWS; P07807; #=GS EDN63566_1 DR TREMBL; A6ZP76; #=GS EDN63566_1 DR EMBL; EDN63566; #=GS EDN63566_1 OS Saccharomyces cerevisiae #=GS EDN63566_1 OC poss_fungi_metazoa #=GS EDN63566_1 OC fungi_metazoa #=GS EDN63566_1 OC fungi #=GS EDN63566_1 OC ascomycota #=GS EDN63566_1 DE Saccharomyces cerevisiae (no structure; aligned via DHFR.weighted.for.saccharomycetaceae.hmm; alignment version 1; variant 2) #=GS EDN63566_1 WT 0.1827275455 ## EDN63566_1 Cluster: 1U72A #=GS EDN63566_2 AC EDN63566 #=GS EDN63566_2 DR SWS; P07807; #=GS EDN63566_2 DR TREMBL; A6ZP76; #=GS EDN63566_2 DR EMBL; EDN63566; #=GS EDN63566_2 OS Saccharomyces cerevisiae #=GS EDN63566_2 OC poss_fungi_metazoa #=GS EDN63566_2 OC fungi_metazoa #=GS EDN63566_2 OC fungi #=GS EDN63566_2 OC ascomycota #=GS EDN63566_2 DE Saccharomyces cerevisiae (no structure; aligned via DHFR.weighted.for.saccharomycetaceae.hmm; alignment version 2; variant 2) #=GS EDN63566_2 WT 0.171738773584 ## EDN63566_2 Cluster: 1U72A #=GS CAA68779_1 AC CAA63879 #=GS CAA68779_1 DR SWS; P07807; #=GS CAA68779_1 DR EMBL; CAA68779; #=GS CAA68779_1 DR EMBL; AAA34564; #=GS CAA68779_1 OS Saccharomyces cerevisiae #=GS CAA68779_1 OC poss_fungi_metazoa #=GS CAA68779_1 OC fungi_metazoa #=GS CAA68779_1 OC fungi #=GS CAA68779_1 OC ascomycota #=GS CAA68779_1 DE Saccharomyces cerevisiae (no structure; aligned via DHFR.weighted.for.saccharomycetaceae.hmm; alignment version 1; variant 3) #=GS CAA68779_1 WT 0.198279231787 ## CAA68779_1 Cluster: 1U72A #=GS CAA68779_2 AC CAA63879 #=GS CAA68779_2 DR SWS; P07807; #=GS CAA68779_2 DR EMBL; CAA68779; #=GS CAA68779_2 DR EMBL; AAA34564; #=GS CAA68779_2 OS Saccharomyces cerevisiae #=GS CAA68779_2 OC poss_fungi_metazoa #=GS CAA68779_2 OC fungi_metazoa #=GS CAA68779_2 OC fungi #=GS CAA68779_2 OC ascomycota #=GS CAA68779_2 DE Saccharomyces cerevisiae (no structure; aligned via DHFR.weighted.for.saccharomycetaceae.hmm; alignment version 2; variant 3) #=GS CAA68779_2 WT 0.187290474772 ## CAA68779_2 Cluster: 1U72A #=GS CAG86485_1 AC CAG86485 #=GS CAG86485_1 DR TREMBL; Q6BTR6; #=GS CAG86485_1 OS Debaryomyces hansenii #=GS CAG86485_1 OC poss_fungi_metazoa #=GS CAG86485_1 OC fungi_metazoa #=GS CAG86485_1 OC fungi #=GS CAG86485_1 OC ascomycota #=GS CAG86485_1 DE Debaryomyces hansenii (no structure; aligned via DHFR.weighted.for.saccharomycetales.hmm; alignment variation 1) #=GS CAG86485_1 WT 0.229588553309 ## CAG86485_1 Cluster: 1U72A #=GS CAG86485_2 AC CAG86485 #=GS CAG86485_2 DR TREMBL; Q6BTR6; #=GS CAG86485_2 OS Debaryomyces hansenii #=GS CAG86485_2 OC poss_fungi_metazoa #=GS CAG86485_2 OC fungi_metazoa #=GS CAG86485_2 OC fungi #=GS CAG86485_2 OC ascomycota #=GS CAG86485_2 DE Debaryomyces hansenii (no structure; aligned via DHFR.weighted.for.saccharomycetales.hmm; alignment variation 2) #=GS CAG86485_2 WT 0.250264644623 ## CAG86485_2 Cluster: 1U72A #=GS ABN65593_1 AC ABN65593 #=GS ABN65593_1 DR TREMBL; A3LSL9; #=GS ABN65593_1 OS Pichia stipitis #=GS ABN65593_1 OC poss_fungi_metazoa #=GS ABN65593_1 OC fungi_metazoa #=GS ABN65593_1 OC fungi #=GS ABN65593_1 OC ascomycota #=GS ABN65593_1 DE Pichia stipitis (no structure; aligned via DHFR.weighted.for.pichia.hmm; alignment variation 1) #=GS ABN65593_1 WT 0.230044811964 ## ABN65593_1 Cluster: 1U72A #=GS ABN65593_2 AC ABN65593 #=GS ABN65593_2 DR TREMBL; A3LSL9; #=GS ABN65593_2 OS Pichia stipitis #=GS ABN65593_2 OC poss_fungi_metazoa #=GS ABN65593_2 OC fungi_metazoa #=GS ABN65593_2 OC fungi #=GS ABN65593_2 OC ascomycota #=GS ABN65593_2 DE Pichia stipitis (no structure; aligned via DHFR.weighted.for.pichia.hmm; alignment variation 2) #=GS ABN65593_2 WT 0.259779661894 ## ABN65593_2 Cluster: 1U72A #=GS DYR_CANAL_1 AC P22906 #=GS DYR_CANAL_1 DR SWS; P22906; #=GS DYR_CANAL_1 DR SWS; O59840; #=GS DYR_CANAL_1 DR EMBL; AAC05610; #=GS DYR_CANAL_1 OS Candida albicans #=GS DYR_CANAL_1 OC poss_fungi_metazoa #=GS DYR_CANAL_1 OC fungi_metazoa #=GS DYR_CANAL_1 OC fungi #=GS DYR_CANAL_1 OC ascomycota #=GS DYR_CANAL_1 DE Candida albicans (structures not used - aligned via DHFR.weighted.for.saccharomycetales.2.hmm; alignment variation 1) #=GS DYR_CANAL_1 WT 0.216233953834 ## DYR_CANAL_1 Cluster: 1U72A #=GS DYR_CANAL_2 AC P22906 #=GS DYR_CANAL_2 DR SWS; P22906; #=GS DYR_CANAL_2 DR SWS; O59840; #=GS DYR_CANAL_2 DR EMBL; AAC05610; #=GS DYR_CANAL_2 OS Candida albicans #=GS DYR_CANAL_2 OC poss_fungi_metazoa #=GS DYR_CANAL_2 OC fungi_metazoa #=GS DYR_CANAL_2 OC fungi #=GS DYR_CANAL_2 OC ascomycota #=GS DYR_CANAL_2 DE Candida albicans (structures not used - aligned via DHFR.weighted.for.saccharomycetales.2.hmm; alignment variation 2) #=GS DYR_CANAL_2 WT 0.195754885674 ## DYR_CANAL_2 Cluster: 1U72A ## 1J3KA Cluster #=GS 1J3KA AC DRTS_PLAFK #=GS 1J3KA OS Plasmodium falciparum #=GS 1J3KA OC alveolata #=GS 1J3KA DR PDB; 1j3k A; #=GS 1J3KA DR SWS; P13922; #=GS 1J3KA DE Malaria DHFR section (N51I+C59R+S108N+I164L - mutations removed) - residues start at 2 #=GS 1J3KA WT 0.184230655432 ## 1J3KA Cluster: 1J3KA #=GS 1J3KB AC DRTS_PLAFK #=GS 1J3KB OS Plasmodium falciparum #=GS 1J3KB OC alveolata #=GS 1J3KB DR PDB; 1j3k B; #=GS 1J3KB DR SWS; P13922; #=GS 1J3KB DE Malaria DHFR section (N51I+C59R+S108N+I164L - mutations removed) - residues start at 2 #=GS 1J3KB WT 0.184230655432 ## 1J3KB Cluster: 1J3KA #=GS 1J3IA AC DRTS_PLAFK #=GS 1J3IA OS Plasmodium falciparum #=GS 1J3IA OC alveolata #=GS 1J3IA DR PDB; 1j3i A; #=GS 1J3IA DR SWS; P13922; #=GS 1J3IA DE Malaria DHFR section - residues start at 2 #=GS 1J3IA WT 0.184230655432 ## 1J3IA Cluster: 1J3KA #=GS 1J3IB AC DRTS_PLAFK #=GS 1J3IB OS Plasmodium falciparum #=GS 1J3IB OC alveolata #=GS 1J3IB DR PDB; 1j3i B; #=GS 1J3IB DR SWS; P13922; #=GS 1J3IB DE Malaria DHFR section - residues start at 2 #=GS 1J3IB WT 0.184230655432 ## 1J3IB Cluster: 1J3KA #=GS DRTS_PLACH AC P20712 #=GS DRTS_PLACH OS Plasmodium chabaudi #=GS DRTS_PLACH OC alveolata #=GS DRTS_PLACH DE Rodent malaria DHFR section (no structure; aligned only vs 1J3KAB, 2BL9A did not work) #=GS DRTS_PLACH WT 0.26231366396 ## DRTS_PLACH Cluster: 1J3KA #=GS Q7RGH7_PLAYO AC Q7RGH7 #=GS Q7RGH7_PLAYO OS Plasmodium berghei yoelii #=GS Q7RGH7_PLAYO OC alveolata #=GS Q7RGH7_PLAYO DE Rodent malaria DHFR section (no structure; aligned vs combo of 1J3KAB, 2BL9A (for repeat section)) ## cut off after end of 1J3KAB alignment #=GS Q7RGH7_PLAYO WT 0.301809459925 ## Q7RGH7_PLAYO Cluster: 1J3KA #=GS Q95US9_PLAGA AC Q95US9 #=GS Q95US9_PLAGA OS Plasmodium gallinaceum #=GS Q95US9_PLAGA OC alveolata #=GS Q95US9_PLAGA DE Avian malaria DHFR section (no structure; aligned vs 1J3KAB; 2BL9A did not work) ## cut off approximately after end of 1J3KAB alignment #=GS Q95US9_PLAGA WT 0.247906669974 ## Q95US9_PLAGA Cluster: 1J3KA #=GS 2BL9A AC Q9U0E8 #=GS 2BL9A OS Plasmodium vivax #=GS 2BL9A OC alveolata #=GS 2BL9A DR PDB; 2bl9 A; #=GS 2BL9A DR PDB; 2blb A; #=GS 2BL9A DE Malaria DHFR section (aligned only vs 1J3KA, 1J3KB; A24E mutation/error corrected) ## 2 other alterations; gg added onto end from DRTS_PLAVI sequence; residues start at 2 #=GS 2BL9A WT 0.185604080558 ## 2BL9A Cluster: 1J3KA #=GS DRTS_PLAVI AC O02604 #=GS DRTS_PLAVI OS Plasmodium vivax #=GS DRTS_PLAVI OC alveolata #=GS DRTS_PLAVI DE Malaria DHFR section (no structure for this variant; aligned to 2BL9A) #=GS DRTS_PLAVI WT 0.1879632622 ## DRTS_PLAVI Cluster: 1J3KA #=GS DRTS_PLAVN AC P46103 #=GS DRTS_PLAVN OS Plasmodium vinckei #=GS DRTS_PLAVN OC alveolata #=GS DRTS_PLAVN DE Rodent malaria DHFR section (no structure; incomplete - aligned to 2BL9A; 1J3KAB did not work) #=GS DRTS_PLAVN WT 0.208032950759 ## DRTS_PLAVN Cluster: 1J3KA #=GS AAV33644 AC Q5EXQ6_9APIC ## source has problems; records seem to claim is from apicoplast/plastid! #=GS AAV33644 DR EMBL; AAV33644; #=GS AAV33644 DR TREMBL; Q5EXQ6; #=GS AAV33644 OS Plasmodium inui #=GS AAV33644 OC alveolata #=GS AAV33644 DE Old World monkey malaria DHFR section (no structure; incomplete - aligned to 2BL9A; 1J3KAB did not work) #=GS AAV33644 WT 0.238653123379 ## AAV33644 Cluster: 1J3KA #=GS AAV33645 AC Q5EXQ5_9APIC ## source has problems; records seem to claim is from apicoplast/plastid! #=GS AAV33645 DR TREMBL; Q5EXQ5; #=GS AAV33645 DR EMBL; AAV33645; #=GS AAV33645 OS Plasmodium cynomolgi #=GS AAV33645 OC alveolata #=GS AAV33645 DE Rhesus macaque malaria DHFR section (no structure; incomplete - aligned to 2BL9A; 1J3KAB did not work) #=GS AAV33645 WT 0.196945384145 ## AAV33645 Cluster: 1J3KA #=GS 1SEJC AC XP_665866 #=GS 1SEJC DR EMBL; AAC47229; #=GS 1SEJC DR PDB; 1SEJ A; #=GS 1SEJC DR PDB; 1SEJ B; #=GS 1SEJC DR PDB; 1SEJ C; #=GS 1SEJC DR PDB; 1SEJ D; #=GS 1SEJC DR PDB; 1SEJ E; #=GS 1SEJC OS Cryptosporidium hominis #=GS 1SEJC OS Cryptosporidium parvum #=GS 1SEJC OC alveolata #=GS 1SEJC DE Cryptosporidium hominis, parvum (variant of latter) DHFR section ## residues start at 2 #=GS 1SEJC WT 0.29452124238 ## 1SEJC Cluster: 1SEJC #=GS 1QZFD AC XP_665866 #=GS 1QZFD DR EMBL; AAC47229; #=GS 1QZFD DR PDB; 1QZF A; #=GS 1QZFD DR PDB; 1QZF B; #=GS 1QZFD DR PDB; 1QZF C; #=GS 1QZFD DR PDB; 1QZF D; #=GS 1QZFD DR PDB; 1QZF E; #=GS 1QZFD OS Cryptosporidium hominis #=GS 1QZFD OS Cryptosporidium parvum #=GS 1QZFD OC alveolata #=GS 1QZFD DE Cryptosporidium hominis, parvum (variant of latter) DHFR section; folate bound to DHFR #=GS 1QZFD WT 0.29452124238 ## 1QZFD Cluster: 1SEJC #=GS AAC47229 AC AAC47229 ## is missing end of TS section - EAK87446 seems to be full version but with alternative start site #=GS AAC47229 DR EMBL; EAK87446; #=GS AAC47229 OS Cryptosporidium parvum #=GS AAC47229 OC alveolata #=GS AAC47229 DE Cryptosporidium parvum (variant 2) DHFR section (no structure for this variant; aligned to 1SEJC) #=GS AAC47229 WT 0.316687703133 ## AAC47229 Cluster: 1SEJC #=GS CAI76538 AC CAI76538 #=GS CAI76538 DR EMBL; CAI76538; #=GS CAI76538 OS Theileria annulata #=GS CAI76538 OC alveolata #=GS CAI76538 DE Theileria annulata DHFR section (no structure; aligned via DHFR.weighted.for.theileria.hmm) #=GS CAI76538 WT 0.444102674723 ## CAI76538 Cluster: 1SEJC #=GS EAN31856 AC EAN31856 #=GS EAN31856 DR EMBL; EAN31856; #=GS EAN31856 OS Theileria parva #=GS EAN31856 OC alveolata #=GS EAN31856 DE Theileria parva DHFR section (no structure; aligned via DHFR.weighted.for.theileria.hmm) #=GS EAN31856 WT 0.460553497076 ## EAN31856 Cluster: 1SEJC #=GS EAR85731 AC EAR85731 #=GS EAR85731 DR EMBL; EAR85731; #=GS EAR85731 OS Tetrahymena thermophila #=GS EAR85731 OC alveolata #=GS EAR85731 DE Tetrahymena thermophila DHFR section (no structure; aligned via DHFR.weighted.for.tetrahymena.hmm) #=GS EAR85731 WT 0.694769382477 ## EAR85731 Cluster: 1SEJC #=GS DRTS_TRYBB AC Q27783 #=GS DRTS_TRYBB DR SWS; Q27783; #=GS DRTS_TRYBB DR EMBL; AAA91362; #=GS DRTS_TRYBB OS Trypanosoma brucei #=GS DRTS_TRYBB OC kinetoplastida #=GS DRTS_TRYBB DE Trypanosoma brucei DHFR section (variant 1; no structure; aligned via DHFR.weighted.for.kinetoplastids.hmm) ## trimmed lsltrilrkkipvhelag at start #=GS DRTS_TRYBB WT 0.265756368637 ## DRTS_TRYBB Cluster: 1SEJC #=GS AAX78868 AC AAX78868 #=GS AAX78868 DR EMBL; AAX78868; #=GS AAX78868 DR EMBL; AAZ12612; ## Also XP_846171 #=GS AAX78868 OS Trypanosoma brucei #=GS AAX78868 OC kinetoplastida #=GS AAX78868 DE Trypanosoma brucei DHFR section (variant 2; no structure; aligned via DHFR.weighted.for.kinetoplastids.hmm) #=GS AAX78868 WT 0.258467018604 ## AAX78868 Cluster: 1SEJC #=GS DRTS_TRYCR AC Q27793 #=GS DRTS_TRYCR DR SWS; Q27793; #=GS DRTS_TRYCR DR TREMBL; Q95NX3; #=GS DRTS_TRYCR DR EMBL; AAB49898; #=GS DRTS_TRYCR DR EMBL; EAN93476; ## Also XP_815327 #=GS DRTS_TRYCR OS Trypanosoma cruzi #=GS DRTS_TRYCR OC kinetoplastida #=GS DRTS_TRYCR DE Trypanosoma cruzi DHFR section (variant 1; no structure; aligned via DHFR.weighted.for.kinetoplastids.hmm) ## trimmed slfkirmpetvae at start #=GS DRTS_TRYCR WT 0.174868986011 ## DRTS_TRYCR Cluster: 1SEJC #=GS AAK71184 AC AAK71184 #=GS AAK71184 DR EMBL; AAK71184; #=GS AAK71184 DR TREMBL; Q95NY4; #=GS AAK71184 OS Trypanosoma cruzi #=GS AAK71184 OC kinetoplastida #=GS AAK71184 DE Trypanosoma cruzi DHFR section (variant 2; no structure; aligned via DHFR.weighted.for.kinetoplastids.hmm) #=GS AAK71184 WT 0.176356047392 ## AAK71184 Cluster: 1SEJC #=GS AAK71177 AC AAK71177 #=GS AAK71177 DR EMBL; AAK71177; #=GS AAK71177 DR TREMBL; Q963S8; #=GS AAK71177 OS Trypanosoma cruzi #=GS AAK71177 OC kinetoplastida #=GS AAK71177 DE Trypanosoma cruzi DHFR section (variant 3; no structure; aligned via DHFR.weighted.for.kinetoplastids.hmm) #=GS AAK71177 WT 0.18199890852 ## AAK71177 Cluster: 1SEJC #=GS Q95NI3_TRYCR AC Q95NI3 #=GS Q95NI3_TRYCR DR TREMBL; Q95NI3; #=GS Q95NI3_TRYCR DR EMBL; AAM18487; #=GS Q95NI3_TRYCR DR EMBL; AAK71159; #=GS Q95NI3_TRYCR DR EMBL; AAK71161; #=GS Q95NI3_TRYCR DR EMBL; AAK71162; #=GS Q95NI3_TRYCR DR EMBL; AAK71163; #=GS Q95NI3_TRYCR DR EMBL; AAK71164; #=GS Q95NI3_TRYCR DR EMBL; AAK71165; #=GS Q95NI3_TRYCR DR EMBL; AAK71174; #=GS Q95NI3_TRYCR DR EMBL; AAK71176; #=GS Q95NI3_TRYCR DR EMBL; AAK71178; #=GS Q95NI3_TRYCR DR EMBL; AAK71180; #=GS Q95NI3_TRYCR DR EMBL; AAK71182; #=GS Q95NI3_TRYCR OS Trypanosoma cruzi #=GS Q95NI3_TRYCR OC kinetoplastida #=GS Q95NI3_TRYCR DE Trypanosoma cruzi DHFR section (variant 4; no structure; aligned via DHFR.weighted.for.kinetoplastids.hmm) #=GS Q95NI3_TRYCR WT 0.175964057446 ## Q95NI3_TRYCR Cluster: 1SEJC #=GS Q95NT2_TRYCR AC Q95NT2 #=GS Q95NT2_TRYCR DR TREMBL; Q95NT2; #=GS Q95NT2_TRYCR DR EMBL; AAK71150; #=GS Q95NT2_TRYCR DR EMBL; AAK71154; #=GS Q95NT2_TRYCR DR TREMBL; Q95NS0; #=GS Q95NT2_TRYCR DR EMBL; AAK71144; #=GS Q95NT2_TRYCR DR EMBL; AAK71145; #=GS Q95NT2_TRYCR DR EMBL; AAK71146; #=GS Q95NT2_TRYCR DR EMBL; AAK71147; #=GS Q95NT2_TRYCR DR EMBL; AAK71148; #=GS Q95NT2_TRYCR DR EMBL; AAK71149; #=GS Q95NT2_TRYCR DR EMBL; AAK71150; #=GS Q95NT2_TRYCR DR EMBL; AAK71151; #=GS Q95NT2_TRYCR DR EMBL; AAK71152; #=GS Q95NT2_TRYCR DR EMBL; AAK71153; #=GS Q95NT2_TRYCR DR EMBL; AAK71155; #=GS Q95NT2_TRYCR DR EMBL; AAK71156; #=GS Q95NT2_TRYCR DR EMBL; AAK71157; #=GS Q95NT2_TRYCR DR EMBL; AAK71158; #=GS Q95NT2_TRYCR DR EMBL; AAK71160; #=GS Q95NT2_TRYCR OS Trypanosoma cruzi #=GS Q95NT2_TRYCR OC kinetoplastida #=GS Q95NT2_TRYCR DE Trypanosoma cruzi DHFR section (variant 5; no structure; aligned via DHFR.weighted.for.kinetoplastids.hmm) #=GS Q95NT2_TRYCR WT 0.175964057446 ## Q95NT2_TRYCR Cluster: 1SEJC #=GS DRTS_LEIAM AC P16126 #=GS DRTS_LEIAM DR SWS; P16126; #=GS DRTS_LEIAM DR EMBL; CAA36020; #=GS DRTS_LEIAM OS Leishmania mexicana #=GS DRTS_LEIAM OC kinetoplastida #=GS DRTS_LEIAM DE Leishmania amazonensis/mexicana DHFR section (no structure; aligned via DHFR.weighted.for.kinetoplastids.hmm) ## sraaakfkipmpvtka removed from start #=GS DRTS_LEIAM WT 0.218506187201 ## DRTS_LEIAM Cluster: 1SEJC #=GS DRTS_LEIMA AC P07382 #=GS DRTS_LEIMA DR SWS; P07382; #=GS DRTS_LEIMA DR EMBL; AAA29232; #=GS DRTS_LEIMA DR EMBL; CAA36019; #=GS DRTS_LEIMA DR EMBL; CAJ02132; #=GS DRTS_LEIMA OS Leishmania tropica major #=GS DRTS_LEIMA OC kinetoplastida #=GS DRTS_LEIMA DE Leishmania tropica major DHFR section (variant 1; no structure; aligned via DHFR.weighted.for.kinetoplastids.hmm) ## sraaarfkipmpetka removed from start #=GS DRTS_LEIMA WT 0.21577231586 ## DRTS_LEIMA Cluster: 1SEJC #=GS AAA29272 AC AAA29272 #=GS AAA29272 DR EMBL; AAA29272; #=GS AAA29272 OS Leishmania tropica major #=GS AAA29272 OC kinetoplastida #=GS AAA29272 DE Leishmania tropica major DHFR section (variant 2; no structure; aligned via DHFR.weighted.for.kinetoplastids.hmm) ## section removed from start #=GS AAA29272 WT 0.259000390768 ## AAA29272 Cluster: 1SEJC #=GS Q8MXB7_LEITR AC Q8MXB7 #=GS Q8MXB7_LEITR DR TREMBL; Q8MXB7; #=GS Q8MXB7_LEITR DR EMBL; AAM88660; #=GS Q8MXB7_LEITR OS Leishmania tropica major #=GS Q8MXB7_LEITR OC kinetoplastida #=GS Q8MXB7_LEITR DE Leishmania tropica major DHFR section (variant 3; no structure; aligned via DHFR.weighted.for.kinetoplastids.hmm) ## section removed from start #=GS Q8MXB7_LEITR WT 0.210551708937 ## Q8MXB7_LEITR Cluster: 1SEJC #=GS Q8MQV1_LEICH AC Q8MQV1 #=GS Q8MQV1_LEICH DR TREMBL; Q8MQV1; #=GS Q8MQV1_LEICH DR TREMBL; Q8MQV3; #=GS Q8MQV1_LEICH DR EMBL; AAM88576; #=GS Q8MQV1_LEICH OS Leishmania donovani chagasi #=GS Q8MQV1_LEICH OC kinetoplastida #=GS Q8MQV1_LEICH DE Leishmania donovani chagasi/infantum DHFR section (no structure; aligned via DHFR.weighted.for.kinetoplastids.hmm) ## section removed from start #=GS Q8MQV1_LEICH WT 0.216405808926 ## Q8MQV1_LEICH Cluster: 1SEJC #=GS DRT1_ARATH AC DRTS1_ARATH #=GS DRT1_ARATH DR SWS; Q05762; #=GS DRT1_ARATH DR SWS; Q9SIW4; #=GS DRT1_ARATH OS Arabidopsis thaliana #=GS DRT1_ARATH OC plant_algae #=GS DRT1_ARATH DE Arabidopsis thaliana DHFR section (no structure; aligned via DHFR.weighted.for.plant_algae.hmm) ## atttlndsvttt removed from start #=GS DRT1_ARATH WT 0.260127425194 ## DRT1_ARATH Cluster: 1SEJC #=GS DRTS_SOYBN AC P51820 #=GS DRTS_SOYBN DR SWS; P51820; #=GS DRTS_SOYBN OS Glycine max #=GS DRTS_SOYBN OC plant_algae #=GS DRTS_SOYBN DE Soybean (Glycine max) DHFR section (no structure; aligned via DHFR.weighted.for.plant_algae.hmm) ## psdssvisnghsngsvnp removed from start #=GS DRTS_SOYBN WT 0.312266200781 ## DRTS_SOYBN Cluster: 1SEJC #=GS Q2R481_ORYSA AC Q2R481 #=GS Q2R481_ORYSA DR TREMBL; Q2R481; #=GS Q2R481_ORYSA OS Oryza sativa #=GS Q2R481_ORYSA OC plant_algae #=GS Q2R481_ORYSA DE Rice (Oryza sativa) DHFR section (no structure; aligned via DHFR.weighted.for.plant_algae.hmm) ## attlsngv removed from start #=GS Q2R481_ORYSA WT 0.284552335739 ## Q2R481_ORYSA Cluster: 1SEJC #=GS DRTS_MAIZE AC O81395 #=GS DRTS_MAIZE DR SWS; O81395; #=GS DRTS_MAIZE OS Zea mays #=GS DRTS_MAIZE OC plant_algae #=GS DRTS_MAIZE DE Zea mays DHFR section (no structure; aligned via DHFR.weighted.for.plant_algae.hmm) ## aavlangd removed from start #=GS DRTS_MAIZE WT 0.296936362982 ## DRTS_MAIZE Cluster: 1SEJC ## Pfam seq_cons in use: o:ST; l:ILV; -:DE; requiring 4/5 consensus between ## 1U70A, 1U72A, 8DFR0, 1J3K or 2BL9A, 1SEJ ## Unless noted otherwise, SS is from PDB file in question. Phi/Psi is ## (very rough!) estimate of SS from phi/psi angles, with NP (Non-Pro) being ## residues that are distinctly not capable (from phi/psi) of being Pro ## (both that residue and the one before it are outside the range from ## the Richardsons' data for phi/psi for pro and pre-pro, respectively) and ## GR (Gly-Req) being ones with phi/psi such that the Richardsons' data says ## nothing except Gly fits. For 1J3KAB, this is a consensus of 2 out of 3 ## of 1J3KA, 1J3KB, 2BL9A. [I need to redo these for 1J3KAB et al, and ## also have in 1PD8A]. Programs: check.gly.dang.pl, check.pro.dang.pl. ## Unless noted otherwise, SA is from proportion of Dr. Kahn's surface area ## numbers that get from: ## A. running reduce -build -Density100 on the PDBfile ## B. fgrep -v HETATM on the result ## C. probe -Unformated -Density100 -NOSpike -ASurface on the result ## D. sorting the result (sort -k2n) ## E. running interpret.probe.pl ## S2 is a version of this in which fully-buried (no dots from probe, so theoretically < 0.01) ## areas are indicated as 'B' and fully-exposed (more exposure than for Kahn's numbers) ## are indicated as 'E'. ## Hydrophobic: ## http://www.proteinscience.org/cgi/content/full/15/1/102 ## hydrophobic1: Ala, Ile, Leu, Met, Phe, Pro, Trp, Tyr, Val; ## hydrophobic2: Cys, Ile, Leu, Met, Phe, and Val ## compromise: ILMVFW ## ?: AYC (to | if have + on both sides) ## hydrophilic: all others (pro counted due to frequency in turns/kinks) ## Places to further look at are marked with '!!!' ## First section (59 pos) 1U70A ............VR.PLNCIVAVS.q..n................MGIGKNGDLPWP.p #=GR 1U70A SS ............CC.CEEEEEEEE.C..C................CCCCCCCC-CCC.C ## Phi/Psi: ............XC.EEEEEEEEC.C..C................CEEEELC1EHEE.E #=GR 1U70A LI .....................*.........................*........... #=GR 1U70A NP ............X.............................................. #=GR 1U70A GR ............X...................................G..G....... #=GR 1U70A SA ............38.200000100.5..3................200127743103.6 ## Hydrophobic: ............+-.-+-?++|+-.-..-................+-+-----+-+-.- DYR_RAT ............VR.PLNCIVAVS.q..n................MGIGKNGDLPWP.l DYR_MESAU ............VR.PLNCIVAVS.q..n................MGIGKNGDLPWP.m Q78EH1_9RODE ............VR.PLNCIVAVS.q..n................MGIGKNGDFPWP.m ## 26 1U72A ............VG.SLNCIVAVS.q..n................MGIGKNGDLPWP.p #=GR 1U72A SS ............CC.CEEEEEEEE.C..C................CCCCCCCCCCCC.C ## Phi/Psi: ............XG.EEEEEEEEE.G..G................LECEECL1EGEE.E #=GR 1U72A NP ............X................................*..*.......... #=GR 1U72A GR ............X.............................................. #=GR 1U72A LI ...................**...............................**.*... #=GR 1U72A AS ........................................................... #=GR 1U72A SA ............45.310000100.6..3................201027353003.4 ## Hydrophobic: ............+-.-+-?++|+-.-..-................+-+-----+-+-.- 1PD8A ............VG.SLNCIVAVS.q..n................MGIGKNGDLPWP.p #=GR 1PD8A SS ............CC.CEEEEEEEC.C..C................CEEECCCCCCCC.C #=GR 1PD8A GR ............X.............................................. #=GR 1PD8A SA ............44.310000100.5..3................201028252003.4 ## Hydrophobic: ............+-.-+-?++|+-.-..-................+-+-----+-+-.- 1DHFB ............VG.SLNCIVAVS.q..n................MGIGKNGDLPWP.p #=GR 1DHFB LI ...................**...............................**.*... #=GR 1DHFB AS ........................................................... ## 1DHFA SA ............XX.X20000100.4..3................2X1127663103.5 #=GR 1DHFB SA ............XX.X20000100.5..3................201027453103.5 #=GR 1DHFB S2 ............XX.X20000100.5..3................2B1027453103.5 XP_001110551 ............VS.SLNCIVAVS.q..n................MGIGKNGDLPWP.p XP_001134992 ............VG.SLNCIVAVS.q..n................MGIGKNGDLPWP.p XP_851329 ...gp..qp...WC.TLNCIVAVS.q..n................LGIGRNGDLPWP.p XP_536308 ............--.---------.--.-................------------.. DYR_PIG ............VR.PLNCIVAVS.q..n................MGIGKNGDLPWP.p DYR_BOVIN ............VR.PLNCIVAVS.q..n................MGIGKNGDLPWP.p P00376 ............VR.PLNCIVAVS.q..n................MGIGKNGDLPWP.p Q29RI1_BOVIN ............VR.PLNCIVAVS.q..n................MGIGKNGNLPWP.p PLACENT ............VR.SLNCIVAVS.q..n................MGIGKNGDLPWP.p #=GR PLACENT SA ............35.100000000.5..2................100036352104.4 ## SA is compromise between nonrot.full2, mmtp.full ## POSS1: ............VR.SLNCIVAVS.Q..N................MGIGKNGDLPWP.P ##nonrot.full2 ............36.10BBB00BB.5..2................1B0037352104.4 ##mmtp.full ............35.11BBB00BB.5..2................1B0046352104.2 ##mmtp.fullSS ............XC.CEEEEEEEE.G..G................LEGECCCEEHEC.C ## POSS2: ............VR.SLNCIVAVS.Q..N................MGIGKNGDLPWP.P XP_001363618 ............VR.QLNCIAAVS.k..n................MGIGKDGDLPWP.l ## 8DFR0 ............VR.SLNSIVAVC.q..n................MGIGKDGNLPWP.p #=GR 8DFR0 SS ............CC.CEEEEEEET.T..T................TCCCCCCIIIII.I ## Phi/Psi: ............XH.EEEEEEEE1.H..G................LECEELL1EHEE.E ## I is actually left-handed polyproline helix! Possible that ## is also in 1U70A (note mutation, however), 1U72A but is not marked... ## _is_ noted as being such in 1DHF (also human) #=GR 8DFR0 NP ............X................................*..*.......... #=GR 8DFR0 GR ............X......................................G....... #=GR 8DFR0 SA ............26.200000100.5..3................201127364106.8 ## Hydrophobic: ............+-.-+--++|+?.-..-................+-+-----+-+-.- 1DR10 ............VR.SLNSIVAVC.q..n................MGIGKDGNLPWP.p #=GR 1DR10 SS ............CC.CEEEEEEET.T..T................TCCCCCCIIIII.I #=GR 1DR10 LI ............X........*.........................*...*.*.*... ## Phi/Psi: ............XH.EEEEEEEE1.H..G................LECEELL1EGEE.E #=GR 1DR10 GR ............X......................................G....... #=GR 1DR10 SA ............33.300000100.5..3................200027464106.8 ## Hydrophobic: ............+-.-+--++|+?.-..-................+-+-----+-+-.- AGA ............VR.SLNCIVAVC.q..n................MGIGKDGNLPWP.p #=GR AGA SA ............25.100000000.4..2................100147452105.4 ## AGfullSA2 ............25.100B000BB.4..2................1B0147452105.4 ## AGfull2SA2 ............25.100B000BB.4..2................1B0146452105.4 ## AG: ............VR.SLNCIVAVC.Q..N................MGIGKDGNLPWP.P ## AI: ............VR.SLNCIVAVC.Q..N................MGIGKDGNLPWP.P ## PG: ............VR.SLNCIVAVC.Q..N................MGIGKDGNLPWP.P PGV ............VR.SLNCIVAVC.q..n................MGIGKDGNLPWP.p #=GR PGV SA ............36.200000000.4..2................100027262104.5 ## PGVYSfullSA2 ............36.20BB000BB.4..2................1B0027262104.5 ## PGVYSfull2S2 ............36.200B000BB.4..2................1B0027262104.5 ## PI: ............VR.SLNCIVAVC.Q..N................MGIGKDGNLPWP.P Q5U543_XENLA r........n..-Q.FLHAVVAVCpp..n................QGIGKGGSLPWP.l ENSXETP49617 r........n..-P.FLHAVVAVCpp..n................QGIGKEGSLPWP.l AAK01951 .........s..-E.ILNCIVAVCp...d................MGIGKNGNLPWH.p CAM14042 .........s..-R.ILNCIVAVCp...d................MGIGKNGNLPWH.p NP_571850 .........s..-R.ILNCIVAVCp...d................MGIGKNGNLPWH.p XP_001176553 ........ae..-Kk-LNLIAAAC.t..sk..g.k..........MGIGINGNLPWR.. ## EED: ............-R.-LNLIVAVCte..n................MGIGKNGNLPWR.. ## EEK: ............-R.-LNLIVAVCte..n................MGIGKNGNLPWR.. ## KED: ............-R.-LNLIVAVCte..n................MGIGKNGNLPWR.. ## KEK: ............-R.-LNLIVAVCte..n................MGIGKNGNLPWR.. ## K_D: ............-R.-LNLIVAVCte..n................MGIGKNGNLPWR.. ## K_K: ............-R.-LNLIVAVCte..n................MGIGKNGNLPWR.. ## ^ have distinct doubts about this insertion! Removing, from modeling results... ## _EED: ............-R.-LNLIVAVC.e..n................MGIGKNGNLPWR.. ## _E_SKFED: ............-R.-LNLIVAVC.e..n................MGIGKNGNLPWR.. ## _E_GKFED: ............-R.-LNLIVAVC.e..n................MGIGKNGNLPWR.. ## _EE_D: ............-R.-LNLIVAVC.e..n................MGIGKNGNLPWR.. ## _EAED: ............-R.-LNLIVAVC.e..n................MGIGKNGNLPWR.. ## _EASKFED: ............-R.-LNLIVAVC.e..n................MGIGKNGNLPWR.. ## _EAGKFED: ............-R.-LNLIVAVC.e..n................MGIGKNGNLPWR.. ## _E_EDQ: ............-R.-LNLIVAVC.e..n................MGIGKNGNLPWR.. ES ............-R.-LNLIVAVC.e..n................MGIGKNGNLPWR.. #=GR ES SA ............-6.-00000000.5..3................100148363106.. ## S2: ............-6.-00BB0000.5..3................1B0148363106.. ## SA for ES is composite of _E_SKFEDQ.full.new.reduce3.ent, ## _E_SKFEDQ.full2.new.reduce3.ent, ## _E_SKFEDQ.loop.13-27.full.new.reduce3.ent ## _E_GKFEDQ: ............-R.-LNLIVAVC.e..n................MGIGKNGNLPWR.. ## _EAEDQ: ............-R.-LNLIVAVC.e..n................MGIGKNGNLPWR.. ## _EASKFEDQ: ............-R.-LNLIVAVC.e..n................MGIGKNGNLPWR.. ## _EAGKFEDQ: ............-R.-LNLIVAVC.e..n................MGIGKNGNLPWR.. ## _EEK: ............-R.-LNLIVAVC.e..n................MGIGKNGNLPWR.. ## _KED: ............-R.-LNLIVAVC.e..n................MGIGKNGNLPWR.. ## _KE_D: ............-R.-LNLIVAVC.e..n................MGIGKNGNLPWR.. ## _KAED: ............-R.-LNLIVAVC.e..n................MGIGKNGNLPWR.. ## _KAEDQ: ............-R.-LNLIVAVC.e..n................MGIGKNGNLPWR.. ## _KASKFED: ............-R.-LNLIVAVC.e..n................MGIGKNGNLPWR.. ## _KASKFEDQ: ............-R.-LNLIVAVC.e..n................MGIGKNGNLPWR.. ## _KAGKFED: ............-R.-LNLIVAVC.e..n................MGIGKNGNLPWR.. KAG ............-R.-LNLIVAVC.e..n................MGIGKNGNLPWR.. #=GR KAG SA ............-6.-10000100.4..3................101147563106.. ## S2: .............6.-10B001BB.4..3................1B1147563106.. ## SA for KAG is composite of _KAGKFEDQ.full.new.reduce3.ent ## _KAGKFEDQ.full2.new.reduce3.ent ## _KAGKFEDQ.loop.13-27.full2.new.reduce3.ent ## _KEK: ............-R.-LNLIVAVC.e..n................MGIGKNGNLPWR.. ## _K_D: ............-R.-LNLIVAVC.e..n................MGIGKNGNLPWR.. ## _K_K: ............-R.-LNLIVAVC.e..n................MGIGKNGNLPWR.. XP_973338 .....v......IK.-FDLIAAAC.e..n................MGIGKNNDLPWR.. EAL28532 ............LR.-FNLIVAVS.e..n................FGIGLKGDLPWR.. DYR_DROME ............LR.-FNLIVAVC.e..n................FGIGIRGDLPWR.. AAA19051 ............LR.-FNLIVAVC.e..n................FGIGIRGDLPWR.. XP_393902 ............--.NLHLIAATC.e......g............MGIGIKGTLPWK.. Q7Q0L5_ANOGA .........s..-Kk-FSCIVAVC.e..n................RGIGINGDLPWK.. DYR_CAEEL_1 r.....k.....M-.N--LIVAMDae......g............-GIGKNGVLPWR.. Q61DT5_CAEBR_1 r.....k.....M-.N--MIVAMDte......g............-GIGKNGVLPWR.. DYR_CAEEL_2 ............-Rk-MNLIVAMD.a..e................GGIGKNGVLPWR.. Q61DT5_CAEBR_2 ............-Rk-MNMIVAMD.t..e................GGIGKNGVLPWR.. ## ## 1100_SVFQ .........s..-R.-FTLVVAVT.K..S................MGIGKNGGLPWR.. ## 1111_GTF .........s..-R.-FTLVVAVT.k..s................MGIGKNGGLPWR.. ## 1111_GVF .........s..-R.-FTLVVAVT.K..S................MGIGKNGGLPWR.. 1111_STF .........s..-R.-FTLVVAVT.k..s................MGIGKNGGLPWR.. ## 1111_SVF .........s..-R.-FTLVVAVT.K..S................MGIGKNGGLPWR.. ## in doing models, ^ ^ was actually second of these, not first !!! ## 1111_chars2 .........s..-R.-LTLIVAVT.K..N................MGIGKNGGLPWR.. ## AAQ02615_1 .........ng.-F.--ALVVAVT.k..t................MGIGNKGGLPWS.s AAQ02617_1 .........ng.-F.--ALVVAVT.k..t................MGIGNKGGLPWS.s AAQ02619_1 .........ng.-F.--ALVVAVT.k..t................MGIGNKGGLPWS.s AAQ02621_1 .........ng.-F.--ALVVAVT.k..t................MGIGNKGGLPWS.s AAQ02615_2 .........n..-G.-FALVVAVT.k..t................MGIGNKGGLPWS.s AAQ02617_2 .........n..-G.-FALVVAVT.k..t................MGIGNKGGLPWS.s AAQ02619_2 .........n..-G.-FALVVAVT.k..t................MGIGNKGGLPWS.s AAQ02621_2 .........n..-G.-FALVVAVT.k..t................MGIGNKGGLPWS.s DYR_ENCCU_1 ............--.-LALVVALAs...h................RGIGNANALPWPrp DYR_ENCCU_2 ............--.-LALVVALA.s..h................RGIGNANALPWPrp EAK84413 ..........gkLK.-LVMVAAMS..l.t................NGIGKDGGLPWR.. BAC75955 .........s..-R.-LTIIVAAT.k..a................NGIGKGSNLPWR.. DYR_CRYNE qtta..k.ss..TP.SITAVVAAT..a.e................NGIGLNGGLPWR.. # # 10100_chars2 .........Sg.VPkSLTLIVAVT.kl.s................LGIGKKGGLPWR.. # 10101_chars2 .........Sg.VPkSLTLIVAVT.kl.s................LGIGKKGGLPWR.. # 10110_chars2 .........Sg.VPkSLTLIVAVT.kl.s................LGIGKKGGLPWR.. # 10111_chars2 .........Sg.VPkSLTLIVAVT.kl.s................LGIGKKGGLPWR.. # 11100_chars2 .........Sg.VPkSLTLIVAVT.kl.s................LGIGKKGGLPWR.. # 11101_chars2 .........Sg.VPkSLTLIVAVT.kl.s................LGIGKKGGLPWR.. # 11110_chars2 .........Sg.VPkSLTLIVAVT.kl.s................LGIGKKGGLPWR.. # 11111_chars2 .........Sg.VPkSLTLIVAVT.kl.s................LGIGKKGGLPWR.. # ^^ I doubt both of these are present (!!!); however, might help make room for C. albicans seq # # 0010_KD .........Sgv.PksLTLIVAVT.Kl.S................LGIGLKNDLPWR.. # 0010_KP .........Sgv.PksLTLIVAVT.Kl.S................LGIGLKNDLPWR.. # 0010_QD .........Sgv.PksLTLIVAVT.Kl.S................LGIGLKNDLPWR.. # 0010_QP .........Sgv.PksLTLIVAVT.Kl.S................LGIGLKNDLPWR.. # 0011_KD .........Sgv.PksLTLIVAAT.Kl.S................LGIGKKGGLPWR.. # 0011_KP .........Sgv.PksLTLIVAAT.Kl.S................LGIGKKGGLPWR.. # 0011_QD .........Sgv.PksLTLIVAAT.Kl.S................LGIGKKGGLPWR.. # 0011_QP .........Sgv.PksLTLIVAAT.Kl.S................LGIGKKGGLPWR.. # DYR_SCHPO_1 .fsaptkept.kHPrDLTMIVAVSsp..n................LGIGKKNSMPWH.. DYR_SCHPO_2 .fsaptkept.kHPrDLTMIVAVS.s..p.....n..........LGIGKKNSMPWH.. DYR_PNECA .........n..QQkSLTLIVALT.t..s................YGIGRSNSLPWK.. AAF14071 .........d..WQkSLTLIVALT..l.s................RGIGLKNDLPWK.. AAL25720 ............--.---LIVALT..v.s................CGIGKGNALPWR.. AAT99406 .........d..WQkSLTLIVALT..l.s................RGIGLKNDLPWK.. AAT99411 .........d..WQkSLTLIVALT..l.s................RGIGLKNDLPWK.. AAT99412 .........d..WQkSLTLIVALT..l.s................RGIGLKNDLPWK.. AAT99413 .........d..WQkSLTLIVALT..l.s................RGIGLKNDLPWK.. AAT99417 .........d..WQkSLTLIVALT..l.s................RGIGLKNDLPWK.. ABB84704 .........d..WQkSLTLIVALT..l.s................RGIGSKNDLPWK.. ABB84712 .........d..WQkSLTLIVALT..l.s................RGIGLKNDLPWK.. ABB84716 .........d..WQkSLTLIVALT..l.s................RGIGLKNDLPWK.. ABB84718 ..........g.WQkSLTLIVALT..l.s................RGIGLKNDLPWK.. ABB84720 .........d..WQkSLTLIVALT..l.s................RGIGLKNDLPWK.. ABB84722 .........d..WQkSLTLIVALT..l.s................RGIGLKNDLPWK.. ABB84726 .........d..WQkSLTLIVALT..l.s................RGIGLKNDLPWK.. ABB84744 .........d..WQkSLTLIVALT..l.p................RGIGLKNDLPWK.. ABB84751 .........d..WQkSLTLIVALT..l.s................RGIGLKNDLPWK.. ABF06467 .........d..WQkSLTLIVAST..l.s................RGIGLKNDLPWK.. ABF06468 .........d..WQkSLTLIVALT..l.s................RGIGLKSDLPWK.. ABF06469 .........d..WQkSLTLIVALT..l.s................RGIGLKNDLPWK.. ABF06470 .........d..WQkSLTLIVALT..l.s................RGIGLKNDLPWK.. Q6CC38_YARLI_1 ............-PpSTTLILAAT..v.p...............rYGIGLNGGLPWR.. Q6CC38_YARLI_2 ............PP.STTLILAAT..v.p.....r..........YGIGLNGGLPWR.. ## ^^ hrm... !!! CAG60823_1 .........s.kVP.-VVGIVAAL..l.p...............eMGIGFQGNLPWR.. CAG60823_2 .........s.kVP.-VVGIVAAL..l.p.....e..........MGIGFQGNLPWR.. AAS51350_1 .......gis.rVP.-VVSIVACL..l.p...............eYGIGYQGQLPWR.. AAS51350_2 .......gis.rVP.-VVSIVACL..l.p.....e..........YGIGYQGQLPWR.. DYR_YEAST_1 ...a...g..gkIP.-IVGIVACL.q..p.....e..........MGIGFRGGLPWR.. DYR_YEAST_2 ...a....g.gkIP.-IVGIVACL..........q.....p...eMGIGFRGGLPWR.. EDN63566_1 ...a...g..gkIP.-IVGIVACL.q..p.....e..........MGIGFRGGLPWR.. EDN63566_2 ...a....g.gkIP.-IVGIVACL..........q.....p...eMGIGFRGGLPWR.. CAA68779_1 ...a...g..gkIP.-IVGIVACL.q..p.....e..........MGIGFRGGVPWR.. CAA68779_2 ...a....g.gkIP.-IVGIVACL..........q.....p...eMGIGFRGGVPWR.. CAG86485_1 .taa...ngkvtPP.-IAMIVAAL..l.p.....e..........LGIGIKGKMPWR.. CAG86485_2 .t.a....angkVTpPIAMIVAAL..l.p...............eLGIGIKGKMPWR.. ABN65593_1 ........sei.KP.TIAIIVAAL.k..p.....d..........LAIGFQGKMPWR.. ABN65593_2 .........s.eIKpTIAIIVAAL..........k.....p...dLAIGFQGKMPWR.. ## ^ not G?!? DYR_CANAL_1 .........s..KP.NVAIIVAAL..k.p...............aLGIGYKGKMPWR.. DYR_CANAL_2 .........s..KP.NVAIIVAAL.k..p...............aLGIGYKGKMPWR.. ## 1J3KA .meq.v..cd..VF.DIYAICACC.kveskneg.kknevfnnytfRGLGNKGVLPWK.c #=GR 1J3KA SS .CCH.H..HH..HH.CEEEEEEEE.EECCCCCG.GGGGCCGGGCEEEEECCCCCCCC.C ## Phi/Psi: .ECC.C..CC..HG.CEEEEEEE1.EECCCCCC.GGCEEECGGHECCCEELL1EHEC.C ## ?Cap Ib?: ^ #=GR 1J3KA SA .844.2..03..00.000000100.21345886.39837564311100017554109.4 ## Hydrophobic: .+--..+.?-..++.-+??+????.-+------.----++--?-+--+----++-+-.? #=GR 1J3KA LI ...................***.........................*...***.*... 1J3KB .meq.v..cd..VF.DIYAICACC.kveskneg.kknevfnnytfRGLGNKGVLPWK.c #=GR 1J3KB SS .CCH.H..HH..HH.CEEEEEEEE.EECCCCCC.CCCCCCGGGCEEEEECCCCCCCC.C ## Phi/Psi: .GCC.C..GG..HG.CEEEE1EE1.EECGLLCE.1CCCEEEGGHCCCCEECG1EGEC.C ## ?Cap Ib?: ^ #=GR 1J3KB SA .943.1..03..00.000000100.21366975.88867563301200017554109.4 ## Hydrophobic: .+--.+..?-..++.-+??+????.-+------.----++--?-+--+----++-+-.? #=GR 1J3KB LI ...................***.........................*...***.*... ## Non-Pro: ...............*..............*.................*.......... ## Gly-Req: ................................G.......................... 1J3IA .meq.v..cd..VF.DIYAICACC.kveskneg.kknevfnnytfRGLGNKGVLPWK.c #=GR 1J3IA SA .735.1..04..00.000000100.21478394.78938553311200117543008.5 #=GR 1J3IA S2 .735.1..04..00.0B00001BB.21478394.789385533112B0117543008.5 1J3IB .meq.v..cd..VF.DIYAICACC.kveskneg.kknevfnnytfRGLGNKGVLPWK.c #=GR 1J3IB SA .925.2..03..00.000000100.21569784.97866554311200017543008.5 #=GR 1J3IB S2 .E25.2..03..B0.0B00001BB.21569784.978665543112B0017543008.5 DRTS_PLACH .med.i..se..IF.DIYAICACC.kvlnsne...kagcfsnktfKGLGNEGGLPWK.c Q7RGH7_PLAYO .med.l..se..IF.DIYAICACC.kvinnne...ksgsfnnktfNGLGNAGMLPWK.y Q95US9_PLAGA .mne.i..sd..IF.DIHAICACC.kvenkne.kkkneifsnntfRGIGNKGVLPWK.s ## 50 2BL9A ..en.l..sd..VF.DIYAICACC.kvaptsegtknepfsp.rtfRGLGNKGTLPWK.c #=GR 2BL9A SS ..CH.H..HH..HH.CEEEEEEEE.EECCCC-CCCCCCCCC.CCCCEEECCCCCCCC.C ## Phi/Psi: ..XE.H..HC..GG.CEEEECEE1.EEEEEGECGGECGGCG.EHCCEGEELL1EHEE.C #=GR 2BL9A LI ...................***.........................***.***..... ## Non-Pro: ..X............*...............-................*.......... ## Gly-Req: ..X.............................G.......................... #=GR 2BL9A SA ..72.2..02..00.000000100.2117596796345818.541100117655108.6 ## Hydrophobic: ..--.+..--..++.-+??+????.-+?----------+--.--+--+-----+-+-.? ## ?Cap Ib?: ^ DRTS_PLAVI ..ed.l..sd..VF.DIYAICACC.kvaptsegtknepfsp.rtfRGLGNKGTLPWK.c DRTS_PLAVN ............--.---AICACC.kvlnsne..kascfsn.ktfKGLGNAGGLPWK.c AAV33644 ............--.----ICACC.kvdppsegiknepfgp.rtfRGLGNNGTLPWK.c AAV33645 ............--.----ICACC.kvspsnegiknepfss.rtfRGLGNNGNLPWK.g ## 1SEJC ........se..-K.NVSIVVAAS..vls................SGIGINGQLPW-.s #=GR 1SEJC SS ........XC..-C.EEEEEEEEE..CCC................CEEECCCCCCC-.C ## Phi/Psi: ........XX..-E.EEEEEEEEC..CCG................LECEECEEEGC-.E #=GR 1SEJC LI ...................*.*.........................*.....*..... #=GR 1SEJC NP ........XX...................................*..*......*... #=GR 1SEJC GR ........XX................................................. #=GR 1SEJC SA ........X9..-1.200000100..144................10001766400-.5 ## Hydrophobic: ........--...-.-+-+++??-..++-................--+-+---+-+..- ## ?Cap IIb?: ^ ^ 1QZFD ........se..-K.NVSIVVAAS..vls................SGIGINGQLPW-.s #=GR 1QZFD SA ........X9..-1.200000100..144................10011766410-.5 #=GR 1QZFD S2 ........X9..-1.200B00100..144................1B011766410-.5 AAC47229 ........sk..-K.NVSIVVAAS..vls................RGIGINGQLPW-.s ## 28 CAI76538 .sed.y..sg..LP.FVKILVAITpe...................NGIGIKNGLPWP.h EAN31856 .aed.y..sg..LP.FVKLLVAITpe...................NGIGISNGLPWP.h EAR85731 .........k..TR.HFDIVLAQTlk..k................QGIGYKNSLPWR.. DRTS_TRYBB ..k..i..srppLR.PFSVVVASD.e..k................GGIGDGGTIPWE.. AAX78868 ..k..i..srppLR.PFSVVVASD.e..k................GGIGDGGTIPWE.. DRTS_TRYCR .g......trlaLR.AFSLVVAVD.e..h................GGIGDGRSIPWN.. AAK71184 .g......trlaLR.AFSLIVAVD.e..h................GGIGDGRSIPWN.. AAK71177 .g......trlaLR.AFSLVVAVD.e..h................GGIGDGRSIPWN.. Q95NI3_TRYCR .g......trlaLR.AFSLVVAVD.e..h................GGIGDGRSIPWN.. Q95NT2_TRYCR .g......trlaLR.AFSLVVAVD.e..r................GGIGDGRSIPWN.. DRTS_LEIAM df.a.f.ps...LR.AFSIVVALD.k..q................HGIGDGESIPWR.. DRTS_LEIMA df.a.f.ps...LR.AFSIVVALDmq...................HGIGDGESIPWR.. AAA29272 df.a.f.ps...LR.AFCIVVALDmq...................HGIGDGESIPWR.. Q8MXB7_LEITR df.a.f.ps...LR.AFSIVVALD.k..q................HGIGDGESIPWR.. Q8MQV1_LEICH df.a.f.ps...LR.AFSIVVALD.k..q................HGIGDGESIPWR.. DRT1_ARATH .las..ep.q..-R.TYQVVVAAT.k..e................MGIGKDGKLPWN.. DRTS_SOYBN .lpn.l...q..-R.TYQVVVAAT.q..d................WGIGKDGKLPWR.. Q2R481_ORYSA s.qng..p.q..-R.NYQVVVAAT.r..d................MGIGKDGVLPWK.. DRTS_MAIZE s..qg.rp.q..-R.NYQVVVAGT.r..d................MGIGKDGVLPWK.. #=GC RF ............XX.XXXXXXXXX.....................XXXXXXXXXXXX.. #=GC SS_cons ............CC.CEEEEEEEE.CE.C...C............----CCCIIIII.I #=GC seq_cons ............l...l..lVA...QV.N...G.............GlG..G.LPW.RP #=GC LI_cons .....................*.........................*.....*.*... ## Ala9: also from 1YHO (NMR) paper ## Note prosite pattern [LVAGC][LIF]G....[LIVMF]PW.....?[DE]...[FYIV]...[STIQ] ## (PS00075), with W in PW interacting w/substrate; from Huang et al, ## Biochemistry 1989, 28, 471-478. ## Ile-7 interacts with MTX; may not be conserved in C. albicans - see ## Biochemistry 1991, 30, 8124 - however, is H-bond, so seems unlikely ## to be altered by altering residue (unless goes to Pro!); original albicans ## paper thinks is present with alignment to rest. #=GC AS_cons .....................................................*..... ## L22 as part of active site mechanism: Faraday Discuss 1992, 93, 217-224; ## Exploring the Molecular Mechanism of Dihydrofolate Reductase; ## Brown, Kraut <- but may need to check on mutation results! #=GC SA_cons ............X8.200000100.51..................200027554106.6 ## Seq_cons2 xxxxxxxxxx..VxxXLNXIXAXCxQVxNxxxGxxxxxxxxxxxxXGIGXNGNLPWXrp ## Hydrophobic: ............+...+-.+.?...-+.-.................-+-.---+-+.-- ## Second section (26 pos; 85 total) 1U70A LR..NEFKYFQRMTT...TS.S.vE. #=GR 1U70A SS HH..HHHHHHHHHHH...HC.C.CC. ## Phi/Psi: EH..HHHHHHHHHGG...EE.G.EE. #=GR 1U70A LI .......................... #=GR 1U70A NP .......................*.. #=GR 1U70A GR .......................... #=GR 1U70A SA 06..30350143002...51.7.48. ## Hydrophobic: +-..--+-?+--+--...--.-.+-. DYR_RAT LR..NEFKYFQRMTT...TS.S.vE. DYR_MESAU LR..NEFKYFQRMTT...TS.S.vE. Q78EH1_9RODE LR..NEFKYFQRMTT...TS.S.vE. ## 44 1U72A LR..NEFRYFQRMTT...TS.S.vE. #=GR 1U72A SS HH..HHHHHHHHHHH...HC.C.TT. ## 43-46 tight turn by 1DR1 paper ## Phi/Psi: EG..GHHCCCHHHGG...EE.G.EE. #=GR 1U72A NP .......................... #=GR 1U72A GR .......................... #=GR 1U72A LI .*...**..*................ #=GR 1U72A AS .....*.................... ## Helix terminator: ^^ ^ #=GR 1U72A SA 06..40460133002...52.7.39. ## Hydrophobic: +-..--+-?+--+--...--.-.+-. 1PD8A LR..NEFRYFQRMTT...TS.S.vE. #=GR 1PD8A SS HH..HHHHHHHHHHH...HC.C.TT. #=GR 1PD8A GR .......................... #=GR 1PD8A SA 04..40360133003...52.6.49. ## Hydrophobic: +-..--+-?+--+--...--.-.+-. 1DHFB LR..NEFRYFQRMTT...TS.S.vE. #=GR 1DHFB LI .*...**..*................ #=GR 1DHFB AS .....*.................... ## 1DHFA SA X7..303302430X2...52.6.49. #=GR 1DHFB SA 06..30450143002...52.7.49. #=GR 1DHFB S2 06..304501430B2...52.7.49. XP_001110551 LR..NEFRYFQRMTT...TS.S.vE. XP_001134992 LR..NEFRYFQRMTT...TS.S.vE. XP_851329 LR..NEFKCFQRMTT...NS.S.vE. XP_536308 --..-----------...TS.-..Et DYR_PIG LR..NEYKYFQRMTT...TS.S.vE. DYR_BOVIN LR..NEFQYFQRMTT...VS.S.vE. P00376 LR..NEFQYFQRMTT...VS.S.vE. Q29RI1_BOVIN LR..NEFQYFQRMTT...VS.S.vE. PLACENT LR..NEFKYFQRMTT...TS.S.vE. #=GR PLACENT SA 06..30350133002...40.6.56. ## POSS1: LR..NEFKYFQRMTT...TS.S.VE. ##nonrot.full2 06..30350133002...40.6.56. ##mmtp.full 05..30350133002...40.6.56. ##mmtp.fullSS EH..HCCCCCCCHHH...EE.G.CC. ## POSS2: LR..NEFKYFQRMTT...TS.S.VE. XP_001363618 LR..NEFKYFQKMTT...TP.S.vE. ## 8DFR0 LR..NEYKYFQRMTS...TS.H.vE. #=GR 8DFR0 SS HH..HHHHHHHHHHH...HC.C.TT. ## Phi/Psi: EH..HHHHHHHHHHG...EE.G.EE. #=GR 8DFR0 NP .......................... #=GR 8DFR0 GR .......................... #=GR 8DFR0 SA 06..30430124102...42.6.49. ## Hydrophobic: +-..--?-?+--+--...--.-.+- 1DR10 LR..NEYKYFQRMTS...TS.H.vE. #=GR 1DR10 SS HH..HHHHHHHHHHH...HC.C.TT. #=GR 1DR10 LI ......*..*................ ## ^ in 2 conformations in 1DR10 ## Phi/Psi: EC..HHHHHHHHHHG...EE.G.EE. #=GR 1DR10 GR .......................... #=GR 1DR10 SA 05..30830124002...42.6.49. ## Hydrophobic: +-..--?-?+--+--...--.-.+-. AGA LR..NEFKYFQRMTT...TS.S.vE. #=GR AGA SA 05..30350244003...40.6.57. ## AGfullSA2 05..30350244003...40.7.57. ## AGfull2SA2 05..30350244003...40.6.57. ## AG: LR..NEFKYFQRMTT...TS.S.VE. ## AI: LR..NEFKYFQRMTT...TS.S.VE. ## PG: LR..NEFKYFQRMTT...TS.S.VE. PGV LR..NEFKYFQRMTT...TS.S.vE. #=GR PGV SA 06..30450234002...41.6.58. ## PGVYSfullSA2 06..20450234002...41.6.58. ## PGVYSfull2S2 06..30450234002...41.7.58. ## PI: LR..NEFKYFQRMTT...TS.S.VE. Q5U543_XENLA LR..NEFKHFQRLTM...T-pT.vE. ENSXETP49617 LR..NEFKHFQRLTM...T-pT.vE. AAK01951 IRlsNELKHFQKMTM...T-pS..De CAM14042 IRlsNELKHFQKMTM...T-pS..De NP_571850 IRlsNELKHFQKMTM...T-pS..De XP_001176553 LR..QEMAYFERLTK...TA.Qm.E. ## EED: LR..SELKYFERMTK...TS.S..D. ## EEK: LR..SELKYFERMTK...TS.S..D. ## KED: LR..SELKYFKRMTK...TS.S..D. ## KEK: LR..SELKYFKRMTK...TS.S..D. ## K_D: LR..SELKYFKRMTK...TS.S..D. ## K_K: LR..SELKYFKRMTK...TS.S..D. ## _EED: LR..SELKYFERMTK...TS.S..D. ## _E_SKFED: LR..SELKYFERMTK...TS.S..D. ## _E_GKFED: LR..SELKYFERMTK...TS.S..D. ## _EE_D: LR..SELKYFERMTK...TS.S..D. ## _EAED: LR..SELKYFERMTK...TS.S..D. ## _EASKFED: LR..SELKYFERMTK...TS.S..D. ## _EAGKFED: LR..SELKYFERMTK...TS.S..D. ## _E_EDQ: LR..SELKYFERMTK...TS.S..D. ES LR..SELKYFERMTK...TS.S..D. #=GR ES SA 06..20360135003...40.5..9. ## S2: 06..20360135003...40.5..9. ## _E_GKFEDQ: LR..SELKYFERMTK...TS.S..D. ## _EAEDQ: LR..SELKYFERMTK...TS.S..D. ## _EASKFEDQ: LR..SELKYFERMTK...TS.S..D. ## _EAGKFEDQ: LR..SELKYFERMTK...TS.S..D. ## _EEK: LR..SELKYFERMTK...TS.S..D. ## _KED: LR..SELKYFKRMTK...TS.S..D. ## _KE_D: LR..SELKYFKRMTK...TS.S..D. ## _KAED: LR..SELKYFKRMTK...TS.S..D. ## _KAEDQ: LR..SELKYFKRMTK...TS.S..D. ## _KASKFED: LR..SELKYFKRMTK...TS.S..D. ## _KASKFEDQ: LR..SELKYFKRMTK...TS.S..D. ## _KAGKFED: LR..SELKYFKRMTK...TS.S..D. KAG LR..SELKYFKRMTK...TS.S..D. #=GR KAG SA 06..20261145002...31.6..8. ## S2: 06..20261145002...31.6..8. ## _KEK: LR..SELKYFKRMTK...TS.S..D. ## _K_D: LR..SELKYFKRMTK...TS.S..D. ## _K_K: LR..SELKYFKRMTK...TS.S..D. XP_973338 LK..SELAFFSQMTT...QT.S..De EAL28532 LK..SELKYFSRTTK...RT.S..Dp DYR_DROME IK..SELKYFSRTTK...RT.S..Dp AAA19051 IK..SELKYFSRTTK...RT.S..Dp XP_393902 LK..SELAFFTYMTT...NT.K..Np Q7Q0L5_ANOGA LK..QELKYFSHTTK...KV.N..Da DYR_CAEEL_1 IK..KDMQYFASVTK...NV.S..D. Q61DT5_CAEBR_1 IR..KDMQYFAAVTK...KV.S..Dp DYR_CAEEL_2 IK..KDMQYFASVTK...NV.S..D. Q61DT5_CAEBR_2 IR..KDMQYFAAVTK...KV.S..Dp ## ## 1100_SVFQ LK..SDMKYFKRVTS...KT.S..Dp ## 1111_GTF LK..GDMKYFKRVTS...KT.S..Dp ## 1111_GVF LK..GDMKYFKRVTS...KT.S..Dp 1111_STF LK..SDMKYFKRVTS...KT.S..Dp ## 1111_SVF LK..SDMKYFKRVTS...KT.S..Dp ## ## 1111_chars2 LR..SDMKYFKRVTS...KT.S..Dp ## AAQ02615_1 IR..GDMNFLKKITS...ET.K..D. AAQ02617_1 IR..GDMNFFKKITS...ET.K..D. AAQ02619_1 IR..GDMNFFKKITS...ET.K..D. AAQ02621_1 IR..GDMNFFKKITS...ET.K..D. AAQ02615_2 IR..GDMNFLKKITS...ET.K..D. AAQ02617_2 IR..GDMNFFKKITS...ET.K..D. AAQ02619_2 IR..GDMNFFKKITS...ET.K..D. AAQ02621_2 IR..GDMNFFKKITS...ET.K..D. DYR_ENCCU_1 LA..ADMAWFRTLSQ...SIp-liSp DYR_ENCCU_2 LA..ADMAWFRTLSQ...SIp-liSp EAK84413 LK..GEMTYFRNVTS...HVaD..Ee BAC75955 LA..KEMKYFARATS...EAp-..E. DYR_CRYNE LP..GEMKYFARVTTg..ETpSs.Dp # # 10100_chars2 LK..XEMKYFKRVTS..lXT.Tf.Dp # 10101_chars2 LK..XEMKYFKRVTS..lXT.Tf.Dp # 10110_chars2 LK..XEMKYFKRVTS..lXT.Tf.Dp # 10111_chars2 LK..XEMKYFKRVTS..lXT.Tf.Dp # 11100_chars2 LK..XEMKYFKRVTS...XT.Tf.Dp # 11101_chars2 LK..XEMKYFKRVTS...XT.Tf.Dp # 11110_chars2 LK..XEMKYFKRVTS...XT.Tf.Dp # 11111_chars2 LK..XEMKYFKRVTS...XT.Tf.Dp # poss remove: ^ # I don't think the "l" is there in the above - that's for ones without TfDp seq. # # 0010_KD LK..SEMKYFKRVTS...KT.Tf.DS # 0010_KP LK..SEMKYFKRVTS...KT.Tf.DS # 0010_QD LK..SEMKYFKRVTS...KT.Tf.DS # 0010_QP LK..SEMKYFKRVTS...KT.Tf.DS # 0011_KD LK..KEMKYFKRVTS...KT.Tf.DP # 0011_KP LK..KEMKYFKRVTS...KT.Tf.DP # 0011_QD LK..KEMKYFKRVTS...KT.Tf.DP # 0011_QP LK..KEMKYFKRVTS...KT.Tf.DP # DYR_SCHPO_1 IK..QEMAYFANVTS...S-.T..Es DYR_SCHPO_2 IK..QEMAYFANVTS...ST.E..Ss DYR_PNECA LK..KEISYFKRVTS...FVpTf.Ds AAF14071 LK..SDMMFFSRVTSgll-V.T..Rs AAL25720 LK..SDMAYFKRVTS...DVp-.vS. AAT99406 LK..SDMMFYSRVTSgll-V.T..Rs AAT99411 LK..SDMMFFTRVTSgll-V.T..Rs AAT99412 LK..SDMMFFSRVTSgll-V.T..Rs AAT99413 LK..SDMMFFSRVTSgll-V.T..Rs AAT99417 LK..SDMMFFSRVTSgll-V.T..Rs ABB84704 LK..SDMMFFSRVTSgll-V.T..Rs ABB84712 LK..SDMMFFSRITSgll-V.T..Rs ABB84716 LK..SDMMFFCRVTSgll-V.T..Rs ABB84718 LK..SDMMFFSRVTSgll-V.T..Rs ABB84720 LK..SDMMFFSRVTSgll-V.T..Rs ABB84722 LR..SDMMFFSRVTSgll-V.T..Rs ABB84726 LK..SDMMFFSRVTSgll-V.T..Rs ABB84744 LK..SDMMFFSRVTSgll-V.T..Rs ABB84751 LK..SDMMFFSRVTSgll-V.T..Rs ABF06467 LK..SDMMFFSRVTSgll-V.T..Rs ABF06468 LK..SDMMFFSRVTSgll-V.T..Rs ABF06469 LK..FDMMFFSRVTSgll-V.T..Rs ABF06470 LK..SDMMFFSRVTSgll-V.T..Rs Q6CC38_YARLI_1 LA..KEMKFFKQVTT..aQ-.-..-. Q6CC38_YARLI_2 LA..KEMKFFKQVTT...-A.-..Q. CAG60823_1 LA..KEMKYFREVTT..lT-.N..Dn CAG60823_2 LA..KEMKYFREVTT...LT.N..Dn AAS51350_1 LA..REMKYFRQATT...AT.F..Dp AAS51350_2 LA..REMKYFRQATT...-A.Tf.Dp DYR_YEAST_1 LP..SEMKYFRQVTS..lTK.Dp.N. DYR_YEAST_2 LP..SEMKYFRQVTS...LT.K..Dp EDN63566_1 LP..SEMKYFRQVTS..lTK.Dp.N. EDN63566_2 LP..SEMKYFRQVTS...LT.K..Dp CAA68779_1 LP..SEMKYFRQVTS..lTK.Dp.N. CAA68779_2 LP..SEMKYFRQVTS...LT.K..Dp CAG86485_1 LR..QEIKYFKNVTT...TT.K..Dp CAG86485_2 LR..QEIKYFKNVTT..tTK.Dp.Ng ABN65593_1 LR..KEIRYFKDVTT..kTS.Dp.S. ABN65593_2 LR..KEIRYFKDVTT...KT.S..Dp ## DYR_CANAL_1 LR..KEIRYFKDVTT..rTT.Kp.Nt DYR_CANAL_2 LR..KEIRYFKDVTT...RT.T..Kp ## 1J3KA NS..LDMKYFCAVTT...YV.N..Es #=GR 1J3KA SS -H..HHHHHH-HHHH...HC.H..HH ## Phi/Psi: CG..HHHHHHHHHGG...EE.E..GH ## ?Cap Ib?: ^ ^^ #=GR 1J3KA LI .....*...*................ #=GR 1J3KA SA 04..20462144101...51.2..57 ## Hydrophobic: --..+-+-?+??+--...?+.-..-- 1J3KB NS..LDMKYFCAVTT...YV.N..Es #=GR 1J3KB SS -H..HHHHHH-HHHH...HC.H..HH ## Phi/Psi: CG..HHHHHCCCHGC...EE.E..GG ## ?Cap Ib?: ^ ^^ #=GR 1J3KB LI .....*...*................ #=GR 1J3KB SA 04..20462154102...51.2..58 ## Hydrophobic: --..+-+-?+??+--...?+.-..-- ## Non-Pro: .......................... ## Gly-Req: .......................... 1J3IA NS..LDMKYFCAVTT...YV.N..Es #=GR 1J3IA SA 05..20462134102...51.2..57 #=GR 1J3IA S2 05..204621341B2...51.2..57 1J3IB NS..LDMKYFCAVTT...YV.N..Es #=GR 1J3IB SA 05..20462134102...51.2..57 #=GR 1J3IB S2 05..204621341B2...51.2..57 DRTS_PLACH NS..VDMKHFSSVTS...YV.N..Et Q7RGH7_PLAYO NL..VDMNYFSSVTS...YV.N..En Q95US9_PLAGA NP..LDMKYFTTVTT...YV.N..Es ## 68 2BL9A NS..VDMKYFSSVTT...YV.D..Es #=GR 2BL9A SS HH..HHHHHHHHHHH...HC.G..GG ## Phi/Psi: EH..HHHHHCCCCGG...EE.E..GH #=GR 2BL9A LI .....*...*................ ## Non-Pro: .......................... ## Gly-Req: .......................... #=GR 2BL9A SA 05..20472124102...51.1..57 ## Hydrophobic: --..+-+-?+--+--...?+.-..-- ## ?Cap Ib?: ^ ^^ DRTS_PLAVI NS..VDMKYFSSVTT...YV.D..Es DRTS_PLAVN NS..VDMKHFVSVTS...YV.N..En AAV33644 NS..VDMKYFSSVTT...YV.D..Es AAV33645 NS..VDMKYFSSVTT...YV.D..Es ## 1SEJC IS..EDLKFFSKITN...NK.C..D. #=GR 1SEJC SS HH..HHHHHHHHHHH...HC.C..C. ## Phi/Psi: EG..GHHHHHHCHGG...CE.G..E. #=GR 1SEJC LI .....**..**............... #=GR 1SEJC NP .......................... #=GR 1SEJC GR .......................... #=GR 1SEJC SA 04..40552226102...62.9..3. ## Hydrophobic: +-..--+-++--+--...--.?..-. ## ?Cap IIb?: ^ ^^ 1QZFD IS..EDLKFFSKITN...NK.C..D. #=GR 1QZFD SA 06..40552125102...62.9..3. #=GR 1QZFD S2 06..405521251B2...62.9..3. AAC47229 IS..EDLKFFSKITS...NN.C..D. ## 45 CAI76538 IK..RDFLFMFRATT...YV.Dp.Ef EAN31856 IK..RDFLFMFRATT...YV.Dp.Ef EAR85731 LP..NELKNFKKITT...ET.K..N. DRTS_TRYBB IP..EDMQYFRRVTT...NL.Rg.Kn AAX78868 IP..EDMQYFRRVTT...NL.Rg.Kn DRTS_TRYCR VP..EDMKFFRDLTT...KL.Rg.Kn AAK71184 VP..EDMKFFRDVTT...KL.Rg.Kn AAK71177 VP..EDMKFFRDLTT...KL.Rg.Kn Q95NI3_TRYCR VP..EDMKFFRDVTT...KL.Rg.Kn Q95NT2_TRYCR VP..EDMKFFRDVTT...KL.Rg.Kn DRTS_LEIAM VP..EDMAFFKDQTT..l-L.R..N. DRTS_LEIMA VP..EDMTFFKNQTT..l-L.R..N. AAA29272 SP..EDMTFFKNQTT..l-L.R..N. Q8MXB7_LEITR VP..EDMAFFKDQTT..l-L.R..N. Q8MQV1_LEICH VP..EDMAFFKDQTT..l-L.R..N. DRT1_ARATH LP..TDLKFFKDITL...TT.S..D. DRTS_SOYBN LP..TDLKFFKEITM...KT.S..E. Q2R481_ORYSA L-l.GDLKFFKELTV...TT.A..D. DRTS_MAIZE LP..GDLKFFKELTL...TT.S..D. #=GC RF XX..XXXXXXXXXXX...XX.X..X. #=GC SS_cons HH..HHHHHHHHHHH...HC.C..T. #=GC seq_cons l....-.KYF...To.........-. #=GC LI_cons .....*...*................ ## F-34 binding: JBC 1989, 264, 34:20786-20795; Probing the Role of Two ## Hydrophobic Active Site Residues in the Human Dihydrofolate Reductase by ## Site-directed Mutagenesis; Schweitzer et al PLUS Biochemistry 1994, 33, ## 9945-9952; Critical Role of Phenylalanine 34 of Human Dihydrofolate ## Reductase in Substrate and Inhibitor Binding and in Catalysis; Nakano et al ## F|M|whatever-31 may be active in binding to MTX (or at least create problems ## w/binding to MTX if mutated to something much smaller or larger - 10.1139/G03-046) #=GC AS_cons .....*.................... ## Glu/Asp-30 activity: Biochemistry 1990, 29, 5195-5202; Kinetic Mechanism of ## Wild-Type and Mutant Mouse Dihydrofolate Reductases; ## Thillet, Adams, Benkovic; also 1YHO (NMR) article #=GC SA_cons 05..30451134102...52.6..9. ## Helix cap: .............^?........... ## Seq_cons2 LXxxXEXKYFXKMTS...XX.N.VEx ## Hydrophobic: +....-.-?+.-+--......-.+-. ## Third section (51 pos; 136 total) 1U70A ...........................................g..k.... #=GR 1U70A SS ...........................................C..C.... ## Phi/Psi: ...........................................C..E.... #=GR 1U70A LI ................................................... #=GR 1U70A NP ................................................... #=GR 1U70A GR ...........................................G....... #=GR 1U70A SA ...........................................8..2.... ## Hydrophobic: ...........................................-..-.... DYR_RAT ...........................................g..k.... DYR_MESAU ...........................................g..k.... Q78EH1_9RODE ...........................................g..k.... ## 46 1U72A ...........................................g..k.... #=GR 1U72A SS ...........................................T..T.... ## 43-46 are a tight turn by 1DHF|2DHF paper ## Phi/Psi: ...........................................L..E.... #=GR 1U72A NP ................................................... #=GR 1U72A GR ................................................... #=GR 1U72A LI ................................................... #=GR 1U72A AS ..............................................*.... ## AS by loop regions paper - see below #=GR 1U72A SA ...........................................8..2.... ## Hydrophobic: ...........................................-..-.... 1PD8A ...........................................g..k.... #=GR 1PD8A SS ...........................................T..T.... #=GR 1PD8A GR ................................................... #=GR 1PD8A SA ...........................................9..2.... 1DHFB ...........................................g..k.... #=GR 1DHFB LI ................................................... #=GR 1DHFB AS ..............................................*.... ## 1DHFA SA ...........................................9..2.... #=GR 1DHFB SA ...........................................9..2.... #=GR 1DHFB S2 ...........................................9..2.... XP_001110551 ...........................................g..k.... XP_001134992 ...........................................g..k.... XP_851329 ...........................................g..k.... XP_536308 ...........................................g..k.... DYR_PIG ...........................................g..k.... DYR_BOVIN ...........................................g..k.... P00376 ...........................................g..k.... Q29RI1_BOVIN ...........................................g..k.... PLACENT ...........................................g..k.... #=GR PLACENT SA ...........................................7..2.... ## POSS1: ...........................................G..K.... ##nonrot.full2 ...........................................7..2.... ##mmtp.full ...........................................8..2.... ##mmtp.fullSS ...........................................C..E.... ## POSS2: ...........................................G..K.... XP_001363618 ...........................................g..k.... ## 8DFR0 ...........................................g..k.... #=GR 8DFR0 SS ...........................................T..T.... ## Phi/Psi: ...........................................L..E.... #=GR 8DFR0 NP ................................................... #=GR 8DFR0 GR ...........................................G....... #=GR 8DFR0 SA ...........................................9..2.... ## Hydrophobic: ...........................................-..-.... 1DR10 ...........................................g..k.... #=GR 1DR10 SS ...........................................T..T.... #=GR 1DR10 LI ................................................... ## Phi/Psi: ...........................................L..E.... #=GR 1DR10 GR ...........................................G....... #=GR 1DR10 SA ...........................................9..2.... ## Hydrophobic: ...........................................-..-.... AGA ...........................................g..k.... #=GR AGA SA ...........................................7..2.... ## AGfullSA2 ...........................................7..2.... ## AGfull2SA2 ...........................................7..2.... ## AG: ...........................................G..K.... ## AI: ...........................................G..K.... ## PG: ...........................................G..K.... PGV ...........................................g..k.... #=GR PGV SA ...........................................9..2.... ## PGVYSfullSA2 ...........................................9..2.... ## PGVYSfull2S2 ...........................................9..2.... ## PI: ...........................................G..K.... Q5U543_XENLA ...........................................g..k.... ## Strongly suspect all of the above at the end should be pushed back 1 ## residue with "k" being considered aligned (and 1 further with g being vs s); ## Have done; confirmed that at end area is flexible in not only 1J3KAB ## but above (high B-factors). However, deletion of that area (45-46 in ## particular) can admittedly cause human DHFR to look a bit more similar to ## characteristics of C. albicans DHFR (e.g., urea, KCl not activating; MTX ## not binding as well), so will probably want to put "K" back to non-aligned ## for fungal (done). (Refs: Importance of Loop Region Residues 40-46 in Human ## Dihydrofolate Reductase as Revealed by Site-directed Mutagenesis; ## Characterization of Candida albicans Dihydrofolate Reductase.) ENSXETP49617 ...........................................d..k.... AAK01951 ...........................................g..k.... CAM14042 ...........................................g..k.... NP_571850 ...........................................g..k.... XP_001176553 ...........................................gm.k.... ## EED: ...........................................g..k.... ## EEK: ...........................................g..k.... ## KED: ...........................................g..k.... ## KEK: ...........................................g..k.... ## K_D: ...........................................g..k.... ## K_K: ...........................................g..k.... ## _EED: ...........................................g..k.... ## _E_SKFED: ...........................................g..k.... ## _E_GKFED: ...........................................g..k.... ## _EE_D: ...........................................g..k.... ## _EAED: ...........................................g..k.... ## _EASKFED: ...........................................g..k.... ## _EAGKFED: ...........................................g..k.... ## _E_EDQ: ...........................................g..k.... ES ...........................................g..k.... #=GR ES SA ...........................................7..1.... ## S2: ...........................................7..1.... ## _E_GKFEDQ: ...........................................g..k.... ## _EAEDQ: ...........................................g..k.... ## _EASKFEDQ: ...........................................g..k.... ## _EAGKFEDQ: ...........................................g..k.... ## _EEK: ...........................................g..k.... ## _KED: ...........................................g..k.... ## _KE_D: ...........................................g..k.... ## _KAED: ...........................................g..k.... ## _KAEDQ: ...........................................g..k.... ## _KASKFED: ...........................................g..k.... ## _KASKFEDQ: ...........................................g..k.... ## _KAGKFED: ...........................................g..k.... KAG ...........................................g..k.... #=GR KAG SA ...........................................7..2.... ## S2: ...........................................7..2.... ## _KEK: ...........................................g..k.... ## _K_D: ...........................................g..k.... ## _K_K: ...........................................g..k.... XP_973338 ...........................................s..k.... EAL28532 ...........................................n..k.... DYR_DROME ...........................................t..k.... AAA19051 ...........................................t..k.... XP_393902 ...........................................n..k.... Q7Q0L5_ANOGA ...........................................d..k.... DYR_CAEEL_1 ..........................................qs....... Q61DT5_CAEBR_1 ...........................................a..k.... DYR_CAEEL_2 ..........................................qs....... Q61DT5_CAEBR_2 ...........................................a..k.... ## ## 1100_SVFQ ...........................................G..K.... ## 1111_GTF ...........................................g..k.... ## 1111_GVF ...........................................G..K.... 1111_STF ...........................................g..k.... ## 1111_SVF ...........................................G..K.... ## ## 1111_chars2 ...........................................G..K.... ## AAQ02615_1 ...........................................aa.k.... AAQ02617_1 ...........................................aa.k.... AAQ02619_1 ...........................................aa.k.... AAQ02621_1 ...........................................aa.k.... AAQ02615_2 ...........................................aa.k.... AAQ02617_2 ...........................................aa.k.... AAQ02619_2 ...........................................aa.k.... AAQ02621_2 ...........................................aa.k.... DYR_ENCCU_1 ................................d.rialap...sa...... DYR_ENCCU_2 ................................d.rialap...sa...... EAK84413 ........................................qrqg.t..... BAC75955 ...........................................g.t..... DYR_CRYNE ...........................................s..e.... # # 10100_chars2 ..........................................tg..k.... # 10101_chars2 ..........................................tg..k.... # 10110_chars2 ..........................................tg..k.... # 10111_chars2 ..........................................tg..k.... # 11100_chars2 ..........................................tg..k.... # 11101_chars2 ..........................................tg..k.... # 11110_chars2 ..........................................tg..k.... # 11111_chars2 ..........................................tg..k.... # # 0010_KD ..........................................tG..K.... # 0010_KP ..........................................tG..K.... # 0010_QD ..........................................tG..K.... # 0010_QP ..........................................tG..K.... # 0011_KD ..........................................tG..K.... # 0011_KP ..........................................tG..K.... # 0011_QD ..........................................tG..K.... # 0011_QP ..........................................tG..K.... # DYR_SCHPO_1 ................s..........g.qlee..........g..k.ski DYR_SCHPO_2 ...........................g.qleegk........s..ki..m DYR_PNECA .f........................................es....... AAF14071 ..........................................tg..q.... AAL25720 ..........................................ds.tk...w AAT99406 ..........................................tg..q.... AAT99411 ...........................................g..q.... AAT99412 ..........................................tg..q.... AAT99413 ..........................................tg..q.... AAT99417 ..........................................tg..q.... ABB84704 ..........................................tg..q.... ABB84712 ..........................................tg..q.... ABB84716 ..........................................tg..q.... ABB84718 ..........................................tg..q.... ABB84720 ..........................................tg..q.... ABB84722 ..........................................tg..q.... ABB84726 ..........................................tg..q.... ABB84744 ..........................................tg..q.... ABB84751 ..........................................tg..q.... ABF06467 ..........................................tg..q.... ABF06468 ..........................................tg..q.... ABF06469 ..........................................tg..q.... ABF06470 ..........................................tg..q...l Q6CC38_YARLI_1 ................................................... Q6CC38_YARLI_2 ................................................... CAG60823_1 ...........................................s..k.... CAG60823_2 ...........................................s..k.... AAS51350_1 ...........................................t..k.... AAS51350_2 ..........................................t...k.... DYR_YEAST_1 ..............................................k.... DYR_YEAST_2 ...........................................n..k.... EDN63566_1 ..............................................k.... EDN63566_2 ...........................................n..k.... CAA68779_1 ..............................................k.... CAA68779_2 ...........................................n..k.... CAG86485_1 ...........................................n..g.... CAG86485_2 ..................................................i ABN65593_1 ..............................................k...i ABN65593_2 ...........................................s..k.... ## DYR_CANAL_1 ................................................... DYR_CANAL_2 ...........................................n..t.... ## 1J3KA kyeklkykrckylnket.........vdnvnd.....mp...ns.kk...l #=GR 1J3KA SS HHHHHHHHHHHHHHCCC.........XXXXXX.....XX...XX.CC...C ## Phi/Psi: HHGCHHHHHCGGGLE1X............................XE...C #=GR 1J3KA LI ................................................... #=GR 1J3KA SA 41750352015228689.........XXXXXX.....XX...XX.96...1 ## Hydrophobic: -?--+-?--?-?+----.........+--+--.....+-...--.--...+ 1J3KB kyeklkykrckylnket.........vdnvnd.....mp...ns.kk...l #=GR 1J3KB SS HHHHHHHHHHHHHXXXX.........XXXXXX.....XC...CC.CC...C ## B Phi/Psi: GHHHHHHHCCCCX..........................X..CE.GE...E #=GR 1J3KB LI ................................................... #=GR 1J3KB SA 5166036206726XXXX.........XXXXXX.....X9...84.75...1 ## Hydrophobic: -?--+-?--?-?+----.........+--+--.....+-...--.--...+ ## Non-Pro: ................................................... ## Gly-Req: ................................................... 1J3IA kyeklkykrckylnket.........vdnvnd.....mp...ns.kk...l #=GR 1J3IA SA 41650252015328569.........XXXXXX.....XX...XX.97...0 #=GR 1J3IA S2 41650252015328569.........XXXXXX.....XX...XX.E7...0 1J3IB kyeklkykrckylnket.........vdnvnd.....mp...ns.kk...l #=GR 1J3IB SA 50661152004328376.........3XXXX9.....66...35.75...1 #=GR 1J3IB S2 50661152004328376.........3XXXXE.....66...35.75...1 DRTS_PLACH nymrlkwkrdryme........knn.vk.lntdg...ip....svdk...l Q7RGH7_PLAYO nyirlqwkrdkym........gknnlknnaeln.ng...el..n.nn...l Q95US9_PLAGA kykklkykrekylek.t.k...dtkc...les.....iiql..s.nn...l ## 98 2BL9A kyeklkwkrerylrmeasqgggdntsggd.nthg.......gdnadk...l #=GR 2BL9A SS HHHHHHHHHHHHHHHHHXXXXXXXXXXXX.XXXX.......XXXXXC...C ## Phi/Psi: HHHHHHHGCHHCCCHHX.............................X...E #=GR 2BL9A LI ................................................... ## Non-Pro: ................................................... ## Gly-Req: ................................................... #=GR 2BL9A SA 51460352035125549XXXXXXXXXXXX.XXXX.......XXXXX8...0 ## Hydrophobic: -?--+-+----?+-+-?------------.----.......---?--...+ DRTS_PLAVI kyeklkwkrerylrmeasqgggdntsggd.nthg.......gdnadk...l DRTS_PLAVN nyirlkwkrdkyik.......ennvk...vntdg...ip....sidk...l AAV33644 kyeqlkwkreryllreasggsddtlqtgd.ntngsghtvgmgddttk...l AAV33645 kyeklkwkrerylqrevsggsgdt.hsgd.ntngsgdavgtgdnntk...l ## 1SEJC ...........................................s.nk.... #=GR 1SEJC SS ...........................................C.CC.... ## Phi/Psi: ...........................................G.G1.... #=GR 1SEJC LI ................................................... #=GR 1SEJC NP ................................................... #=GR 1SEJC GR ................................................... #=GR 1SEJC SA ...........................................7.82.... ## Hydrophobic: ...........................................-.--.... 1QZFD ...........................................s.nk.... #=GR 1QZFD SA ...........................................7.82.... #=GR 1QZFD S2 ...........................................7.82.... AAC47229 ...........................................s.nk.... ## 48 CAI76538 k............................................ekhpga EAN31856 k............................................ekhpga EAR85731 k..........................................g......l DRTS_TRYBB .............................vk..ps....p...s..k.... AAX78868 .............................vk..ps....p...s..k.... DRTS_TRYCR .............................vk..ps....p...a..k.... AAK71184 .............................vk..ps....p...a..k.... AAK71177 .............................vk..ps....p...a..k.... Q95NI3_TRYCR .............................vk..ps....p...a..k.... Q95NT2_TRYCR .............................vk..ps....p...a..k.... DRTS_LEIAM k.............................k..p.....pt..d.kk.... DRTS_LEIMA k.............................k..p.....pt..e.kk.... AAA29272 k.............................k..p.....pteeea.q.... Q8MXB7_LEITR k.............................k..p.....pt..e.kk.... Q8MQV1_LEICH k.............................k..p.....pt..e.kk.... DRT1_ARATH ........................................s..s..k.... DRTS_SOYBN .......................................p...g..k.... Q2R481_ORYSA .......................................p....v.k.... DRTS_MAIZE .......................................p....v.k.... #=GC RF ................................................... #=GC SS_cons ...........................................C.C-.... #=GC seq_cons ...........................................G.-K.... #=GC LI_cons ................................................... #=GC AS_cons ................................................... #=GC SA_cons ...........................................8.82.... ## Seq_cons2 xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxGxxKxxxx ## Hydrophobic: ...........................................-.--.... ## Fourth section (73 pos; 209 total) 1U70A QN.LVIMGRKTWFSIPEKNRPLKDRINIVLS.RELK...EPP.RG............a................. #=GR 1U70A SS EE.EEEEEHHHHHGGGGGGGSCCCEEEEEEC.CCCC...CCC.CC............C................. ## Phi/Psi: EE.EEEEEHHHHGGEEGGGeEEELEEEEEEC.CCEG...EEE.CC............E................. #=GR 1U70A LI .........*................................................................. ## ^ this one looks to be binding to one or more Ps in NADPH (esp non-pyro); other is backbone N ## h-bonding to pyro, possibly side-chain binding to other pyro #=GR 1U70A NP ........................*..............*................................... #=GR 1U70A GR ............................................G.............................. #=GR 1U70A SA 30.0000136204314773120450000000.7727...741.92............0................. ## Hydrophobic: --.++++----++-+------+---+-+++-.--+-...---.--............?................. DYR_RAT QN.LVIMGRKTWFSIPEKNRPLKDRINIVLS.RELK...EPP.QG............a................. DYR_MESAU QN.LVIMGRKTWFSIPEKNRPLKDRINIVLS.RELK...EPP.QG............a................. Q78EH1_9RODE QN.LVIMGRKTWFSIPEKNRPLKDRINIVLS.RELK...EPP.QG............a................. ## 86 1U72A QN.LVIMGKKTWFSIPEKNRPLKGRINLVLS.RELK...EPP.QG............a................. #=GR 1U72A SS EE.EEEEEHHHHHGGGGGGGSCCCEEEEEEC.CCCC...CCC.CC............C................. ## Phi/Psi: EE.EEEEEHHHGGGEECHGeECELEEEEEEC.GHEG...EEE.CC............E................. #=GR 1U72A NP ........................................................................... #=GR 1U72A GR ............................................G.............................. #=GR 1U72A LI ..............**..*..*..*.................................................. ## ^ as per 1U70A #=GR 1U72A AS ........................................................................... #=GR 1U72A SA 30.0000125204315784120740100001.7738...630.83............1................. ## Hydrophobic: --.++++----++-+------+---+-+++-.--+-...---.--............?................. 1PD8A QN.LVIMGKKTWFSIPEKNRPLKGRINLVLS.RELK...EPP.QG............a................. #=GR 1PD8A SS EE.EEEEEHHHHHHHGGGGGSCCCCEEEEEC.CCCC...CCC.CC............C................. #=GR 1PD8A GR ............................................G.............................. #=GR 1PD8A SA 40.0000035104315672120740000000.7628...630.83............1................. ## Hydrophobic: --.++++----++-+------+---+-+++-.--+-...---.--............?................. 1DHFB QN.LVIMGKKTWFSIPEKNRPLKGRINLVLS.RELK...EPP.QG............a................. #=GR 1DHFB LI ..............**..*..*..*.................................................. #=GR 1DHFB AS ........................................................................... ## 1DHFA SA 4X.0XXX1261X4415564110540000X00.6726...630.54............1................. #=GR 1DHFB SA 30.0000136104415773120740000000.8616...631.93............1................. #=GR 1DHFB S2 30.0BBB1361044157731207400B0B00.8616...631.93............1................. XP_001110551 QN.LVIMGKKTWFSIPEKNRPLKGRINLVLS.RELK...EPP.QG............a................. XP_001134992 QN.LVIMGKKTWFSIPEKNRPLKGRINLVLS.RELK...EPP.QG............a................. XP_851329 QN.LVIMGRKTWFSIPEKNRPLKDRINIVLS.RDLK...EPP.QG............a................. XP_536308 QN.LVIMGRKTWFSIPEKNRPLKDRINIVLS.RDLK...EPP.QG............a................. DYR_PIG QN.LVIMGRKTWFSIPEKNRPLKDRINIVLS.RELK...EPP.QG............a................. DYR_BOVIN QN.LVIMGRKTWFSIPEKNRPLKDRINIVLS.RELK...EPP.KG............a................. P00376 QN.LVIMGRKTWFSIPEKNRPLKDRINIVLS.RELK...EPP.KG............a................. Q29RI1_BOVIN QN.LVIMGRKTWFSIPEKNRPLKDRINIVLS.RELK...EPP.KG............a................. PLACENT QN.LVIMGRKTWFSIPEKNRPLKDRINIVLS.RELK...EPP.QG............a................. #=GR PLACENT SA 30.0000035104415571130450000000.6626...630.45............0................. ## POSS1: QN.LVIMGRKTWFSIPEKNRPLKDRINIVLS.RELK...EPP.QG............A................. ##nonrot.full2 3B.BBBB0351B44145811304500BBB00.6625...630.45............0................. ##mmtp.full 3B.BB0B0341044155711304500BBB00.6626...630.45............0................. ##mmtp.fullSS EE.EEEEEHHCHHHEEGGGEECCLEEEEEEC.CHEG...EEE.CC............C................. ## POSS2: QN.LVIMGRKTWFSIPEKNRPLKDRINIVLS.RELK...EPP.QG............A................. XP_001363618 QN.LVIMGKKTWFSIPEKCRPLKDRINVVLS.RELK...EPP.QG............a................. ## 8DFR0 QN.AVIMGKKTWFSIPEKNRPLKDRINIVLS.RELK...EAP.KG............a................. #=GR 8DFR0 SS EE.EEEEEHHHHHHCTTTTCSTTTTEEEEEE.CCCC...CCT.TT............T................. ## Phi/Psi: EE.EEEEEHHHCGGEEGGGeEECLEEEEEEC.GGEG...ECC.CC............E................. ## ^ is residue down as both sheet, helix #=GR 8DFR0 NP ........................*.................................................. #=GR 8DFR0 GR ............................................G.............................. #=GR 8DFR0 SA 30.0000136204316585120740000000.8729...720.82............0................. ## Hydrophobic: --.?+++----++-+------+---+-+++-.--+-...-?-.--............?................. 1DR10 QN.AVIMGKKTWFSIPEKNRPLKDRINIVLS.RELK...EAP.KG............a................. #=GR 1DR10 SS EE.EEEEEHHHHHHCTTTTCSTTTTEEEEEE.CCCC...CCT.TT............T................. ## ^ is residue down as both sheet, helix #=GR 1DR10 LI ..........*.......*.............*.......................................... ## ^ as per 1U70A ## Phi/Psi: EE.EEEEEHHHHGGEEGGGeECCLEEEEEEE.GGEG...EEE.CC............C................. #=GR 1DR10 GR ............................................G.............................. #=GR 1DR10 SA 30.0000126204316585120640000000.8726...721.82............1................. ## Hydrophobic: --.?+++----++-+------+---+-+++-.--+-...-?-.--............?................. AGA QN.AVIMGRKTWFSIPEKNRPLKDRINIVLS.RELK...EAP.KG............a................. #=GR AGA SA 40.0000034104315482131650000010.7738...720.63............0................. ## AGfullSA2 4B.B0BB0341042154821316500BBB10.7738...720.63............0................. ## AGfull2SA2 4B.B0B00342043254821316400BBB10.7738...720.63............0................. ## AG: QN.AVIMGRKTWFSIPEKNRPLKDRINIVLS.RELK...EAP.KG............A................. ## AI: QN.AVIMGRKTWFSIPEKNRPLKDRINIVLS.RELK...EAP.KG............A................. ## PG: QN.AVIMGRKTWFSIPEKNRPLKDRINIVLS.RELK...EPP.KG............A................. PGV QN.VVIMGRKTWFSIPEKNRPLKDRINIVLS.RELK...EPP.KG............a................. #=GR PGV SA 40.0000034105315582131650000000.7738...540.63............0................. ## PGVYSfullSA2 40.B0B00341053155821315500BB000.7728...540.53............0................. ## PGVYSfull2S2 40.B0B00341053255831416500B0000.7738...540.62............0................. ## PI: QN.AVIMGRKTWFSIPEKNRPLKDRINIVLS.RELK...EPP.KG............A................. ## ^ V also used for some Q5U543_XENLA KN.VVIMGRKTWFSIPEKNRPLKERINIVLS.KELK...EPP.TG............a................. ENSXETP49617 KN.VVIMGRKTWFSIPEKNRPLKERINIVLS.KELK...EPP.TG............a................. AAK01951 KN.VVIMGRKTWFSIPAAHRPLKNRINIVLS.RELK.t.-AP.EG............a................. CAM14042 KN.VVIMGRKTWFSIPAAHRPLKNRINIVLS.RELK.t.-AP.EG............a................. NP_571850 KN.VVIMGRKTWFSIPAAHRPLKNRINIVLS.RELK.t.-AP.EG............a................. XP_001176553 -N.AVIMGRKTWDSIPEKFRPLKDRVNVVLS.NSL-.t.ECPp-G............a...........d..... ## EED: KN.-VIMGRKTWESIPE--RPLKDRINIVLS.RNLK.t.EAP.-G............A................. ## ^ I suspect this should probably be an A, not a deletion! ## EEK: KN.-VIMGRKTWESIPE--RPLKDRINIVLS.RNLK.t.EAP.-G............A................. ## KED: KN.-VIMGRKTWESIPE--RPLKDRINIVLS.RNLK.t.EAP.-G............A................. ## KEK: KN.-VIMGRKTWESIPE--RPLKDRINIVLS.RNLK.t.EAP.-G............A................. ## K_D: KN.-VIMGRKTWESIPE--RPLKDRINIVLS.RNLK.t.EAP.-G............A................. ## K_K: KN.-VIMGRKTWESIPE--RPLKDRINIVLS.RNLK.t.EAP.-G............A................. ## _EED: KN.-VIMGRKTWESIPE--RPLKDRINIVLS.RNLK.t.EAP.-G............A................. ## _E_SKFED: KN.-VIMGRKTWESIPEKFRPLKDRINIVLS.RNLK.t.EAP.-G............A................. ## _E_GKFED: KN.-VIMGRKTWEGIPEKFRPLKDRINIVLS.RNLK.t.EAP.-G............A................. ## _EE_D: KN.-VIMGRKTWESIPE--RPLKDRINIVLS.RNLK.t.EAP.-G............A................. ## _EAED: KN.AVIMGRKTWESIPE--RPLKDRINIVLS.RNLK.t.EAP.-G............A................. ## _EASKFED: KN.AVIMGRKTWESIPEKFRPLKDRINIVLS.RNLK.t.EAP.-G............A................. ## _EAGKFED: KN.AVIMGRKTWEGIPEKFRPLKDRINIVLS.RNLK.t.EAP.-G............A................. ## _E_EDQ: KN.-VIMGRKTWESIPE--RPLKDRINIVLS.RNLK.t.EAP.-G............A................. ES KN.-VIMGRKTWESIPEKFRPLKDRINIVLS.RNLK.t.EAP.-G............a................. #=GR ES SA 40.-000044105314774251630100000.6726.9.605.-5............1................. ## S2: 40.-000044105314774251630100000.6726.9.605.-5............1................. ## _E_GKFEDQ: KN.-VIMGRKTWEGIPEKFRPLKDRINIVLS.RNLK.t.EAP.-G............A................. ## _EAEDQ: KN.AVIMGRKTWESIPE--RPLKDRINIVLS.RNLK.t.EAP.-G............A................. ## _EASKFEDQ: KN.AVIMGRKTWESIPEKFRPLKDRINIVLS.RNLK.t.EAP.-G............A................. ## _EAGKFEDQ: KN.AVIMGRKTWEGIPEKFRPLKDRINIVLS.RNLK.t.EAP.-G............A................. ## _EEK: KN.-VIMGRKTWESIPE--RPLKDRINIVLS.RNLK.t.EAP.-G............A................. ## _KED: KN.-VIMGRKTWESIPE--RPLKDRINIVLS.RNLK.t.EAP.-G............A................. ## _KE_D: KN.-VIMGRKTWESIPE--RPLKDRINIVLS.RNLK.t.EAP.-G............A................. ## _KAED: KN.AVIMGRKTWESIPE--RPLKDRINIVLS.RNLK.t.EAP.-G............A................. ## _KAEDQ: KN.AVIMGRKTWESIPE--RPLKDRINIVLS.RNLK.t.EAP.-G............A................. ## _KASKFED: KN.AVIMGRKTWESIPEKFRPLKDRINIVLS.RNLK.t.EAP.-G............A................. ## _KASKFEDQ: KN.AVIMGRKTWESIPEKFRPLKDRINIVLS.RNLK.t.EAP.-G............A................. ## _KAGKFED: KN.AVIMGRKTWEGIPEKFRPLKDRINIVLS.RNLK.t.EAP.-G............A................. KAG KN.AVIMGRKTYEGIPEKFRPLKDRINIVLS.RNLK.t.EAP.-G............a................. ## Note that the above is the correct alignment by structal._KAGKFEDQ.loop.13-27.full2.new.reduce3.ent.1J3IA.GCG.txt ## ^ This should be a Tyr if have a Gly 2 later (53,55) - probable H-bonding #=GR KAG SA 50.0000045204425675142730100000.6737.8.615.-3............1................. ## S2: 50.00B0045204425675142730100000.6737.8.615.-3............1................. ## _KEK: KN.-VIMGRKTWESIPE--RPLKDRINIVLS.RNLK.t.EAP.-G............A................. ## _K_D: KN.-VIMGRKTWESIPE--RPLKDRINIVLS.RNLK.t.EAP.-G............A................. ## _K_K: KN.-VIMGRKTWESIPE--RPLKDRINIVLS.RNLK.t.EAP.-G............A................. XP_973338 KN.VVLMGRKTWDSIPPKFKPLHQRFNFIMS.RAG-..vE-L.EG..yk........d................. ## end area here and below has problems ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ !!! EAL28532 RN.VVIMGRKTYFGVPASKRPLPERLNIVLS.TTLK..pAELpS-............d................. DYR_DROME QN.AVVMGRKTYFGVPESKRPLPDRLNIVLS.TTLQ.e.SDLpKG.............................. AAA19051 QN.AVVMGRKTYFGVPESKRPLPDRLNIVLS.TTLQ.e.SDLpKG.............................. XP_393902 RN.VVLMGRRTWESIPKENRPLKNRINIVLT.SQ-S..l-DY.-G.........n..d................. Q7Q0L5_ANOGA RN.AVIMGRKTYFGVPESKRPLPERLNIVLT.RNAA..aYTFp--........p...d................. DYR_CAEEL_1 RN.AVLMGRKCWESIPVTRRPLAGRLNIVLS.RQLP..aQKS.D-............d................. Q61DT5_CAEBR_1 RN.AVLMGRKCWESIPESRRPLPGRLNIVLS.RQLE.k.QNT.D-............n................. DYR_CAEEL_2 RN.AVLMGRKCWESIPVTRRPLAGRLNIVLS.RQLP.a.QKS.D-............d................. Q61DT5_CAEBR_2 RN.AVLMGRKCWESIPESRRPLPGRLNIVLS.RQLE.k.QNT.D-............n................. ## ## 1100_SVFQ RN.AVIMGRKTWESIPEKFRPLPNRINIVLS.RNAK..vEEL.-G............D................. ## 1111_GTF RN.AVIMGRKTWESIPEKFRPLPNRINIVLS.RNAK.t.EEL.-G............d................. ## 1111_GVF RN.AVIMGRKTWESIPEKFRPLPNRINIVLS.RNAK..vEEL.-G............D................. 1111_STF RN.AVIMGRKTWESIPEKFRPLPNRINIVLS.RNAK.t.EEL.-G............d................. ## 1111_SVF RN.AVIMGRKTWESIPEKFRPLPNRINIVLS.RNAK..vEEL.-G............D................. ## ## 1111_chars2 RN.AVIMGRKTWESIPEKFRPLKNRINIVLS.RNLK.t.EEL.-G............N................. ## AAQ02615_1 QN.AVIMGRKTYVGIPAKFRPLSNRVNIVIS.TNAN..lRKE.E-si......p...d...........s..... AAQ02617_1 QN.AVVMGRKTYVGIPAKFRPLSNRVNIVIS.TNAN..lRKE.E-si......p...d...........s..... AAQ02619_1 QN.AVIMGRKTYVGIPAKFRPLSNRVNIVIF.TNAN..lRKE.E-si......p...d...........s..... AAQ02621_1 QN.AVTMGRKTYVGIPAKFRPLSNRVNIVIS.TNAN..lRKE.E-si......p...d...........s..... AAQ02615_2 QN.AVIMGRKTYVGIPAKFRPLSNRVNIVIS.TNAN..lRKE.ES.i......p...d...........s..... AAQ02617_2 QN.AVVMGRKTYVGIPAKFRPLSNRVNIVIS.TNAN..lRKE.ES.i......p...d...........s..... AAQ02619_2 QN.AVIMGRKTYVGIPAKFRPLSNRVNIVIF.TNAN..lRKE.ES.i......p...d...........s..... AAQ02621_2 QN.AVTMGRKTYVGIPAKFRPLSNRVNIVIS.TNAN..lRKE.ES.i......p...d...........s..... DYR_ENCCU_1 SN.AVVMGRRTWDSIPSRFRPLANRINVVLS.R-GP..aRST.E-............n................. DYR_ENCCU_2 SN.AVVMGRRTWDSIPSRFRPLANRINVVLS.R-GP.a.RST.EN.............................. EAK84413 RN.AVIMGRKTWASIPPKFRPLAGRFNVVIS.RTSS..aTDL.-G.i....r.pelia.clhcihpnsdpdsnd. BAC75955 RN.AVVMGRTTWESIPEKFRPLPNRVNVVVS.RNEN.y.ELEp-Gk........e.ps.......p........m DYR_CRYNE QN.VVIMGRKTWESIPSRFRPLKNRRNVVISgK-GV...D-L.-Gta.......e..n...........s..... # # 10100_chars2 RN.VVIMGRKTWESIPAKFRPLPNRINIVIS.RNAK.t.DELp-G............N................. # 10101_chars2 RN.VVIMGRKTWESIPAKFRPLPNRINIVIS.RNAK.t.DELp-G............N................. # 10110_chars2 RN.VVIMGRKTWESIPAKFRPLPNRINIVIS.RNAK.t.DELp-G............N................. # 10111_chars2 RN.VVIMGRKTWESIPAKFRPLPNRINIVIS.RNAK.t.DELp-G............N................. # 11100_chars2 RN.VVIMGRKTWESIPAKFRPLPNRINIVIS.RNAK.t.DELp-G............N................. # 11101_chars2 RN.VVIMGRKTWESIPAKFRPLPNRINIVIS.RNAK.t.DELp-G............N................. # 11110_chars2 RN.VVIMGRKTWESIPAKFRPLPNRINIVIS.RNAK.t.DELp-G............N................. # 11111_chars2 RN.VVIMGRKTWESIPAKFRPLPNRINIVIS.RNAK.t.DELp-G............N................. # poss remove: ^ and/or perhaps next should be D? Yes. ## Should the initial M in the below be back one (align vs l et al) and M be a gap? !!! # # 0010_KD RN.VVIMGRKTWESIPPKFRPLKNRINIVIS.RNSK.T.DEL.DG............N................. # 0010_KP RN.VVIMGRKTWESIPPKFRPLKNRINIVIS.RNSK.T.DEL.DG............N................. # 0010_QD RN.VVIMGRKTWESIPPKFRPLKNRINIVIS.RNSK.T.DEL.DG............N................. # 0010_QP RN.VVIMGRKTWESIPPKFRPLKNRINIVIS.RNSK.T.DEL.DG............N................. # 0011_KD RN.VVIMGRKTWESIPAKFRPLPNRINIVLS.RNSK.T.DEL.EG............D................. # 0011_KP RN.VVIMGRKTWESIPAKFRPLPNRINIVLS.RNSK.T.DEL.EG............D................. # 0011_QD RN.VVIMGRKTWESIPAKFRPLPNRINIVLS.RNSK.T.DEL.EG............D................. # 0011_QP RN.VVIMGRKTWESIPAKFRPLPNRINIVLS.RNSK.T.DEL.EG............D................. # ^ D doesn't work here with L right before... I note "G" below. DYR_SCHPO_1 MN.VVIMGRSCYDSLPKKNRPLKDRINIVIT.RNSN.y.NF-.-G.ltkkekmpe..n................. DYR_SCHPO_2 -N.VVIMGRSCYDSLPKKNRPLKDRINIVIT.RNSN..yN-F.-G.ltkkekmpe..n................. DYR_PNECA MN.VVLMGRKTWESIPLQFRPLKGRINVVIT.RNES..lD-LgNG.............................. AAF14071 MN.VVLMGRKTWESLPAHSRPLKNRINVVIS.RQEV..lD-LgGG.............................. AAL25720 MN.VVLMGRKTWESLPERFRPLKGRINVVIS.RQEV..lD-LgQG.............................. AAT99406 MN.VVLMGRKTWESLPAHSRPLKNRINVVIS.RQEV..lD-LgGG.............................. AAT99411 MN.VVLMGRKTWESLPAHSRPLKNRINVVIS.RQEV..lD-LgGG.............................. AAT99412 MN.VVLMGRKTWESLPAHSRPLKNRINVVIS.RQEV..lD-LgGG.............................. AAT99413 MN.VVLMGRKTWESLPAHSRPLKNRINVIIS.RQEV..lD-LgGG.............................. AAT99417 MN.VVLMGRKTWESLPAHSRPLKNRINVVIS.RQEV..lD-LgGG.............................. ABB84704 MN.VVLMGRKTWESLPAHSRPLKNRINVVIS.RQEV..lD-LgGG.............................. ABB84712 MN.VVLMGRKTWESLPAHSRPLKNRINVVIS.RQEV..lD-LgGG.............................. ABB84716 MN.VVLMGRKTWESLPAHSRPLKNRINVVIS.RQEV..lD-LgGG.............................. ABB84718 MN.VVLMGRKTWESLPAHSRPLKNRINVVIS.RQEV..lD-LgGG.............................. ABB84720 MN.VVLMGRKTWESLPAHSRPLKNRINVVIS.RQEV..lD-LgGG.............................. ABB84722 MN.VVLMGRKTWESLPAHSRPLKNRINVVIS.RQEV..lD-LgGG.............................. ABB84726 MN.VVLMGRKTWESLPAHSRPLKNRINVVIS.RQEV..lD-LgGG.............................. ABB84744 MN.VVLMGRKTWESLPAHSRPLKNRINVVIS.RQEV..lD-LgGG.............................. ABB84751 MN.VVLMGRKTWESLPAHSRPLKNRINVVIS.RQEV..lD-LgGG.............................. ABF06467 MN.VVLMGRKTWESLPAHSRPLKNRINVVIS.RQEV..lD-LgGG.............................. ABF06468 MN.VVLMGRKTWESLPAHSRPLKNRINVVIS.RQEV..lD-LgGG.............................. ABF06469 MN.VVLMGRKTWESLPAHSRPLKNRINVVIS.RQEV..lD-LgGG.............................. ABF06470 -N.VVLMGRKTWESLPAHSRPLKNRINVVIS.RQEV..lD-LgGG.............................. Q6CC38_YARLI_1 KNaVVIMGRTTWDSIPPKFRPLPDRTNIVLTsRPMT...D-ApEE.............................. Q6CC38_YARLI_2 KNaVVIMGRTTWDSIPPKFRPLPDRTNIVLTsR-PM.t.D-ApEE.............................. CAG60823_1 QN.VVIMGRKTWESIPQKFRPLPKRINVVVS.RSFDgelRKVeDG.............................. CAG60823_2 QN.VVIMGRKTWESIPQKFRPLPKRINVVVS.RSFDgelRKVeDG.............................. AAS51350_1 RN.AVVMGRKTWESIPARWRPLPGRLNVVVS.RTYTsp.-WAhDE............n.......gh........ AAS51350_2 RN.AVVMGRKTWESIPARWRPLPGRLNVVVS.RTYT.sp-WAhDE............n.......gh........ DYR_YEAST_1 KN.ALIMGRKTWESIPPKFRPLPNRMNVIIS.RSFKd..DFVhDK............e........r..s..... DYR_YEAST_2 KN.ALIMGRKTWESIPPKFRPLPNRMNVIIS.RSFK.d.DFVhDK............e........r..s..... EDN63566_1 KN.ALIMGRKTWESIPPKFRPLPNRMNVIIS.RSFKg..DFVhDK............e........r..s..... EDN63566_2 KN.ALIMGRKTWESIPPKFRPLPNRMNVIIS.RSFK.g.DFVhDK............e........r..s..... CAA68779_1 KN.ALIMGRKTWESIPPKFRPLPNRMNVIIS.RSFKd..DFVhDK............e........r..s..... CAA68779_2 KN.ALIMGRKTWESIPPKFRPLPNRMNVIIS.RSFK.d.DFVhDK............e........r..s..... CAG86485_1 IN.AVIMGRKTWESIPTKFRPLPGRLNIVLS.RSYVs..HGSnDE............d................. CAG86485_2 -N.AVIMGRKTWESIPTKFRPLPGRLNIVLS.RSYV.s.HGSnDE............d................. ABN65593_1 -N.AVVMGRKTWDSIPARFRPLPDRINIVLS.RSFQ...NETvDT............n................. ABN65593_2 IN.AVVMGRKTWDSIPARFRPLPDRINIVLS.RSFQ.n.ETV.DT............n................. ## DYR_CANAL_1 RN.AVIMGRKTWESIPQKFRPLPDRLNIILS.RSYE.n.KII.DD............n................. DYR_CANAL_2 RN.AVIMGRKTWESIPQKFRPLPDRLNIILS.RSYE...NKIiDD............n................. ## 1J3KA QN.VVVMGRTSWESIPKKFKPLSNRINVILS.RTLK.k.EDF.DE............d................. #=GR 1J3KA SS CC.EEEEEHH-HHHHGGGGGSCCCCEEEEEC.CCCG.G.GGG.CC............C................. ## ?Cap IIa?: ^^ ^ ^ ## ?Cap VIIa?: ^ ^^ ^ ## Phi/Psi: EE.EEEEEHHCGGGEEGGGeECELEEEEEEC.GHEE.G.GGE.GE............C................. #=GR 1J3KA LI ........***..................**.**......................................... #=GR 1J3KA SA 00.0000035104214774130440100010.7725.6.651.92............8................. ## Hydrophobic: --.++++----+--+---+--+---+-+++-.--+-.-.--+.--............-................. 1J3KB QN.VVVMGRTSWESIPKKFKPLSNRINVILS.RTLK.k.EDF.DE............d................. #=GR 1J3KB SS EE.EEEEEHH-HHHHCCCCCSCCCEEEEEEC.CCCC.C.CCC.CC............C................. ## Phi/Psi: EE.EEEEECCHHHHC1HGCeECCLEEEEEEE.GCEE.G.CCC.EH............G................. #=GR 1J3KB LI ........***..................**.**......................................... #=GR 1J3KB SA 10.0000035104313786240550100010.8734.6.672.59............6................. ## Hydrophobic: --.++++----+--+---+--+---+-+++-.--+-.-.--+.--............-................. ## Non-Pro: ........................*.................................................. ## Gly-Req: ........................................................................... 1J3IA QN.VVVMGRTSWESIPKKFKPLSNRINVILS.RTLK.k.EDF.DE............d................. #=GR 1J3IA SA 20.0000025105315874130550100000.7725.6.651.93............8................. #=GR 1J3IA S2 2B.BBBB02510531587413055010BB00.7725.6.651.93............8................. 1J3IB QN.VVVMGRTSWESIPKKFKPLSNRINVILS.RTLK.k.EDF.DE............d................. #=GR 1J3IB SA 10.0000035104314875230650000010.6535.5.782.58............4................. #=GR 1J3IB S2 10.BBBB035104314875230650000B10.6535.5.782.58............4................. DRTS_PLACH QN.IVVMGKASWESIPSKFKPLQNRINIILS.RTLK.k.EDLaKE..y.........d...........n..... Q7RGH7_PLAYO QN.VVVMGKRSWDSIPPKFKPLQNRINIILS.RTLK.k.EDIaNE............dnknnengt......... Q95US9_PLAGA QN.VVVMGRTSWESIPERFRPLVNRINVVLS.RSLK.k.EDI.KG............d................. ## 139 2BL9A QN.VVVMGRSSWESIPKQYKPLPNRINVVLS.KTLT.k.EDV.KE............k................. #=GR 2BL9A SS CE.EEEEEHHHHHHCGGGGGSCCCEEEEEEC.CCCC.C.CCC.CC............C................. ## Phi/Psi: EE.EEEEEHHHHHGEECGGeEEELEEEEEEC.CCEE.G.HGE.HE............E................. #=GR 2BL9A LI .......****..**..............**.**......................................... ## Non-Pro: ........................*.................................................. ## Gly-Req: ........................................................................... #=GR 2BL9A SA 10.0000035204314565020650100000.6614.7.660.71............7................. ## Hydrophobic: --.++++----+--+---?--+---+-+++-.--+-.-.--+.--............-................. DRTS_PLAVI QN.VVVMGRSSWESIPKQYKPLPNRINVVLS.KTLT.k.EDV.KE............k................. DRTS_PLAVN QN.IVVMGKTSWESIPSKFKPLENRINIILS.RTLK.k.ENLaKE..y......s..n................. AAV33644 QN.IVVMGRSSWESIPKQYKPLPNRINVVLS.KTLT.q.EEV.KE............k................. AAV33645 QN.VVVMGRSSWESIPKQYKPLPNRINVVLS.KTLT.y.EHV.KE............k................. ## 1SEJC KN.ALIMGRKTWDSIGR--RPLKNRIIVVIS.SSLP.q.DEA.DP............n................. #=GR 1SEJC SS EE.EEEEEHHHHHHHCC--CCCCCCEEEEEC.CCCC.C.CCC.CC............C................. ## Phi/Psi: EE.EEEEEHCGGGHGLC--EEECLEEEEEEE.GCCC.C.CCC.EG............G................. #=GR 1SEJC LI ......*.*.*...*..--..*..*....**.*.......................................... #=GR 1SEJC NP .................--......................*................................. #=GR 1SEJC GR .................--........................................................ #=GR 1SEJC SA 20.00000361034344--631740100000.7616.4.387.27............2................. ## Hydrophobic: --.?+++----+--+--..--+---+++++-.--+-.-.--?.--............-................. 1QZFD KN.ALIMGRKTWDSIGR--RPLKNRIIVVIS.SSLP.q.DEA.DP............n................. #=GR 1QZFD SA 20.00000261034344--631740100000.7606.4.387.27............2................. #=GR 1QZFD S2 20.0BB00261034344--6317401B0000.7606.4.387.27............2................. AAC47229 KN.ALIMGRKTWDSIGR--RPLKNRKIVVIS.SSLP.q.DEA.DP............n................. ## 87 CAI76538 EN.VIIIGRNTYDSLPESVFPLKNRINIVIS.RNLT...E-VpGG.............................. EAN31856 QN.VIIIGRKTYDSLPEGTFPLKNRINVVIS.RNLT...E-VpGG.............................. EAR85731 QN.AVIMGKNTWEALPKKQQPLKDRLNIVIS.TTMQ.e.GQI.AD.........h..s................. ## ^ ^ I suppose the first one (TRP) _could_ be doing H-bonding from N on ring... DRTS_TRYBB RN.AVVMGRKTWDSLPPKFRPLSNRLNVVLS.RSAT.k.EQLlAG.i......pdp.ikraeaan.d........ AAX78868 RN.AVVMGRKTWDSLPPKFRPLSNRLNVVLS.RSAT.k.EQLlAG.i......pdp.ikraeaan.d........ DRTS_TRYCR RN.AVVMGRKTWDSIPPKFRPLPGRLNVVLS.STLT.t.QHLlDG.l......pdee.krnlha..d..s..... AAK71184 RN.AVVMGRKTWDSIPPKFRPLPGRLNVVLS.STLT.t.QHLlDG.l......pdee.krnlya..d..s..... AAK71177 RN.AVVMGRKTWDSIPPKFRPLPGRLNVVLS.STLT.t.QHLlDG.l......pdee.krnlha..d..s..... Q95NI3_TRYCR RN.AVVMGRKTWDSIPPKFRPLPGRLNVVLS.STLT.t.QHLlDG.l......pdee.krnlha..d..s..... Q95NT2_TRYCR RN.AVVMGRKTWDSIPPKFRPLPGRLNVVLS.STLT.t.QHLlDG.l......pdee.krnlha..d..s..... DRTS_LEIAM RN.AVVMGRKTWESVPVKFRPLKGRLNVVLS.SKAT..vEELlAP.l......p.ee.kraaaaq.d........ DRTS_LEIMA RN.AVVMGRKTWESVPVKFRPLKGRLNIVLS.SKAT..vEELlAP.l......p.e.gqraaaaq.d........ AAA29272 R-.-VVMGRKTWESVPVKFRPLKGRLNIVLS.SKAT..vEELlAP.l......p.e.gqraaaar.........m Q8MXB7_LEITR RN.AVVMGRKTWESVPVKFRPLKGRLNIVLS.SKAT..vEELlAP.l......p.ee.kraaaeq.d........ Q8MQV1_LEICH RN.AVVMGRKTWESVPVKFRPLKGRLNIVLS.SKAT..vEELlAP.l......p.e.gkraaaaq.d........ DRT1_ARATH KN.AVVMGRKTWESIPIKYRPLSGRLNVVLT.RSGG..fD-I.A-t.........e.n........n........ DRTS_SOYBN KN.AIVMGRKTWESIPLEYRPLSGRLNVVLT.RSGS..fD-I.A-ta........e.n................. Q2R481_ORYSA KN.AVIMGRKTWESLPLKARPLPGRLNIILT.RSGS..fE-F.A-tv........e.n................. DRTS_MAIZE KN.AVIMGRKTWESIPVKSRPLPGRLNVILT.RSGS..fD-F.A-tv........e.n................. #=GC RF XX.XXXXXXXXXXXXXXXXXXXXXXXXXXXX.XXXX...XXX.XX.............................. #=GC SS_cons EE.EEEEEHHHHHGGGG..GSCCCEEEEEEC.CCCC.C.CCC.CC............C................. ## S is cis proline #=GC seq_cons QN..llMG.KTW.SIP...RPLK.RINlVLS.R.LK...-PP..G............A................. #=GC LI_cons ........*.*...*.........*.....*.*.......................................... ## Human Lys-54 (or equivalent Arg in various others) as ## involved in ligand binding: Biochemistry 1990, 29, 8063-8069; ## Role of Lysine-54 in Determining Cofactor Specificity and Binding in ## Human Dihydrofolate Reductase ## May wish to take _out_ Arg-70 as RF X for C. albicans work, however, ## given that Arg->Lys results in massively dropped binding of MTX, ## pH dependence looking rather more like that for C. albicans, lower ## levels of urea being best for activating, etcetera by ## Conversion of Arginine to Lysine at Position 70 of Human Dihydrofolate ## Reductase article... think may have more to do with alterations in loop, however - ## albicans seems clearly to have corresponding residue. #=GC AS_cons ........................................................................... #=GC SA_cons 30.0000035204314...220640100000.7726.6.651.82............1................. ## Helix cap: ^ ^^ ## Seq_cons2 QN.LVIMGRKTWXSIPEKNRPLKNRINIVLS.KXLK..xExxxEG............axxxxx............ ## Hydrophobic: --.++++----+.-+------+---+-+++-.-.+-...-...--............?................. ## Fifth section 1U70A HFLAK.SLDDAL.RLIEq.p.el....asKVDMVWI...........VGGSSVYQEAM....NQ..............PG..HLRLFVTRI.M #=GR 1U70A SS CEEEC.HHHHHH.HHHHH.H.HH....HHCEEEEEE...........EEHHHHHHHHH....HC..............CC..CEEEEEEEE.C ## ^^ Check on this - I suspect it's actually cis or ## otherwise such that both of these have to be gly... ## Phi/Psi: HEEEG.CHHHHH.HHHGE.G.GC....CCCCCEEEE...........CE2GHHHHHHH....GC..............C2..EEEEEEEEE.C #=GR 1U70A LI ................................................***..*....................................... #=GR 1U70A NP ................................................*............................................ #=GR 1U70A GR .................................................G.............................G............. #=GR 1U70A SA 42106.303301.42043.7.60....264012000...........00215004300....71..............83..102000010.3 ## Hydrophobic: -++?-.-+--?+.-++--.-.-+....?--+-++++...........+----+?--?+....--..............--..-+-+++--+.+ ## ?Cap IIa: ^^ ^ ^ DYR_RAT HFLAK.SLDDAL.KLIEq.p.el....asKVDMVWV...........VGGSSVYQEAM....NQ..............PG..HLRLFVTRI.M DYR_MESAU HFLAK.SLDDAL.KLIEq.p.el....adKVDMVWI...........VGGSSVYKEAM....NQ..............PG..HLRLFVTRI.M Q78EH1_9RODE HFLAK.SLDNAL.KLIEq.p.el....adKVDMVWI...........VGGSSVYKEAM....NQ..............PG..HLRLFVTRI.M ## 139 1U72A HFLSR.SLDDAL.KLTEq.p.el....anKVDMVWI...........VGGSSVYKEAM....NH..............PG..HLKLFVTRI.M #=GR 1U72A SS CEEEC.HHHHHH.HHCCH.H.HH....HHCEEEEEE...........ESHHHHHHHHH....CC..............CC..CEEEEEEEE.C ## Phi/Psi: GEEEG.EHHHHH.HHHGE.G.CG....GGGECEEEE...........C81CHHHGCHG....CE..............E4..EEEEEEEEE.G #=GR 1U72A NP .*..............................................*............................................ #=GR 1U72A GR ................................................GG.............................G............. #=GR 1U72A LI ...............................................*..**...*.................................*... ## ^ appears to bind to N ring of nicotinamide in NADPH #=GR 1U72A AS ............................................................................................. ## ^ Interacts with MTX - ## see Biochemistry 1991, 30, 8124 - however, is H-bond, so seems unlikely ## to be altered by altering residue (unless goes to Pro!) #=GR 1U72A SA 42105.004201.51063.7.50....364001000...........00226005500....62..............72..401000010.3 ## Hydrophobic: -++--.-+--?+.-+---.-.-+....?--+-++++...........+----+?--?+....--..............--..-+-+++--+.+ 1PD8A HFLSR.SLDDAL.KLTEq.p.el....anKVDMVWI...........VGGSSVYKEAM....NH..............PG..HLKLFVTRI.M #=GR 1PD8A SS CEEEC.HHHHHH.HHHHC.C.GG....GGCEEEEEE...........CSHHHHHHHHH....CC..............CC..EEEEEEEEE.C #=GR 1PD8A GR ................................................GG.............................G............. #=GR 1PD8A SA 42105.204300.51062.8.40....364001000...........00114005400....72..............63..400000010.2 ## Hydrophobic: -++--.-+--?+.-+---.-.-+....?--+-++++...........+----+?--?+....--..............--..-+-+++--+.+ 1DHFB HFLSR.SLDDAL.KLTEq.p.el....anKVDMVWI...........VGGSSVYKEAM....NH..............PG..HLKLFVTRI.M #=GR 1DHFB LI ...............................................*..**...*.................................*... #=GR 1DHFB AS ............................................................................................. ## 1DHFA SA 42104.2034X0.32164.7.61....34402210X...........002260052X0....71..............84..401000010.2 #=GR 1DHFB SA 42103.304401.52154.7.61....364022000...........00215005400....62..............75..401000010.3 #=GR 1DHFB S2 42103.3044B1.52154.7.61....36402200B...........002150054B0....62..............75..401B00010.3 XP_001110551 HFLAR.SLDDAL.KLTEq.p.el....anKVDMIWI...........VGGSSVYKEAM....NH..............PG..HLKLFVTRI.M XP_001134992 HFLSR.SLDDAL.KLTEq.p.el....asKVDMVWI...........VGGSSVYKEAM....NH..............PG..HLKLFVTRI.M XP_851329 HFLAK.SLDDAL.KLTEq.p.el....anKVDMVWI...........VGGSSVYKEAM....NK..............PG..HLRLFVTRI.M XP_536308 HFLAK.SLDDAL.KLTEq.p.el....anKVDMVWI...........VGGSSVYKEAM....NK..............PG..HLRLFVTRI.M DYR_PIG HFLAK.SLDDAL.KLTEq.p.el....kdKVDMVWI...........VGGSSVYKEAM....NK..............PG..HIRLFVTRI.M DYR_BOVIN HFLAK.SLDDAL.ELIEd.p.el....tnKVDVVWI...........VGGSSVYKEAM....NK..............PG..HVRLFVTRI.M P00376 HFLAK.SLDDAL.ELIQd.p.el....tnKVDVVWI...........VGGSSVYKEAM....NK..............PG..HVRLFVTRI.M Q29RI1_BOVIN HFLAK.SLDDAL.ELIEd.p.el....tnKVDVVWI...........VGGSSVYKEAM....NK..............PG..HVRLFVTRI.M PLACENT HFLAK.SLDDAL.KLIEq.p.el....anKVDMVWI...........VGGSSVYKEAM....NK..............PG..HLRLFVTRI.M #=GR PLACENT SA 42105.103101.52064.7.40....254000000...........01116005200....62..............73..101000010.3 ## POSS1: HFLAK.SLDDAL.KLIEQ.P.EL....ANKVDMVWI...........VGGSSVYKEAM....NK..............PG..HLRLFVTRI.M ##nonrot.full2 42105.1B32B1.52064.7.40....254B0000B...........01107005200....61..............73..001B0BB1B.2 ##mmtp.full 42105.1031B3.52064.7.40....254B0000B...........01115005200....62..............83..101B0BB1B.3 ##mmtp.fullSS HEEEH.EHHHHG.GGHHE.C.GG....GCHECEEEE...........C22GCCCHHCG....HE..............E4..EEECEECEE.G ## POSS2: HFLAK.SLDDAL.KLTEQ.P.EL....ANKVDMVWI...........VGGSSVYKEAM....NK..............PG..HLRLFVTRI.M XP_001363618 HYLAS.SLDNAL.NLLEl.p.el....adKVDMVWI...........VGGSSVYKEAM....NK..............PG..HQRLFITRI.L ## 8DFR0 HYLSK.SLDDAL.ALLDs.p.el....ksKVDMVWI...........VGGTAVYKAAM....EK..............PI..NHRLFVTRI.L #=GR 8DFR0 SS CEEEC.HHHHHH.HHHHH.H.HH....HHCEBBEEE...........BSHHHHHHHHH....HH..............CC..EEEEEEEEE.E ## Phi/Psi: GEEEG.EHCHHH.CGHGE.C.CC....CGGECEEEE...........C61CHHHHHHH....GE..............CC..CEEEEEEEE.C ## ^^ down as both sheet, helix ## Bs are "beta-bulge" #=GR 8DFR0 NP ......*.........................................*............................................ #=GR 8DFR0 GR ................................................GG........................................... #=GR 8DFR0 SA 42004.304400.52032.8.60....462000000...........00135004200....52..............71..303000010.1 ## Hydrophobic: -?+--.-+--?+.|++--.-.-+....---+-++++...........+---?+?-??+....--..............-+..---+++--+.+ 1DR10 HYLSK.SLDDAL.ALLDs.p.el....ksKVDMVWI...........VGGTAVYKAAM....EK..............PI..NHRLFVTRI.L #=GR 1DR10 SS CEEEC.HHHHHH.HHHHH.H.HH....HHCEBBEEE...........BSHHHHHHHHH....HH..............CC..EEEEEEEEE.E ## ^^ down as both sheet, helix ## Bs are "beta-bulge" #=GR 1DR10 LI ...............................................**..**........................................ ## ^ appears to bind to N ring of nicotinamide in NADPH ## Phi/Psi: CEEEG.EHGGHH.HHHGE.H.HC....CGGECEEEE...........G51CHHHCCHH....GE..............CC..CEEEEEEEE.C #=GR 1DR10 GR ................................................GG........................................... #=GR 1DR10 SA 43104.304400.52032.8.20....563021000...........00135004300....52..............71..303000010.2 ## Hydrophobic: -?+--.-+--?+.|++--.-.-+....---+-++++...........+---?+?-??+....--..............-+..---+++--+.+ AGA HYLAK.SLDDAL.KLLEs.p.el....kdKVDMVWI...........VGGSSVYKEAM....EK..............PG..HQRLFVTRI.L #=GR AGA SA 42103.203201.52042.8.40....454011000...........01116004200....51..............71..001000020.3 ## AGfullSA2 42103.203201.52042.8.40....45401100B...........011160042B0....51..............71..001B0002B.3 ## AGfull2SA2 42103.203201.52042.8.40....45401100B...........011160042B0....51..............71..001B0002B.3 ## AG: HYLAK.SLDDAL.KLLES.P.EL....KDKVDMVWI...........VGGSSVYKEAM....EK..............PG..HQRLFVTRI.L ## AI: HYLAK.SLDDAL.KLLES.P.EL....KDKVDMVWI...........VGGSSVYKEAM....EK..............PI..NQRLFVTRI.L ## PG: HYLAK.SLDDAL.KLLES.P.EL....KDKVDMVWI...........VGGSSVYKEAM....EK..............PG..HQRLFVTRI.L PGV HYLAK.SLDDAL.KLLEs.p.el....kdKVDMVWI...........VGGSSVYKEAM....EK..............PG..HQRLFVTRI.L #=GR PGV SA 42104.203201.52052.8.40....354010000...........01115004200....51..............52..101000010.3 ## PGVYSfullSA2 42104.203201.52052.8.40....35401000B...........01115004200....51..............52..101B0001B.3 ## PGVYSfull2S2 42104.2B3201.52052.8.40....354010000...........01115004100....51..............52..101B0001B.3 ## PI: HYLAK.SLDDAL.KLLES.P.EL....KDKVDMVWI...........VGGSSVYKEAM....EK..............PI..NQRLFVTRI.L Q5U543_XENLA HYLSK.SLTEAI.DLLEd.p.el....kdKVDLVWI...........IGGSSLYQELM....EK..............PI..NQRWFVTRI.L ENSXETP49617 HYLSK.SLAEAI.DLLEd.p.el....kdKVDLVWV...........IGGSSLYQELM....EK..............PV..NQRWFVTRI.L AAK01951 HYLAS.DFSSAL.HLLDs.g.el....ekLVDQVWI...........IGGSSLYKEVM....ER..............SG..HRRLFVTRI.L CAM14042 HYLAS.DFSSAL.HLLDs.g.el....ekLVDQVWI...........IGGSSLYKEVM....ER..............SG..HRRLFVTRI.L NP_571850 HYLAS.DFSSAL.HLLDs.g.el....ekLVDQVWI...........IGGSSLYKEVM....ER..............SG..HRRLFVTRI.L XP_001176553 H-LCS.SLNEAV.KLFSs.p.pl....seTVDMVWI...........TGGSAVYKDGI....DS..............PH..CHRIYLTRI.M ## EED: HFLAK.SLDEAL.KLLEs.p.el...dkdKVDMVWI...........IGGSSVYKEAM....ES..............PR..CHRLYLTRI.L ## EEK: HFLAK.SLDEAL.KLLEs.p.el...kkdKVDMVWI...........IGGSSVYKEAM....ES..............PR..CHRLYLTRI.L ## KED: HFLAK.SLDEAL.KLLEs.p.el...dkdKVDMVWI...........IGGSSVYKEAM....ES..............PR..CHRLYLTRI.L ## KEK: HFLAK.SLDEAL.KLLEs.p.el...kkdKVDMVWI...........IGGSSVYKEAM....ES..............PR..CHRLYLTRI.L ## K_D: HFLAK.SLDEAL.KLL-s.p.el...dkdKVDMVWI...........IGGSSVYKEAM....ES..............PR..CHRLYLTRI.L ## K_K: HFLAK.SLDEAL.KLL-s.p.el...kkdKVDMVWI...........IGGSSVYKEAM....ES..............PR..CHRLYLTRI.L ## _EED: HFLAK.SLDEAL.KLLEs.p.el...dkdKVDMVWI...........IGGSSVYKEAM....ES..............PR..CHRLYLTRI.L ## _E_SKFED: HFLAK.SLDEAL.KLLEs.p.el...dkdKVDMVWI...........IGGSSVYKEAM....ES..............PR..CHRLYLTRI.L ## _E_GKFED: HFLAK.SLDEAL.KLLEs.p.el...dkdKVDMVWI...........IGGSSVYKEAM....ES..............PR..CHRLYLTRI.L ## _EE_D: HFLAK.SLDEAL.KLLEs.p..l...dkdKVDMVWI...........IGGSSVYKEAM....ES..............PR..CHRLYLTRI.L ## _EAED: HFLAK.SLDEAL.KLLEs.p.el...dkdKVDMVWI...........IGGSSVYKEAM....ES..............PR..CHRLYLTRI.L ## _EASKFED: HFLAK.SLDEAL.KLLEs.p.el...dkdKVDMVWI...........IGGSSVYKEAM....ES..............PR..CHRLYLTRI.L ## _EAGKFED: HFLAK.SLDEAL.KLLEs.p.el...dkdKVDMVWI...........IGGSSVYKEAM....ES..............PR..CHRLYLTRI.L ## _E_EDQ: HFLAK.SLDEAL.KLLEs.p.el...dkdKVDMVWI...........IGGSSVYKEAM....ES..............PR..CHRLYLTRI.L ES HFLAK.SLDEAL.KLLEs.p.el...dkdKVDMVWI...........IGGSSVYKEAM....ES..............PR..CHRLYLTRI.L #=GR ES SA 42202.103300.53062.8.40...1553022000...........11116004200....51..............94..503000010.3 ## S2: 42202.103300.53062.8.40...15530220B0...........111160042B0....51..............94..503B00B10.3 ## _E_GKFEDQ: HFLAK.SLDEAL.KLLEs.p.el...dkdKVDMVWI...........IGGSSVYKEAM....ES..............PR..CHRLYLTRI.L ## _EAEDQ: HFLAK.SLDEAL.KLLEs.p.el...dkdKVDMVWI...........IGGSSVYKEAM....ES..............PR..CHRLYLTRI.L ## _EASKFEDQ: HFLAK.SLDEAL.KLLEs.p.el...dkdKVDMVWI...........IGGSSVYKEAM....ES..............PR..CHRLYLTRI.L ## _EAGKFEDQ: HFLAK.SLDEAL.KLLEs.p.el...dkdKVDMVWI...........IGGSSVYKEAM....ES..............PR..CHRLYLTRI.L ## _EEK: HFLAK.SLDEAL.KLLEs.p.el...kkdKVDMVWI...........IGGSSVYKEAM....ES..............PR..CHRLYLTRI.L ## _KED: HFLAK.SLDEAL.KLLEs.p.el...dkdKVDMVWI...........IGGSSVYKEAM....ES..............PR..CHRLYLTRI.L ## _KE_D: HFLAK.SLDEAL.KLLEs.p..l...dkdKVDMVWI...........IGGSSVYKEAM....ES..............PR..CHRLYLTRI.L ## _KAED: HFLAK.SLDEAL.KLLEs.p.el...dkdKVDMVWI...........IGGSSVYKEAM....ES..............PR..CHRLYLTRI.L ## _KAEDQ: HFLAK.SLDEAL.KLLEs.p.el...dkdKVDMVWI...........IGGSSVYKEAM....ES..............PR..CHRLYLTRI.L ## _KASKFED: HFLAK.SLDEAL.KLLEs.p.el...dkdKVDMVWI...........IGGSSVYKEAM....ES..............PR..CHRLYLTRI.L ## _KASKFEDQ: HFLAK.SLDEAL.KLLEs.p.el...dkdKVDMVWI...........IGGSSVYKEAM....ES..............PR..CHRLYLTRI.L ## _KAGKFED: HFLAK.SLDEAL.KLLEs.p.el...dkdKVDMVWI...........IGGSSVYKEAM....ES..............PR..CHRLYLTRI.L KAG HFLAK.SLDEAL.KLLEs.p.el...dkdKVDMVWI...........IGGSSVYKEAM....ES..............PR..CHRLYLTRI.L #=GR KAG SA 42102.203300.63052.9.50...0545012000...........11135005200....61..............93..603010010.3 ## S2: 42102.203300.63052.9.50...054501200B...........11135005200....61..............93..603B10B10.3 ## _KEK: HFLAK.SLDEAL.KLLEs.p.el...kkdKVDMVWI...........IGGSSVYKEAM....ES..............PR..CHRLYLTRI.L ## _K_D: HFLAK.SLDEAL.KLL-s.p.el...dkdKVDMVWI...........IGGSSVYKEAM....ES..............PR..CHRLYLTRI.L ## _K_K: HFLAK.SLDEAL.KLL-s.p.el...kkdKVDMVWI...........IGGSSVYKEAM....ES..............PR..CHRLYLTRI.L XP_973338 CFSFK.SLDEVIsKLQDek.f......qqLYENVWV...........IGGSYIYEATM....AS..............KY..FHRLYLTKV.L EAL28532 VVLCH.SLEEAM.KHLEee.t.l....rdQIENVWI...........VGGSGVYEEAM....AS..............SR..CNRLYITKI.Q DYR_DROME VLLCP.NLETAM.KILEe.........qnEVENIWI...........VGGSGVYEEAM....AS..............PR..CHRLYITKI.M AAA19051 VLLCP.NLETAM.KILEe.........qnEVENIWI...........VGGSGVYEEAM....AS..............PR..CHRLYITQI.M XP_393902 VIVCK.NIPHAF.EVIEk....i....kdRIENIWV...........TGGSSVYKEAM....ES..............PN..FYRLYLTRI.K Q7Q0L5_ANOGA VLVCG.SLQEAL.HKLDs..td.h...geHIENIWV...........VGGNSVYKEAM....ES..............DR..CHRIYLTEI.K DYR_CAEEL_1 YIVVN.SLEAAM.KLLSeppf......vdSIETIWN...........IGGAEIYDLAL....RE..............NL..VDEIHLTRI.F Q61DT5_CAEBR_1 LIVVN.SLESAL.KLLSeapf......vdSIETIWN...........IGGAEIYDLAL....RE..............NL..VDEIHLTRI.H DYR_CAEEL_2 YIVVN.SLEAAM.KLLSeppf.v.....dSIETIWN...........IGGAEIYDLAL....RE..............NL..VDEIHLTRI.F Q61DT5_CAEBR_2 LIVVN.SLESAL.KLLSeapf.v.....dSIETIWN...........IGGAEIYDLAL....RE..............NL..VDEIHLTRI.H ## ## 1100_SVFQ VFVVN.SLDEAL.KLLSTtPfEL...DVDKIENVFV...........IGGSSVYKEAL....EH..............PR..CDRIYLTRI.L ## 1111_GTF VFVVN.SLDEAL.KLLSttpfel...dvdKIENVFV...........IGGSSVYKEAL....EH..............PR..CDRIYLTRI.L ## 1111_GVF VFVVN.SLDEAL.KLLSTtPfEL...DVDKIENVFV...........IGGSSVYKEAL....EH..............PR..CDRIYLTRI.L 1111_STF VFVVN.SLDEAL.KLLSttpfel...dvdKIENVFV...........IGGSSVYKEAL....EH..............PR..CDRIYLTRI.L ## 1111_SVF VFVVN.SLDEAL.KLLSTtPfEL...DVDKIENVFV...........IGGSSVYKEAL....EH..............PR..CDRIYLTRI.L ## ## 1111_chars2 VFLVN.SLDEAL.KLLSTtPfEL...DVDSIENVFV...........IGGSSVYKEAL....EH..............PR..VDRIYLTRI.L ## AAQ02615_1 VHIVD.SFDLAVtKAYN.lp.........NIENVFV...........IGGSSVYAEAM....KH..............PQ..CKTIYYTNI.L AAQ02617_1 VHIVD.SFDLAVtKAYN.lp.........NIENVFV...........IGGSSVYAEAM....KH..............PQ..CKTIYYTNI.L AAQ02619_1 VHIVD.SFELAVtKAYS.lp.........NIENVFV...........IGGSSVYAEAM....KH..............PQ..CKTIFYTNI.L AAQ02621_1 VHIVD.SFELAVtKAYS.lp.........NIENVFV...........IGGSSVYAEAM....KH..............PQ..CKTIFYTNI.L AAQ02615_2 VHIVD.SFDLAV.TKAYnlp.........NIENVFV...........IGGSSVYAEAM....KH..............PQ..CKTIYYTNI.L AAQ02617_2 VHIVD.SFDLAV.TKAYnlp.........NIENVFV...........IGGSSVYAEAM....KH..............PQ..CKTIYYTNI.L AAQ02619_2 VHIVD.SFELAV.TKAYslp.........NIENVFV...........IGGSSVYAEAM....KH..............PQ..CKTIFYTNI.L AAQ02621_2 VHIVD.SFELAV.TKAYslp.........NIENVFV...........IGGSSVYAEAM....KH..............PQ..CKTIFYTNI.L DYR_ENCCU_1 TFFIQ.TFE-AL.DSLPlpp...s....s---MTFV...........IGGRDVYSLAL....ES..............GRphL--IFATEV.F DYR_ENCCU_2 TFFIQ.TFE-AL.DSLP.lp.....p...S-SMTFV...........IGGRDVYSLAL....ES............grPH..L--IFATEV.F EAK84413 ARVFS.SVEQALiHLAT..p.qas...i.S--RVFV...........IGGAQMYTDLLdfhsSL..............AT..VDKLLVTRI.L BAC75955 ARLAN.SLSSGL.RHLTtt..d...g.l.TVNRIFV...........IGGASLYRETL....SL.a.rskt.......PF..VDRILLTRI.V DYR_CRYNE TVYTD.-IPSALsALRStt..e.s.gh.sP--RIFL...........IGGATLYTSSL.lpsSVpslnsststsplpfSRplIDRILLTRI.L # # 10100_chars2 VFVAN.SLDDALtXLLSxtpyels.sdidQVERVFV...........IGGSELYKEAL....EH..............PR..VDRILLTRI.H # 10101_chars2 VFVAN.SLDDALtXLLSxtpyels.sdidQVERVFV...........IGGSELYKEAL....EH..............PR..VDRILLTRI.H # 10110_chars2 VFVAN.SLDDALtXLLSxtpyels.sdidQVERVFV...........IGGSELYKEAL....EH..............PR..VDRILLTRI.H # 10111_chars2 VFVAN.SLDDALtXLLSxtpyels.sdidQVERVFV...........IGGSELYKEAL....EH..............PR..VDRILLTRI.H # 11100_chars2 VFVAN.SLDDALtXLLSxtpyels.sdidQVERVFV...........IGGSELYKEAL....EH..............PR..VDRILLTRI.H # 11101_chars2 VFVAN.SLDDALtXLLSxtpyels.sdidQVERVFV...........IGGSELYKEAL....EH..............PR..VDRILLTRI.H # 11110_chars2 VFVAN.SLDDALtXLLSxtpyels.sdidQVERVFV...........IGGSELYKEAL....EH..............PR..VDRILLTRI.H # 11111_chars2 VFVAN.SLDDALtXLLSxtpyels.sdidQVERVFV...........IGGSELYKEAL....EH..............PR..VDRILLTRI.H # # poss remove: ^ # ^ ^ might actually be "t" one # ^^ one of these two should go # # 0010_KD AYVAN.SLDDALtALLST--FDLs.sDI-QVNRVFV...........IGGAELYKEAL....EH..............SR..VNRILLTRI.H # 0010_KP AYVAN.SLDDALtALLST--FDLs.sDI-QVNRVFV...........IGGAELYKEAL....EH..............SR..VNRILLTRI.H # 0010_QD AYVAN.SLDDALtALLST--FDLs.sDI-QVNRVFV...........IGGAELYKEAL....EH..............SR..VNRILLTRI.H # 0010_QP AYVAN.SLDDALtALLST--FDLs.sDI-QVNRVFV...........IGGAELYKEAL....EH..............SR..VNRILLTRI.H # 0011_KD VFVAN.SLDDALtALLST--FELs.sD-DQVERVFV...........IGGSSLYKEAL....EH..............PR..VDRILLTRI.H # 0011_KP VFVAN.SLDDALtALLST--FELs.sD-DQVERVFV...........IGGSSLYKEAL....EH..............PR..VDRILLTRI.H # 0011_QD VFVAN.SLDDALtALLST--FELs.sD-DQVERVFV...........IGGSSLYKEAL....EH..............PR..VDRILLTRI.H # 0011_QP VFVAN.SLDDALtALLST--FELs.sD-DQVERVFV...........IGGSSLYKEAL....EH..............PR..VDRILLTRI.H ## Should the end i/v in the below be vs the l after the pe above? I don't think so - no room! DYR_SCHPO_1 LYAAD.CIDSAL.DLVAek.ygad.sdi.QVGKVFI...........IGGSFLYGSAL....YH..............PL..TKNLLFTRI.H DYR_SCHPO_2 LYAAD.CIDSALd-LVAek.ygad.sdi.QVGKVFI...........IGGSFLYGSAL....YH..............PL..TKNLLFTRI.H DYR_PNECA IHSAK.SLDHAL.ELLYrt.yg.sessv.QINRIFV...........IGGAQLYKAAM....DH..............PK..LDRIMATII.Y AAF14071 AYHAR.SLDDAL.ALLSqi.yd.stski.QLNRVFV...........IGGGELYKAAM....EH..............SR..LNRIIATVI.H AAL25720 TYHAK.SLNDAL.VLLSci.yd.tsssi.QVNRIFV...........IGGAQLYKAAM....EH..............PR..LDRIMATVI.H AAT99406 AYHAR.SLDDAL.ALLSqi.yd.stski.QLNRVFV...........IGGGELYKAAM....EH..............SR..LNRIIATVI.H AAT99411 AYHAR.SLDDAL.ALLSqi.yd.stski.QLNRVFV...........IGGGELYKAAM....EH..............SR..LNRIIATVI.H AAT99412 AYHAR.SLDDAL.ALLSqi.yd.stski.QLNRVFV...........IGGGELYKAAM....EH..............SR..LNRIIATVI.H AAT99413 AYHAR.SLDDAL.ALLSqi.yd.stski.QLNRVFV...........IGGGELYKAAM....EH..............SR..LNRIIATVI.H AAT99417 AYHAR.SLDDAL.ALLSqi.yd.stski.QLNRVFV...........IGGGELYKAAM....EH..............SR..LNRIIAAVI.H ABB84704 AYHAR.SLGDAL.ALLSqi.yd.stski.QLNRVFV...........IGGGELYKAAM....EH..............SR..LNRIIATVI.H ABB84712 AYHAR.SLDDAL.ALLSqi.yd.stski.QLNRVFV...........IGGGELYKAAM....EH..............SR..LNRIIATVI.H ABB84716 AYHAR.SLDDAL.ALLSqi.yd.stski.QLNRVFV...........IGGGELYKAAM....EH..............SR..LNRIIATVI.H ABB84718 AYHAR.SLDDAL.ALLSqi.yd.stski.QLNRVFV...........IGGGELYKAAM....EH..............SR..LNRIIATVI.H ABB84720 AYHAR.SLDDAL.ALLSqi.yd.stski.QLNRVFV...........IGGGELYKAAM....EH..............SR..LNRIIATVI.H ABB84722 AYHAR.SLDDAL.ALLSqi.yd.stski.QLNRVFV...........IGGGELYKAAM....EH..............SR..LNRIIATVI.H ABB84726 AYHAR.SLDDAL.ALLSqv.yd.stski.QLNRVFV...........IGGGELYKAAM....EH..............SR..LNRIIATVI.H ABB84744 AYHAR.SLDDAL.ALLSqi.yd.stski.QLNRVFV...........IGGGELYKAAM....EH..............SR..LNRIIATVI.H ABB84751 AYHAR.SLDDAL.ALLSqi.yd.stski.QLNRVFV...........IGGGELYKAAM....EH..............SR..LNRIIATVI.R ABF06467 AYHAR.SLDDAL.ALLSqi.yd.stski.QLNRVFV...........IGGGELYKAAM....EH..............SR..LNRIIATVI.H ABF06468 AYHAR.SLDDAL.ALLSqi.yd.stski.QLNRVFV...........IGGGELYKAAM....EH..............SR..LNRIIATVI.H ABF06469 AYHAR.SLDDAL.ALLSqi.yd.stski.QLNRVFV...........IGGGELYKAAM....EH..............SR..LNRIIATVI.H ABF06470 AYHAR.SLDDAL.ALLSqi.yd.stski.QLNRVFV...........IGGGELYKAAM....EH..............SR..LNRIIATVI.H Q6CC38_YARLI_1 VVVAR.SFDEALtK--C..p.e......d--STVYV...........IGGSQVYKTAL.vh.EH..............TK..A--VLLTEI.T Q6CC38_YARLI_2 VVVAR.SFDEAL.TK-C..p.e......d--STVYV...........IGGSQVYKTAL....VH..............EH..TKAVLLTEI.T CAG60823_1 IYHSN.SLRNCLtAL-Qs...sla.ne.nKIERIYI...........IGGGEIYRQSM....D-..............-L..ADHWLITKI.M CAG60823_2 IYHSN.SLRNCL.TALQs...sla.ne.nKIERIYI...........IGGGEIYRQSM....D-..............-L..ADHWLITKI.M AAS51350_1 VITSN.SLQQCV.RQLQe...q.ara.l.GVERIYI...........MGGAEIYNQSY....D-..............-L..CDHLLVTELqV AAS51350_2 VITSN.SLQQCV.RQLQe...qa.ra.l.GVERIYI...........MGGAEIYNQSY....D-..............-L..CDHLLVTELqV DYR_YEAST_1 IVQSN.SLANAImNLESn..f.....k.eHLERIYV...........IGGGEVYSQIF....S-..............-I..TDHWLITKI.N DYR_YEAST_2 IVQSN.SLANAImNLESn..f.....k.eHLERIYV...........IGGGEVYSQIF....--..............SI..TDHWLITKI.N EDN63566_1 IVQSN.SLANAItNLESn..f.....k.eHLERIYV...........IGGGEVYSQIF....S-..............-I..TDHWLITKI.N EDN63566_2 IVQSN.SLANAItNLESn..f.....k.eHLERIYV...........IGGGEVYSQIF....--..............SI..TDHWLITKI.N CAA68779_1 IVQSN.SLANAImNLESn..f.....k.eHLERIYV...........IGGGEVYSQIF....S-..............-I..TDHWLITKI.N CAA68779_2 IVQSN.SLANAImNLESn..f.....k.eHLERIYV...........IGGGEVYSQIF....--..............SI..TDHWLITKI.N CAG86485_1 IILTN.SIENAL.AKVEe..y..s..k..PVEKIFV...........IGGSELYNKLI....SH..............EK..VQHLLITEI.K CAG86485_2 IILTN.SIENALaK-VEe..y....sk..PVEKIFV...........IGGSELYNKLI....SH..............EK..VQHLLITEI.K ## ^^^^^^^^^^^^ <- not sure on... ABN65593_1 VIHAN.SIANSL.SQLQ..p........n-VERVFV...........IGGAEIYNELI....ND..............SR..VTHLLLTEIeN ABN65593_2 VIHAN.SIANSL.SQLQ..p........n-VERVFV...........IGGAEIYNELI....ND..............SR..VTHLLLTEIeN ## DYR_CANAL_1 IIHAS.SIESSL.NLVS...........d-VERVFI...........IGGAEIYNELI....NN..............SL..VSHLLITEIeH DYR_CANAL_2 IIHAS.SIESSL.NLVS...........d-VERVFI...........IGGAEIYNELI....NN..............SL..VSHLLITEIeH ## 1J3KA VYIIN.KVEDLI.VLLGk....l.....n-YYKCFI...........IGGSVVYQEFL....EK..............KL..IKKIYFTRI.N #=GR 1J3KA SS CEEEC.HHHHHH.HHHHH....H.....C-CCCEEE...........-SHHHHHHHHH....HH..............CC..CCEEEEEEE.E ## Phi/Psi: EEEEC.EHHHHH.HHGGG....E.....E-ECEEEE...........G5CHHHHCHHH....HG..............LG..ECEEEEEEE.C ## 188 ## ^^^^^^^^^^^^^ <- take another look at? #=GR 1J3KA LI ....*..........................................*.*****.*................................*.... #=GR 1J3KA SA 13104.505201.41037....1.....6-002000...........00216004200....64..............40..011000020.4 ## Hydrophobic: +|++-.-+--++.+++--....+.....-.??-?++...........+---++?--++....--..............-+..+--+|+--+.- 1J3KB VYIIN.KVEDLI.VLLGk....l.....n-YYKCFI...........IGGSVVYQEFL....EK..............KL..IKKIYFTRI.N #=GR 1J3KB SS CCCCC.HHHHHH.HHHHH....H.....C-EEEEEE...........-SHHHHHHHHH....HH..............CC..CCEEEEEEE.E ## Phi/Psi: CCEEH.EGGHHH.HHHHH....C.....E-ECEEEE...........G51CCCHHHHC....CC..............CG..EGEEEEEEE.C #=GR 1J3KB LI ....*..........................................*.*****.*................................*.... #=GR 1J3KB SA 02006.405301.50027....1.....3-002000...........00227003201....54..............40..011010010.4 ## Hydrophobic: +|++-.-+--++.+++--....+.....-.??-?++...........+---++?--++....--..............-+..+--+|+--+.- ## Non-Pro: ................................*...............*.................................*.......... ## Gly-Req: ................................................GG........................................... 1J3IA VYIIN.KVEDLI.VLLGk....l.....n-YYKCFI...........IGGSVVYQEFL....EK..............KL..IKKIYFTRI.N #=GR 1J3IA SA 13104.405201.51037....1.....6-001000...........10216003100....54..............30..011000010.4 #=GR 1J3IA S2 13104.4052B1.51037....1.....6.B01B0B...........102160031B0....54..............30..011B00010.4 1J3IB VYIIN.KVEDLI.VLLGk....l.....n-YYKCFI...........IGGSVVYQEFL....EK..............KL..IKKIYFTRI.N #=GR 1J3IB SA 02005.506301.51006....0.....0-001000...........10216003200....54..............40..011010010.4 #=GR 1J3IB S2 02005.506301.51006....0.....0-001B0B...........102160032B0....54..............40..011B10010.4 DRTS_PLACH VIIIN.SVDDLF.PILKc....i.....k-YYKCFI...........IGGASVYKEFL....DR..............NL..IKKIYFTRI.N Q7RGH7_PLAYO VMIIK.SVDDLF.PILKa....i.....k-YYKCFI...........IGGSYVYKEFL....DR..............NL..IKKIYFTRI.N Q95US9_PLAGA AILIN.NVDDLL.LLLRk....i.....n-YYKCFI...........IGGSVVYNEFL....KR..............NL..IKKIYFTRI.N ## 2BL9A VFIID.SIDDLL.LLLKk....l.....k-YYKCFI...........IGGAQVYRECL....SR..............NL..IKQIYFTRI.N #=GR 2BL9A SS CCCCC.HHHHHH.HHHHH....C.....C-CCCEEE...........ESHHHHHHHHH....HH..............CC..CCEEEEEEE.E ## Phi/Psi: EEEEG.CCCHHH.HHHGC....E.....E-ECEEEE...........G61CCGHCHHH....HG..............LG..EGEEEEEEE.C #=GR 2BL9A LI ....*.*........................................*****.*..................................*.... ## Non-Pro: ................................*...............*............................................ ## Gly-Req: ................................................GG........................................... #=GR 2BL9A SA 13204.204300.50027....2.....5-001000...........10217004300....63..............40..021010020.4 ## Hydrophobic: ++++-.-+--++.+++--....+.....-.??-?++...........+--?-+?--?+....--..............-+..+--+|+--+.- DRTS_PLAVI VFIID.SIDDLL.LLLKk....l.....k-YYKCFI...........IGGAQVYRECL....SR..............NL..IKQIYFTRI.N DRTS_PLAVN VIIIK.SVDELF.PILKc....i.....k-YYKCFI...........IGGASVYKEFL....DR..............NL..IKKIYFTRI.N AAV33644 IFLIH.NIEDLL.LILKk....l.....r-YYKCFI...........IGGAQVYKECL....NR..............NL..IKQIYFTRI.N AAV33645 VFIIN.SIDDLL.LLLKk....l.....r-YYKCFI...........IGGAQVYRECL....SR..............NL..IKQIYFTRI.N ## 1SEJC VVVFR.NLEDSI.ENL-.m..n.d....dSIENIFV...........CGGESIYRDAL....KD..............NF..VDRIYLTRV.A #=GR 1SEJC SS EEEEC.HHHHHH.CCC-.C..C.C....CCEEEEEE...........CCHHHHHHHHH....HH..............CC..CCEEEEEEE.C ## Phi/Psi: EEEEH.EHCGHC.CCC-.C..C.C....GGEHEEEE...........G22GCCCGHHH....GG..............CG..EGEEEEEEE.G #=GR 1SEJC LI .................................................*.***..................................*.... #=GR 1SEJC NP *....................*.*........................*.............................*.............. #=GR 1SEJC GR ................................................GG........................................... #=GR 1SEJC SA 03013.305500.202-.7..4.4....64011000...........00125003300....63..............51..021010000.0 ## Hydrophobic: ++++-.-+---+.--+..+..-.-....--+--+++...........?----+?--?+....--..............-+..+--+|+--+.| 1QZFD VVVFR.NLEDSI.ENL-.m..n.d....dSIENIFV...........CGGESIYRDAL....KD..............NF..VDRIYLTRV.A #=GR 1QZFD SA 03013.305500.202-.7..4.3....64011000...........00125003300....63..............41..021010000.0 #=GR 1QZFD S2 03013.3055B0.202-.7..4.3....6401100B...........001250033B0....63..............41..021010000.0 AAC47229 VIVFR.NLEDSI.KNL-.m..n.d....dTIENIFV...........CGGESIYRDAL....KD..............NF..VDRIYLTRV.A ## 137 CAI76538 -LVFS.SIPSAI.RHVTe...nl.....d-YYKIFImgifnvvvlkyLGGSHVYREVL....NA..............KI..VDKMYVTRV.N EAN31856 -LVFP.SMPAAI.RHVTe...hl.....n-YYKIFImgifh.lnikhLGGSYVYRDAL....DA..............RI..VDKMYVTRV.N EAR85731 -YACK.SLDSAL.NFLEq...q......nQIQDALV...........IGGAKLCQQAL....SD..............QR..LRQIHLTRV.G ## ^^ - charge on this may be binding N+ ring of NADP+ DRTS_TRYBB VVAVNgGLEDAL.RMLVs.k.e.ht...sSIETVFC...........IGGGTIYKQAL....CApcv...........NV..LQAIHRTVV.R AAX78868 VVAVNgGLEDAL.RMLVs.k.e.ht...sSIETVFC...........IGGGTIYKQAL....CApcv...........NV..LQAIHRTVV.R DRTS_TRYCR IVAVNgGLEQAL.RLLAspny...tp...SIETVYC...........IGGGSVYAEAL....RPpcv...........HL..LQAIYRTTI.R AAK71184 IVAVNgGLEQAL.QLLAslny...t...sSIETVYC...........IGGGSVYAEAL....RPpcv...........HL..LQAIYRTTI.R AAK71177 IVAVNgGLEQAL.RLLAspny...tp...SIGTVYC...........IGGGSVYAEAL....RPpcv...........HL..LQAIYRTTI.R Q95NI3_TRYCR IVAVNgGLEQAL.QLLAspny...tp...SIETVYC...........IGGGSVYAEAL....RPpcv...........HL..LQAIYRTTI.R Q95NT2_TRYCR IVAVNgGLEQAL.QLLAspny...tp...SIETVYC...........IGGGSVYAEAL....RPpcv...........HL..LQAIYRTTI.R DRTS_LEIAM IVVVNgGLAAAV.RLLArppy.c.....sSIETAYC...........VGGAQVYADAM....LSpcv...........EK..LQEVYLTRI.H DRTS_LEIMA VVVVNgGLAEAL.RLLArply.c.....sSIETAYC...........VGGAQVYADAM....LSpci...........EK..LQEVYLTRI.Y AAA29272 LVVVNgGLAEAL.RLLArply.c.....sSIETAYC...........VGGAQVYADAM....LSpci...........EK..LQEVYLTRI.Y Q8MXB7_LEITR VVVVNgGLAEAL.RLLArppy.c.....sSIETAYC...........VGGAQVYADAM....LSpcv...........EK..LQEVYLTRI.Y Q8MQV1_LEICH VVVVNgGLAEAL.RLLArppy.c.....sSIETAYC...........VGGAQVYADAM....LSpcv...........EK..LQEVYLTRI.Y DRT1_ARATH VVTCS.SVDSAL.DLLAappy.c....l.SIERVFV...........IGGGDILREAL....NRpsc...........--..-DAIHLTEI.D DRTS_SOYBN VVICG.SMSSAL.ELLAaspy.s....l.SIEKVFV...........IGGGQIFREAL....NVpgc...........--..-EAIHLTEI.Q Q2R481_ORYSA VVICG.SMNSAL.ELLSstpy.c....l.SIEKVFV...........IGGGQVLRESL....NGpsc...........--..-EAVHLTDI.Q DRTS_MAIZE VVICG.SMESAL.ELLAstpy.c....l.SIEKVFV...........IGGGQVLREYL....KGpac...........--..-EAIHLTDI.Q ## ^ - charge on this may be binding N+ ring of NADP+ #=GC RF XXXXX.XXXXXX.XXXX............XXXXXXX...........XXXXXXXXXXX....XX..............XX..XXXXXXXXX.X #=GC SS_cons CEEEC.HHHHHH.HHHH....H......HCEEEEEE...........ESHHHHHHHHH....H-..............CC..C-EEEEEEE.- #=GC seq_cons ..l...SL-D.l..Ll-....A.......Kl-.l.I...........lGGo.VY.-A............................l.lTRI.. ## S is first gly of cis gly-gly pair #=GC LI_cons ................................................**.*.*..................................*.... #=GC AS_cons ............................................................................................. #=GC SA_cons 32105.304300.4103............4001000...........00225004300....63..............61..111000010.3 ## Seq_cons2 XFLXK.NLDDXL.XLLEXPELA..N....XVDXVWI...........VGGSSVYKEXM....NQ..............XX..XXRLFLTRI.X ## Hydrophobic: .++.-.-+--.+..++-.--+?..-....-+-.+.+...........+----+?--.+....--....................-+++--+.. ## Sixth section 1U70A .QE....F.ESDTF....FPEIDLGKY...KL.Lpe..ypg........v.l...............S....E.....VQ...EE...KG..IKYKFEVYEKk.d......... #=GR 1U70A SS .CC....C.CCCCC....CCCCCCCCC...EE.CCC..CCC........C.C...............C....C.....CE...EE...CC..EEEEEEEEEEC.C......... ## Phi/Psi: .CE....E.EECE1....ECEEEGGGE...EE.EGE..EEL........E.E...............G....E.....EE...EE...LL..EECEEEEEEEE.X......... #=GR 1U70A LI .................................................................................................................. #=GR 1U70A NP ........................................................................................................X......... #=GR 1U70A GR ........................................G................................................G..............X......... #=GR 1U70A SA .35....1.70434....026046840...54.177..175........1.5...............5....6.....42...41...46..04020100106.5......... ## Hydrophobic: .--....+.----+....+--+-+--?...-+.+--..?--........+.+...............-....-.....+-...--...--..+-?-+-+?---.-......... DYR_RAT .QE....F.ESDTF....FPEIDLEKY...KL.Lpe..ypg........v.l...............S....E.....IQ...EE...KG..IKYKFEVYEKk.d......... DYR_MESAU .QE....F.ESDTF....FPEIDLEKY...KL.Lpe..ypg........v.l...............S....E.....VQ...EE...KG..IKYKFEVYEKk.g......... Q78EH1_9RODE .QE....F.ESDTF....FPEIDLEKY...KL.Lpe..ypg........v.l...............S....E.....VQ...EE...KG..IKYKFEVYEKk.g......... ## 186-189 1U72A .QD....F.ESDTF....FPEIDLEKY...KL.Lpe..ypg........v.l...............S....D.....VQ...EE...KG..IKYKFEVYEKn.d......... #=GR 1U72A SS .CC....C.CCCCC....CCCCCCCCC...EE.CCC..CCC........C.C...............C....C.....CE...EE...CC..EEEEEEEEEEC.C......... ## Phi/Psi: .CE....E.ECCEE....EEEEEGGCE...EE.EGC..EEL........E.C...............G....E.....CE...EE...LL..EEEEEEEEEEC.X......... #=GR 1U72A NP ............*...........................................................................................X......... #=GR 1U72A GR ........................................................................................................X......... #=GR 1U72A LI .................................................................................................................. #=GR 1U72A AS .................................................................................................................. #=GR 1U72A SA .35....1.71424....017035850...64.296..286........0.4...............6....5.....41...41...55..03020100207.6......... ## Hydrophobic: .--....+.----+....+--+-+--?...-+.+--..?--........+.+...............-....-.....+-...--...--..+-?-+-+?---.-......... 1PD8A .QD....F.ESDTF....FPEIDLEKY...KL.Lpe..ypg........v.l...............S....D.....VQ...EE...KG..IKYKFEVYEKn.d......... #=GR 1PD8A SS .CC....C.CCCEE....CCCCCCCCC...EE.CCC..CCC........C.C...............C....C.....CE...EE...CC..EEEEEEEEEEE.C......... #=GR 1PD8A GR ........................................................................................................X......... #=GR 1PD8A SA .35....1.71424....027026840...64.196..286........0.4...............6....5.....41...41...46..04030100207.6......... ## Hydrophobic: .--....+.----+....+--+-+--?...-+.+--..?--........+.+...............-....-.....+-...--...--..+-?-+-+?---.-......... 1DHFB .QD....F.ESDTF....FPEIDLEKY...KL.Lpe..ypg........v.l...............S....D.....VQ...EE...KG..IKYKFEVYEKn.d......... #=GR 1DHFB LI .................................................................................................................. #=GR 1DHFB AS .................................................................................................................. ## 1DHFA SA .45....1.71534....017136540...42.276..286........0.5...............7....7.....42...41...66..04030100109.X......... #=GR 1DHFB SA .45....1.71424....016035840...63.287..285........0.5...............6....6.....42...50...67..04020100108.X......... #=GR 1DHFB S2 .45....1.71424....016035840...63.287..285........0.5...............6....6.....42...50...67..04020100108.X......... XP_001110551 .QD....F.ESDTF....LPEIDLEKY...KL.Lpe..ypg........v.l...............S....D.....VQ...EE...KG..IKYKFEVYEKn.d......... XP_001134992 .QD....F.ESDTF....FPEIDLEKY...KL.Lpe..ypg........v.l...............S....D.....VQ...EE...KG..IKYKFEVYEKn.d......... XP_851329 .HE....F.EGDTF....FPEIDLEKY...KL.Lpe..ypg........v.l...............S....D.....VQ...EE...KG..IKYKFEVYEKn.d......... XP_536308 .HE....F.ESDTF....FPEIDLEKY...KL.Lpe..ypg........v.l...............S....D.....VQ...EE...KG..IKYKFEVYEKn.d......... DYR_PIG .KE....F.ESDTF....FPEIDLEKY...KL.Lse..csg........v.p...............S....D.....VQ...EE...KG..IKYKFEVYEKn.n......... DYR_BOVIN .QE....F.ESDAF....FPEIDFEKY...KL.Lpe..ypg........v.p...............-..l.D.....VQ...EE...KG..IKYKFEVYEKn.n......... P00376 .QE....F.ESDAF....FPEIDFEKY...KL.Lpe..ypg........v.p...............-..l.D.....VQ...EE...KG..IKYKFEVYEKn.n......... Q29RI1_BOVIN .QE....F.ESDAF....FPEIDFEKY...KL.Lpe..ypg........v.p...............-..l.D.....VQ...EE...KG..IKYKFEVYEKn.n......... PLACENT .QE....F.ESDTF....FPEIDLEKY...KL.Lpe..ypg........v.l...............S....D.....VQ...EE...KG..IKYKFEVYEKn.d......... #=GR PLACENT SA .26....2.61424....026126820...44.246..284........0.4...............5....4.....41...51...45..03020000105.5......... ## POSS1: .QE....F.ESDTF....FPEIDLEKY...KL.LPE..YPG........V.L...............S....D.....VQ...EE...KG..IKYKFEVYEKN.D......... ##nonrot.full2 .26....2.61424....026126820...44.346..283........0.4...............4....5.....31...41...45..03B200B0104.5......... ##mmtp.full .26....2.61424....026126820...44.236..275........0.4...............5....4.....42...51...45..04B20000105.5......... ##mmtp.fullSS .CE....E.EEGEE....EEECEGGCE...EE.EHE..EEL........E.E...............G....E.....EE...EE...LL..EEEEEEECEEC.X......... ## POSS2: .QE....F.ESDTF....FPEIDLEKY...KL.LPE..YPG........V.L...............S....D.....VQ...EE...KG..IKYKFEVYEKN.D......... XP_001363618 .QE....F.ESDTF....FPEIDLKKY...KQ.Lqd..ypg........v.................S...pD.....VQ...EE...KG..IQYKFEVYEKh.e......... ## 8DFR0 .HE....F.ESDTF....FPEIDYKDF...KL.Lte..ypg........v.p...............A....D.....IQ...EE...DG..IQYKFEVYQKsv...laq.... #=GR 8DFR0 SS .CC....C.CCCCC....CCCCCCCCC...EE.ECC..BBB........B.C...............C....E.....EE...EE...TT..EEEEEEEEEEEC...XXX.... ## Phi/Psi: .EE....E.EECEE....EEEEEGGCE...EE.EGE..EEL........E.E...............C....E.....EE...EE...LG..EEEEEEEEEEEX...XXX.... ## BBBB is "beta-blowout" #=GR 8DFR0 NP ............*..........................................................................................X...XXX.... #=GR 8DFR0 GR ........................................G..............................................................X...XXX.... #=GR 8DFR0 SA .26....1.61423....018135730...54.297..177........0.3...............7....6.....42...61...67..130201002066...XXX.... ## Hydrophobic: .--....+.----+....+--+-?--+...-+.+--..?--........+.-...............?....-.....+-...--...--..+-?-+-+?---+...+?-.... 1DR10 .HE....F.ESDTF....FPEIDYKDF...KL.Lte..ypg........v.p...............A....D.....IQ...EE...DG..IQYKFEVYQKsv...laq.... #=GR 1DR10 SS .CC....C.CCCCC....CCCCCCCCC...EE.ECC..TTT........T.C...............C....E.....EE...EE...TT..EEEEEEEEEEEC...XXX.... #=GR 1DR10 LI ............*..................................................................................................... ## Phi/Psi: .EE....E.EECEE....EEEEEGGHE...EE.EGE..ECL........E.E...............G....E.....EE...EC...LL..EEEEEEEEEEEX...XXX.... #=GR 1DR10 GR ........................................G..............................................................X...XXX.... #=GR 1DR10 SA .26....1.61423....018035730...54.297..286........0.3...............7....6.....42...51...77..130101002066...XXX.... ## Hydrophobic: .--....+.----+....+--+-?--+...-+.+--..?--........+.-...............?....-.....+-...--...--..+-?-+-+?---+...+?-.... AGA .QE....F.ESDTF....FPEIDLKSF...KL.Lpe..ypg........v.p...............S....D.....VQ...EE...NG..IQYKFEVYEKn.e......... #=GR AGA SA .25....1.61324....037126830...44.246..174........0.3...............4....5.....42...60...47..03020000106.6......... ## AGfullSA2 .25....1.61324....037126830...44.246..174........0.3...............4....5.....42...60...47..030200B0106.6......... ## AGfull2SA2 .25....1.61324....037126830...44.246..174........0.3...............4....5.....42...60...47..030200B0106.6......... ## AG: .QE....F.ESDTF....FPEIDLKSF...KL.LPE..YPG........V.P...............S....D.....VQ...EE...NG..IQYKFEVYEKN.E......... ## AI: .QE....F.ESDTF....FPEIDLKSF...KL.LPE..YPG........V.P...............S....D.....VQ...EE...NG..IQYKFEVYEKS.E......... ## PG: .QE....F.ESDTF....FPEIDLKSF...KL.LPE..YPG........V.P...............S....D.....VQ...EE...NG..IQYKFEVYEKN.E......... PGV .QE....F.ESDTF....FPEIDLKSF...KL.Lpe..ypg........v.p...............S....D.....VQ...EE...NG..IQYKFEVYEKn.e......... #=GR PGV SA .26....1.60425....037136720...43.347..183........0.5...............2....6.....41...61...46..03020000105.7......... ## PGVYSfullSA2 .26....1.60415....037136720...53.347..183........0.5...............2....6.....41...61...46..020200B0105.7......... ## PGVYSfull2S2 .26....1.60425....037136710...43.347..183........0.5...............2....6.....41...61...46..03B200B0105.7......... ## PI: .QE....F.ESDTF....FPEIDLKSF...KL.LPE..YPG........V.P...............S....D.....VQ...EE...NG..IQYKFEVYEKS.E......... Q5U543_XENLA .QE....F.ECDTYl...-PEINLNSF...QL.Lpq..ypg........i.................S...pE.....LQ...EE...NG..VQYKFEVYEK.i...v...... ENSXETP49617 .QE....F.ECDTYi...-PEIDLNSF...RL.Lpe..ypg........i.................S...pE.....LQ...EE...NG..VQYKFEVYEK.i...v...... AAK01951 .KQ....F.DCDTFi...-PNFDMDKY...KL.Lpe..fpg........v.p...............-....-..vg.LQ...ED...NG..VQYLFEVYES.ie....h.... CAM14042 .KQ....F.DCDTFi...-PNFDMDKY...KL.Lpe..fpg........v.p...............-....-..vg.LQ...ED...NG..VQYVFEVYES.ie....h.... NP_571850 .KQ....F.DCDTFi...-PNFDMDKY...KL.Lpe..fpg........v.p...............-....-..vg.LQ...ED...NG..VQYLFEVYES.i..k..h.... XP_001176553 .KE....I.ECDTF....FPEFDLDRF...KL.Vtd...p......a..v.................D....Q....dTQ...EE...KG..IQYKFEIYESs........s.. ## EED: .KE....F.ECDTF....FPEIDLNSF...KLvVpd...p.........v.p...............S....E.....V-...EE...NG..IQYKFEVYEK............ ## EEK: .KE....F.ECDTF....FPEIDLNSF...KLvVpd...p.........v.p...............S....E.....V-...EE...NG..IQYKFEVYEK............ ## KED: .KE....F.ECDTF....FPEIDLNSF...KLvVpd...p.........v.p...............S....E.....V-...EE...NG..IQYKFEVYEK............ ## KEK: .KE....F.ECDTF....FPEIDLNSF...KLvVpd...p.........v.p...............S....E.....V-...EE...NG..IQYKFEVYEK............ ## K_D: .KE....F.ECDTF....FPEIDLNSF...KLvVpd...p.........v.p...............S....E.....V-...EE...NG..IQYKFEVYEK............ ## K_K: .KE....F.ECDTF....FPEIDLNSF...KLvVpd...p.........v.p...............S....E.....V-...EE...NG..IQYKFEVYEK............ ## ^ wound up using AGA|PGV to help here ## _EED: .KE....F.ECDTF....FPEIDLNSF...KLvVpd...p.........v.p...............S....E.....V-...EE...NG..IQYKFEVYEK............ ## _E_SKFED: .KE....F.ECDTF....FPEIDLNSF...KLvVpd...p.........v.p...............S....E.....V-...EE...NG..IQYKFEVYEK............ ## _E_GKFED: .KE....F.ECDTF....FPEIDLNSF...KLvVpd...p.........v.p...............S....E.....V-...EE...NG..IQYKFEVYEK............ ## _EE_D: .KE....F.ECDTF....FPEIDLNSF...KLvVpd...p.........v.p...............S....E.....V-...EE...NG..IQYKFEVYEK............ ## _EAED: .KE....F.ECDTF....FPEIDLNSF...KLvVpd...p.........v.p...............S....E.....V-...EE...NG..IQYKFEVYEK............ ## _EASKFED: .KE....F.ECDTF....FPEIDLNSF...KLvVpd...p.........v.p...............S....E.....V-...EE...NG..IQYKFEVYEK............ ## _EAGKFED: .KE....F.ECDTF....FPEIDLNSF...KLvVpd...p.........v.p...............S....E.....V-...EE...NG..IQYKFEVYEK............ ## _E_EDQ: .KE....F.ECDTF....FPEIDLNSF...KLvVpd...p.........v.p...............S....E.....VQ...EE...NG..IQYKFEVYEK............ ES .KE....F.ECDTF....FPEIDLNSF...KLvVpd...p.........v.p...............S....E.....VQ...EE...NG..IQYKFEVYEK............ #=GR ES SA .47....1.51424....027257810...553255...7.........0.5...............5....5.....53...50...63..0203010123............ ## S2: .47....1.51424....027257810...553255...7.........0.5...............5....5.....53...50...63..0203010123............ ## _E_GKFEDQ: .KE....F.ECDTF....FPEIDLNSF...KLvVpd...p.........v.p...............S....E.....VQ...EE...NG..IQYKFEVYEK............ ## _EAEDQ: .KE....F.ECDTF....FPEIDLNSF...KLvVpd...p.........v.p...............S....E.....VQ...EE...NG..IQYKFEVYEK............ ## _EASKFEDQ: .KE....F.ECDTF....FPEIDLNSF...KLvVpd...p.........v.p...............S....E.....VQ...EE...NG..IQYKFEVYEK............ ## _EAGKFEDQ: .KE....F.ECDTF....FPEIDLNSF...KLvVpd...p.........v.p...............S....E.....VQ...EE...NG..IQYKFEVYEK............ ## _EEK: .KE....F.ECDTF....FPEIDLNSF...KLvVpd...p.........v.p...............S....E.....V-...EE...NG..IQYKFEVYEK............ ## _KED: .KE....F.ECDTF....FPEIDLNSF...KLvVpd...p.........v.p...............S....E.....V-...EE...NG..IQYKFEVYEK............ ## _KE_D: .KE....F.ECDTF....FPEIDLNSF...KLvVpd...p.........v.p...............S....E.....V-...EE...NG..IQYKFEVYEK............ ## _KAED: .KE....F.ECDTF....FPEIDLNSF...KLvVpd...p.........v.p...............S....E.....V-...EE...NG..IQYKFEVYEK............ ## _KAEDQ: .KE....F.ECDTF....FPEIDLNSF...KLvVpd...p.........v.p...............S....E.....VQ...EE...NG..IQYKFEVYEK............ ## _KASKFED: .KE....F.ECDTF....FPEIDLNSF...KLvVpd...p.........v.p...............S....E.....V-...EE...NG..IQYKFEVYEK............ ## _KASKFEDQ: .KE....F.ECDTF....FPEIDLNSF...KLvVpd...p.........v.p...............S....E.....VQ...EE...NG..IQYKFEVYEK............ ## _KAGKFED: .KE....F.ECDTF....FPEIDLNSF...KLvVpd...p.........v.p...............S....E.....V-...EE...NG..IQYKFEVYEK............ KAG .KE....F.ECDTF....FPEIDLNSF...KLvVpd...p.........v.p...............S....E.....VQ...EE...NG..IQYKFEVYEK............ #=GR KAG SA .48....1.61414....027247810...443344...9.........1.4...............6....6.....71...51...65..0103010122............ ## S2: .48....1.61414....027247810...443344...9.........1.4...............6....6.....71...51...65..0103010122............ ## _KEK: .KE....F.ECDTF....FPEIDLNSF...KLvVpd...p.........v.p...............S....E.....V-...EE...NG..IQYKFEVYEK............ ## _K_D: .KE....F.ECDTF....FPEIDLNSF...KLvVpd...p.........v.p...............S....E.....V-...EE...NG..IQYKFEVYEK............ ## _K_K: .KE....F.ECDTF....FPEIDLNSF...KLvVpd...p.........v.p...............S....E.....V-...EE...NG..IQYKFEVYEK............ XP_973338 .KT....F.DCDTF....FPKIR-DDL...IE.V.r..dp.r.......v.p...............-....E...g.VQ...EE...NG..IQFVYHVYQNp.d.....fn.. EAL28532 .QN....F.ECDTF....FPSI-PDSF...REvPpd...............................A....Dtpvg.VQ...EE...NG..IKYEYKVLEK............ DYR_DROME .QK....F.DCDTF....FPAI-PDSF...REvApd...............................S....Dmplg.VQ...EE...NG..IKFEYKILEK.......h.s.. AAA19051 .QK....F.DCDTF....FPAI-PDSF...REvApd...............................S....Dmplg.VQ...EE...NG..IKFEYKILEK.......h.s.. XP_393902 .KY....F.ECDTF....FPTI-PNDF...VL.T.e..dp....n....i.p...............-....Q...g.IQ...EE...ND..IQFVYEVYKK..e......... Q7Q0L5_ANOGA .KQ....F.DCDAF....FPEI-PNSF...MV.I.dn.dp....d...t..p...............S....-...g.VQ...EE...NG..IQYVYKIYEN....k....... DYR_CAEEL_1 .KN....F.EADVH....LKSLDFSKM...EK.V.qna....evs...s.e.n..............S....E.....IF...EE...NG..LKFEFCKWKV.ven...h.... Q61DT5_CAEBR_1 .KN....F.EADVH....LKSLDFNKL...KKiI.d.a....eas...s.e.n..............S....E.....LF...EE...NG..LQFEIGKWKI.ie....h.... DYR_CAEEL_2 .KN....F.EADVHl.k.--SLD---Fs..KM.-.ekv...qnaevs.s.e.n..............S....E.....IF...EE...NG..LKFEFCKWKV.ven...h.... Q61DT5_CAEBR_2 .KN....F.EADVHl.k.--SLD---Fn..KL.-.kkii...daeas.s.e.n..............S....E.....LF...EE...NG..LQFEIGKWKI.ie....h.... ## ## 1100_SVFQ .PE....F.ECDTF....FPEIDFNSF...KL.V.D.Y.....rkq..dVeL............g..S....E.....IQ...EE...NG..VKYEFEMYTRS........... ## 1111_GTF .PE....F.ECDTF....FPEIDFNSF...KL.V.d....y.......svel...............S....E.....IQ...EE...NG..VKYEFEMYTRs........... ## 1111_GVF .PE....F.ECDTF....FPEIDFNSF...KL.V.D....Y.......sVeL...............S....E.....IQ...EE...NG..VKYEFEMYTRS........... 1111_STF .PE....F.ECDTF....FPEIDFNSF...KL.V.d....y.......svel...............S....E.....IQ...EE...NG..VKYEFEMYTRs........... ## 1111_SVF .PE....F.ECDTF....FPEIDFNSF...KL.V.D....Y.......sVeL...............S....E.....IQ...EE...NG..VKYEFEMYTRS........... ## ^ reversed original (.S. are versions with S here)! ## 1111_chars2 .PE....F.ECDTF....FPEIDFNSF...KL.V.D....W...dv..e-.L...............S....E.....VQ...EE...NG..IKYEFEVYTKS........... ## AAQ02615_1 tPD....F.TCDTF....FPKIEENVF...KV.T..............s.r................S....Dtp...LQ...QE...-G.eTSYEFLTYYR.i.......... AAQ02617_1 tPD....F.TCDTF....FPKIEESVF...KV.T..............s.r................S....D.....LQ...QE...-G.eTSYEFLTYYR.i.......... AAQ02619_1 tPD....F.TCDTF....FPKIEENVF...KV.T..............s.r................S....D.....LQ...QE...-G.eTSYEFLTYSR.v.......... AAQ02621_1 tPD....F.TCDTF....FPKIEENVF...KV.T..............s.r................S....D.....LQ...QE...-G.eTSYEFLTYSG.v.......... AAQ02615_2 tPD....F.TCDTF....FPKIEENVF...KV.T..............s.r................S....Dtp...LQ...Q-...EG.eTSYEFLTYYR.i.......... AAQ02617_2 tPD....F.TCDTF....FPKIEESVF...KV.T..............s.r................S....D.....LQ...Q-...EG.eTSYEFLTYYR.i.......... AAQ02619_2 tPD....F.TCDTF....FPKIEENVF...KV.T..............s.r................S....D.....LQ...Q-...EG.eTSYEFLTYSR.v.......... AAQ02621_2 tPD....F.TCDTF....FPKIEENVF...KV.T..............s.r................S....D.....LQ...Q-...EG.eTSYEFLTYSG.v.......... DYR_ENCCU_1 .ES....P.ECDVF....FPHIDWASYek.RDiTrd.v.s...rlidrtl.asaf..........y.S...pEta...TF...TE...NG..TSFKMFLYTKp......e.tr. DYR_ENCCU_2 eSP....-.ECDVF....FPHIDWASYek.RDiTrd.v.s...rlidrtl.asaf..........y.S...pEta...TF...TE...NG..TSFKMFLYTKp......e.tr. EAK84413 tPL....Y.ECDSF....FPE-----F...R-.Treq...y....q..a.el...............-....Eha.nkIV...A-...-G..QNVEPERLPN.llkq.qewtqa ## Should the (D)FR|FN and following part be moved forward to align with the F/Y at the end above? !!! BAC75955 ePD....F.DCDVF....MPE--FNA-...DG.-ke....w..trstha.elqewv........gf.S..vpE....eIQ...EE...NG..VKYEFQMWTRs..s........ DYR_CRYNE .SP....F.ECDAY....L-E-DFAAHtkpDG.Sk..v..w..kkasik.efrewi........gw.D..i.E....eQV...EE...KG..VKYIFEMWVLn...q....... # # 10100_chars2 .PE....F.ECDTF....FP-IDFXSFx..XXxLpDkv..WvxrkqxhSVELeawv........gx.S..v.E...gkIX...EE...NG..FKYEFEMWTRxi.......... # 10101_chars2 .PE....F.ECDTF....FP-IDFXSFx..XXxLpDkv..W..rkqxhSVELeawv........gx.S..v.E...gkIX...EE...NG..FKYEFEMWTRxi.......... # 10110_chars2 .PE....F.ECDTF....FP-IDFXSFx..XXxLpD.v..WvxrkqxhSVELeawv........gx.S..v.E...gkIX...EE...NG..FKYEFEMWTRxi.......... # 10111_chars2 .PE....F.ECDTF....FP-IDFXSFx..XXxLpD.v..W..rkqxhSVELeawv........gx.S..v.E...gkIX...EE...NG..FKYEFEMWTRxi.......... # 11100_chars2 .PE....F.ECDTF....FP-IDFXSFx..XXxLpDkv..WvxrkqxhSVELeawv........gx.S..v.E...gkIX...EE...NG..FKYEFEMWTRxi.......... # 11101_chars2 .PE....F.ECDTF....FP-IDFXSFx..XXxLpDkv..W..rkqxhSVELeawv........gx.S..v.E...gkIX...EE...NG..FKYEFEMWTRxi.......... # 11110_chars2 .PE....F.ECDTF....FP-IDFXSFx..XXxLpD.v..WvxrkqxhSVELeawv........gx.S..v.E...gkIX...EE...NG..FKYEFEMWTRxi.......... # 11111_chars2 .PE....F.ECDTF....FP-IDFXSFx..XXxLpD.v..W..rkqxhSVELeawv........gx.S..v.E...gkIX...EE...NG..FKYEFEMWTRxi.......... # # poss remove: ^ ^ ^ ^ # # In the above, I think only 10111 and 11111 work - others don't match the pattern below very well (either it has nothing # after the SVEL|whatever, or it doesn't have the stuff in front...). So only 11111. # # 0010_KD .PE....F.ECDTF....FP-IDFNSY...KS.L.D.v..W..rkqdhSVELeawv........g..S..v.E...gkIN...EE...NG..FKYEFEMWTRSi.......... # 0010_KP .PE....F.ECDTF....FP-IDFNSY...KS.L.D.v..W..rkqphSVELeawv........g..S..v.E...gkIN...EE...NG..FKYEFEMWTRSi.......... # 0010_QD .PE....F.ECDTF....FP-IDFNSY...QS.L.D.v..W..rkqdhSVELeawv........g..S..v.E...gkIN...EE...NG..FKYEFEMWTRSi.......... # 0010_QP .PE....F.ECDTF....FP-IDFNSY...QS.L.D.v..W..rkqphSVELeawv........g..S..v.E...gkIN...EE...NG..FKYEFEMWTRSi.......... # 0011_KD .PE....F.ECDTF....FP-IDFNSF...KS.L.D.v..W..rkqdhSVELeawv........g..S..v.E...gkIQ...EE...NG..VKYEFEMWTRSi.......... # 0011_KP .PE....F.ECDTF....FP-IDFNSF...KS.L.D.v..W..rkqphSVELeawv........g..S..v.E...gkIQ...EE...NG..VKYEFEMWTRSi.......... # 0011_QD .PE....F.ECDTF....FP-IDFNSF...QS.L.D.v..W..rkqdhSVELeawv........g..S..v.E...gkIQ...EE...NG..VKYEFEMWTRSi.......... # 0011_QP .PE....F.ECDTF....FP-IDFNSF...QS.L.D.v..W..rkqphSVELeawv........g..S..v.E...gkIQ...EE...NG..VKYEFEMWTRSi.......... # DYR_SCHPO_1 .KE....Y.PCDSF....FP-FEPAES...SD.W...v.....rka.hp.elekfv........gip-..v.Ee..grLK...A-assNKeeVEIEFELYGKn..ddv.nva.l DYR_SCHPO_2 .KE....Y.PCDSF....FP-FEPAES...SD.W...v.....rka.hp.elekfv........gip-..v.Ee..grLKa..ASs..NKeeVEIEFELYGKn..ddv.nva.l DYR_PNECA .KD....I.HCDVF....FP-LKFRDK...E-.WsS.v..w..kkekhs.dleswv........g..T.kvpH...gkIN...-E...DG..FDYEFEMWTRdl.......... AAF14071 .NE....V.DCDVF....FP-IDFRSS...QScLp.....w..rkqdhsv.leawv........g..S.kvpQ...gkIN...-E...NG..FIYEFEMWIRdi.......... AAL25720 .KE....I.DCDVF....FP-VDFRNG...RAsL...l..w..kk.kk.....k.............Q....D....hCD..lELw.vGS..---------K............ AAT99406 .NE....V.DCDVF....FP-IDFRSS...QScLp.....w..rkqdhsv.leawv........g..S.kvpQ...gkIN...E-...NG..FIYEFEMWIRdi.......... AAT99411 .NE....V.DCDVF....FP-IDFRSS...QScLp.....w..rkqdhsv.leawv........g..S.kvpQ...gkIN...E-...NG..FIYEFEMWIRdi.......... AAT99412 .NE....V.DCDVF....FP-VDFRSS...QScLp.....w..rkqdhsv.leawv........g..S.kvpQ...gkIN...E-...NG..FIYEFEMWIRdi.......... AAT99413 .NE....V.DCDVF....FP-IDFRSS...QScLp.....w..rkqdhsv.leawv........g..S.kvpQ...gkIN...E-...NG..FIYEFEMWIRdi.......... AAT99417 .NE....V.DCDVF....FP-IDFRSS...QScLp.....w..reqdhsv.leawv........g..S.kvpQ...gkIN...E-...NG..FIYEFEMWIRdi.......... ABB84704 .NE....V.DCDVF....FP-IDFRSS...QScLp.....w..rkqdhsv.leawv........g..S.kvpQ...gkIN...E-...NG..FIYEFEMWIRdi.......... ABB84712 .NE....V.DCDVF....FP-IDFRSS...QScLp.....w..rkqdhsv.leawv........g..S.kvpQ...gkIN...E-...NG..FIYEFEMWIRdi.......... ABB84716 .NE....V.DCDVF....FP-IDFRSS...QScLp.....w..rkqdhsv.leawv........g..S.kvpQ...grIN...E-...NG..FIYEFEMWIRdi.......... ABB84718 .NE....V.DCDVF....FP-IDFRSS...QScLp.....w..rkqdhsv.leawv........g..S.kvpQ...gkIN...E-...NG..FIYEFEMWIRdi.......... ABB84720 .NE....V.DCDVF....FP-IDFRSS...QScLp.....w..rkqdhsv.leawv........g..S.kvpQ...gkIN...E-...NG..FIYEFEMWIRgi.......... ABB84722 .NE....V.DCDVF....FP-IDFRSS...QScLp.....w..rkqdhsv.leawv........g..S.kvpQ...gkIN...E-...NG..FIYEFEMWIRdi.......... ABB84726 .NE....V.DCDVF....FP-IDFRSS...QScLp.....w..rkqdhsv.leawv........g..S.kvpQ...gkIN...E-...NG..FIYEFEMWIRdi.......... ABB84744 .NE....V.DCDVF....FP-IDFRSS...QScLp.....w..rkqdhsv.leawv........g..S.kvpQ...gkIN...E-...NG..FIYEFEMWIRdi.......... ABB84751 .NE....V.DCDVF....FP-IDFRSS...QScLp.....w..rkqdhsv.leawv........g..S.kvpQ...gkIN...E-...NG..FIYEFEMWIRdi.......... ABF06467 .NE....V.DCDVF....FP-IDFRSS...QScLp.....w..rkqdhsv.leawv........g..S.kvpQ...gkIN...E-...NG..FIYEFEMWIRdi.......... ABF06468 .NE....V.DCDVF....FP-IDFRSS...QScLp.....w..rkqdhsv.leawv........g..S.kvpQ...gkIN...E-...NG..FIYEFEMWIRdi.......... ABF06469 .NE....V.DCDVF....FP-IDFRSS...QScLp.....w..rkqdhsv.leawv........g..S.kvpQ...gkIN...E-...NG..FIYEFEMWIRd........... ABF06470 .NE....V.DCDVF....FP-IDFRSS...QScLp.....w..rkqdhsv.leawv........g..S.kvpQ...gkIN...E-...NG..FIYEFEMWIRdi.......... Q6CC38_YARLI_1 cPDgh..V.ECDTF....F-E-GFD--...QG.L......w..kkqpye.rlqdfv........g..D.kv.E.lpg.RDtpvEE...KG..FSFVYTLWEK............ Q6CC38_YARLI_2 cPDgh..V.ECDTF....F---E--GFd..QG.L......w..kkqpye.rlqdfv........g..D.kv.E.lpgr-DtpvEE...KG..FSFVYTLWEK............ CAG60823_1 .PLpettIpQMDTFlq..KQELEQRFY...DNsD..klvdflp...s.siqleg..rltsqewng..El.v.Kglp..VQ...E-...KG..YQFYFTLYTKk........... CAG60823_2 .PLpettIpQMDTFlqkq..ELEQR-Fy..DNsD.k.lvdflp...s.siqleg..rltsqewng..El.v.Kglp..VQ...-E...KG..YQFYFTLYTKk........... AAS51350_1 aPDg.paV.LLDTFlardV--LEQ-SFa..KN.S.agprallp...p.svel..........p....Ec..p-.....ATa.lEE...GG..FQFRFALYDH.lnrd....... AAS51350_2 aPDg.paV.LLDTFlardV--LEQ-SFa..KN.S.agprallp...p.svel..........p....Ec..p-.....ATa.lEE...GG..FQFRFALYDH.lnr...d.... DYR_YEAST_1 .PLdknaTpAMDTFl..dA-KLEEV-Fs..EQ.Dpaqlkeflp...pk.vel..........pe.t.Dcd..Q....rYS..lEE...KG..YCFEFTLYNRk........... DYR_YEAST_2 .PLdknaTpAMDTFl.da--KLEEV-Fs..EQ.Dpaqlkeflp...pk.vel..........pe.t.Dcd..Q....rYS..lEE...KG..YCFEFTLYNRk........... EDN63566_1 .PLdknaTpAMDTFl..dA-KLEEV-Fs..EQ.Dpaqlkeflp...pk.vel..........pe.t.Dcd..Q....rYS..lEE...KG..YCFEFTLYNRk........... EDN63566_2 .PLdknaTpAMDTFl.da--KLEEV-Fs..EQ.Dpaqlkeflp...pk.vel..........pe.t.Dcd..Q....rYS..lEE...KG..YCFEFTLYNRk........... CAA68779_1 .PLdknaTpAMDTFl..dA-KLEEV-Fs..EQ.Dpaqlkeflp...pk.vel..........pe.t.Dcd..Q....rYS..lEE...KG..YCFEFTLYNRk........... CAA68779_2 .PLdknaTpAMDTFl.da--KLEEV-Fs..EQ.Dpaqlkeflp...pk.vel..........pe.t.Dcd..Q....rYS..lEE...KG..YCFEFTLYNRk........... CAG86485_1 .ST.rp.V.EVDTWl.k.FP-I----Yt..ES.S..d...w..tkqtnd.dllkft........gi.D.n..Edv..eIT...E-...-G.dFTYKYTYWKKkv.......... CAG86485_2 sTRp...V.EVDTWl.k.FP-I----Yt..ES.S.d....w..tkqtnd.dllkft........gi.D.n..Edv..eIT...-E...GD..FTYKYTYWKKkv.......... ABN65593_1 tNE.dnqI.AVDTFl.k.FP-L----Yst.D-.S..q...w..rkqpks.elqkfi........gs.Sitl.Ed...dIS...E-...-G.dLKYNYTLWTRra...g...... ABN65593_2 tNE.dnqI.AVDTFl.k.FP-L-Y-STd..SQ.W.........rkqpks.elqkfi........gs.Sitl.Ed...dIS...-E...GD..LKYNYTLWTRra...g...... ## DYR_CANAL_1 .PSpes.I.EMDTFl.k.FP-LE--SW...--.T..........kqpks.elqkfv........g..Dtvl.Ed...dIK...E-...-G.dFTYNYTLWTRk........... DYR_CANAL_2 .PSpes.I.EMDTFl.k.FP-L-----...E-.S......w..tkqpks.elqkfv........g..D.tvlEd...dIK...-E...GD..FTYNYTLWTRk........... ## 1J3KA .ST....Y.ECDVF....FPEINENEY...QI.I......s........v.................S....D.....VY...TS...NN..TTLDFIIYKKt.nnkm...... #=GR 1J3KA SS .EE....E.CCCEE....CCCCCCCCE...EE.E......E........E.................C....C.....CE...EE...CC..EEEEEEEEEEC.CCXX...... ## Phi/Psi: .EE....E.EECEE....EEEEEGGGE...EE.C......E........E.................1....E.....EE...EE...LL..EEEEEEEEEEE.CX........ #=GR 1J3KA LI .................................................................................................................. #=GR 1J3KA SA .14....2.41433....026147630...43.3......3........5.................3....6.....53...60...49..03000010412.99XX...... ## Hydrophobic: .--....?.-?-++....+--+----?...-+.+......-........+.................-....-.....+?...--...--..--+-+++?---.---....... 1J3KB .ST....Y.ECDVF....FPEINENEY...QI.I......s........v.................S....D.....VY...TS...NN..TTLDFIIYKKt.nnkm...... #=GR 1J3KB SS .EE....E.CCCEE....CCCCCCCCE...EE.E......E........E.................E....E.....EE...EC...CC..CEEEEEEEEEC.CCCX...... ## Phi/Psi: .EE....E.EECCC....EEECEHGCE...EE.C......E........E.................1....E.....EE...EE...CL..EECEEEEEEEE.CCXX...... #=GR 1J3KB LI .................................................................................................................. #=GR 1J3KB SA .14....2.40333....016147720...52.3......3........5.................3....6.....53...60...59..03010010311.879X...... ## Hydrophobic: .--....?.-?-++....+--+----?...-+.+......-........+.................-....-.....+?...--...--..--+-+++?---.----...... ## Non-Pro: ............*.............*.............*.................................................................X....... ## Gly-Req: ..........................................................................................................X....... 1J3IA .ST....Y.ECDVF....FPEINENEY...QI.I......s........v.................S....D.....VY...TS...NN..TTLDFIIYKKt.nnkm...... #=GR 1J3IA SA .14....2.41433....026145520...42.3......3........5.................3....6.....53...61...49..03000010311.8789...... #=GR 1J3IA S2 .14....2.41433....026145520...42.3......3........5.................3....6.....53...61...4E..03000010311.8789...... 1J3IB .ST....Y.ECDVF....FPEINENEY...QI.I......s........v.................S....D.....VY...TS...NN..TTLDFIIYKKt.nnkm...... #=GR 1J3IB SA .14....2.41433....016147610...42.3......3........5.................3....6.....53...60...49..03000010410.99XX...... #=GR 1J3IB S2 .14....2.41433....016147610...42.3......3........5.................3....6.....53...60...4E..03000010410.9EXX...... DRTS_PLACH .NA....Y.TCDVL....FPDINEDLF...KI.T......s........i.................S....D.....VY...SS...NN..TTLDFVIYSKt.ke........ Q7RGH7_PLAYO .NS....Y.NCDVL....FPEINENLF...KI.S......s........i.................S....D.....VY...NS...NN..TTLDFIIYSKk.tek....... Q95US9_PLAGA .ST....Y.ECDVF....FPEIKETEF...EI.M......s........l.................S....D.....VY...SN...NG..ATLDFVIYKRk.ke.iln.... ## 232 2BL9A .GA....Y.PCDVF....FPEFDESEF...RV.T......s........v.................S....E.....VY...NS...KG..TTLDFLVYSK.v...g.....g #=GR 2BL9A SS .EE....E.CCCEE....CCCCGGGCE...EE.E......E........E.................C....C.....CE...EE...CC..EEEEEEEEEE.C...X.....X ## Phi/Psi: .EE....E.EECEE....EEECEGGGE...EE.G......E........E.................E....C.....EE...EE...LC..EECEEEEEEE.X...X.....X #=GR 2BL9A LI .................................................................................................................. ## Non-Pro: ............*.............*.............*..............................................................X.......... ## Gly-Req: .......................................................................................................X.......... #=GR 2BL9A SA .15....1.51432....006263520...54.5......4........5.................2....7.....64...50...87..2200000210.6...X.....X ## Hydrophobic: .-?....?.-?-++....+--+----+...-+.-......-........+.................-....-.....+?...--...--..--+-+++?--.+.......... DRTS_PLAVI .GA....Y.PCDVF....FPEFDESQF...RV.T......s........v.................S....E.....VY...NS...KG..TTLDFLVYSK.v...g.....g DRTS_PLAVN .NA....Y.T----....---------...--.-.................................-....-.....--...--...--..----------............ AAV33644 .NA....Y.PCDVL....FPEFDESQF...RV.T......s........v.................S....E.....VY...NC...KG..CTLDFLIYS-............ AAV33645 .NA....Y.QCDVL....FPEFDEGQF...RV.T......s........v.................S....E.....VY...NN...KG..TTLDFVIYS-............ ## 1SEJC lED....I.EFDTY....FPEI-PETF...LP.V......y........m.................S....Q.....TF...CT...KN..ISYDFMIFEKq.ekktlq.... #=GR 1SEJC SS CCC....C.CCCEE....CCCC-CCCC...EE.E......E........E.................C....C.....CE...EE...CC..EEECCEEEECC.CCCCCC.... ## Phi/Psi: EGC....E.EECEE....EEEE-EGGE...EE.C......E........E.................E....E.....EE...EE...LL..EEECEEEEECC.CC1....... #=GR 1SEJC LI .................................................................................................................. #=GR 1SEJC NP ............*...........................*......................................................................... #=GR 1SEJC GR .................................................................................................................. #=GR 1SEJC SA 118....3.60423....0072-3840...20.1......2........0.................0....1.....02...11...63..10001020223.485675.... ## Hydrophobic: +--....+.-+--?....+--+.---+...+-.+......|........+.................-....-.....-+...?-...--..+-?-++++---.----+-.... 1QZFD lED....I.EFDTY....FPEI-PETF...LP.V......y........m.................S....Q.....TF...CT...KN..ISYDFMIFEKq.ekktlq.... #=GR 1QZFD SA 118....3.60413....0072-3940...30.1......2........0.................0....1.....02...10...63..10000010214.676973.... #=GR 1QZFD S2 118....3.60413....0072-3940...30.1......2........B.................0....1.....02...10...63..1B0B0010214.676973.... AAC47229 lED....I.EFDTY....FPEI-PETF...LP.V......y........m.................S....Q.....TF...CT...KN..ISYDFMVFEKq.ekktlq.... ## 163 CAI76538 .KN....Y.ECEVF....FPKI-PDDF...VI.T........g......i.................S....K.....TF...SS...ED..TSYDFVLYERk.d..li..... EAN31856 .KN....Y.KCEVF....FPKI-PDDF...VI.T........g......i.................S....K.....TF...SS...ED..TTYDFVTYERk.d..li..... EAR85731 .VE....V.ECDVF....MQKDYLKNF...DM.Ie..............v.................S....E.....TQ...SE...NN..LNYDFTRYFNk.nykg.q.... DRTS_TRYBB pAS....N.SCSVF....F-DI-PAAG...TKtPe.......g......lel......v.resi...T....De....RV...STga.GG..KKYQ-EKLVPr.ns...e.... AAX78868 pAS....N.SCSVF....F-DI-PAAG...TKtLe.......g......lel......v.resi...T....De....RV...STga.GG..KKYQFEKLVPr.ns...e.... DRTS_TRYCR aSE....S.SCSVF....F-RV-PESG...TE.Aa..a....g......ie......w.qreti...S....Ee....LT...S-.a.NGneTKYYFEKLIPr.nr...e.... AAK71184 aSE....S.SCSVF....F-HV-PESG...TEpA...a....g......ie......w.qreti...S....Ee....LT...S-.a.NGseTKYYFEKLIPr.nr...e.... AAK71177 aSE....S.SCSVF....F-RV-PESG...TE.Aa..a....g......i.......w.qreti...S....Ee....LT...S-.a.NGneTKYYFEKLIPr.nr...e.... Q95NI3_TRYCR aSE....S.SCSVF....F-RV-PESG...TE.Aa..a....g......ie......w.qreti...S....Ee....LT...S-.a.NGneTKYYFEKLIPr.nr...e.... Q95NT2_TRYCR aSE....S.SCSVF....F-RV-PESG...TE.Aa..a....g......ie......w.qreti...S....Ee....LT...S-.a.NGneTKYYFEKLIPr.nr...e.... DRTS_LEIAM tTA....P.ACTRF....FP-FPPENA...AT.A......w.......dl...a........s....S....Q...grRK...S-.avDG..LEFEICKYVPr.nh...e.... DRTS_LEIMA aTA....P.ACTRF....FP-FPPENA...AT.A......w.......dl...a........s....S....Q...grRK...SE.a.EG..LEFEICKYVPr.nh...e.... AAA29272 aTA....P.ACTRF....FP-FPPENA...AT.A......w.......dl...a........s....S....Q...grRK...SE.a.EG..LEFEICKYVPr.nh...e.... Q8MXB7_LEITR tTA....P.ACTRF....FP-FPPENA...AT.A......w.......dl...a........s....S....Q...grRK...SE.a.EG..LEFEICKYVPr.nh...e.... Q8MQV1_LEICH tTA....P.ACTRF....FP-FPPENT...TT.A......w.......dl...a........s....S....Q...grRK...SE.a.DG..LEFEICKYVPr.nh...e.... DRT1_ARATH .TS....V.DCDTFi...-PAIDTSVY...QP.-......w.....................s....S....-.....SF.p.VT...EN..----------glr......... DRTS_SOYBN .SS....I.ECDTFi...-PPVDFTIF...RP.W......y.....................s....S....-.....-F.p.-K..vENn.IRYSFTTYVR.vrssaae.... Q2R481_ORYSA .SS....I.ECDTFi...-PPIDLSVF...QP.W......y.....................s....S....-.....L-.p.V-..vESn.IRHSFVTYVR.vrktma..... DRTS_MAIZE .SS....I.ECDTFi...-PPVDFSVF...QP.W......y.....................s....S....-.....-F.p.V-..iESn.IRHSFVSFVR.vrksvae.... #=GC RF .XX....X.XXXXX....XXXXXXXXX...XX.X.................................X....X.....XX...XX...XX..XXXXXXXXXX............ #=GC SS_cons CCC....C.CCC--....CCCCCCCCC...EE.-CC......CC.......................C....-.....-E...EE...CC..EEEEEEEEEECCCCCCC..... #=GC seq_cons .N-......E.DTF....FPEID.-......l.lP-......Gl.......................S....-.....l..........G..I.Y.F.lY.K.lD.Kll..... #=GC LI_cons .................................................................................................................. #=GC AS_cons .................................................................................................................. #=GC SA_cons .25....2.61423....01714..40...54.2........60.......................5....6.....42...21...56..130101102166.7........ ## Seq_cons2 xNE....F.EXDTF....FPEINXDEY...KL.LpE....ypGV.......................S....E.....VX...XD...KG..IXYXFXVYEKXVDKKxxxxxxx ## Hydrophobic: .--....+.-.--+....+--+-.--?...-+.+........-+.......................-....-.....+.....-...--..+.?.+.+?--.+-......... ## Seventh section 1U70A ......................................... #=GR 1U70A SS ......................................... #=GR 1U70A LI ......................................... #=GR 1U70A NP ......................................... #=GR 1U70A GR ......................................... #=GR 1U70A SA ......................................... DYR_RAT ......................................... DYR_MESAU ......................................... Q78EH1_9RODE ......................................... 1U72A ......................................... #=GR 1U72A SS ......................................... #=GR 1U72A LI ......................................... #=GR 1U72A AS ......................................... #=GR 1U72A NP ......................................... #=GR 1U72A GR ......................................... #=GR 1U72A SA ......................................... 1PD8A ......................................... #=GR 1PD8A SS ......................................... #=GR 1PD8A NP ......................................... #=GR 1PD8A GR ......................................... #=GR 1PD8A SA ......................................... 1DHFB ......................................... #=GR 1DHFB LI ......................................... #=GR 1DHFB AS ......................................... #=GR 1DHFB SA ......................................... XP_001110551 ......................................... XP_001134992 ......................................... XP_851329 ......................................... XP_536308 ......................................... DYR_PIG ......................................... DYR_BOVIN ......................................... P00376 ......................................... Q29RI1_BOVIN ......................................... PLACENT ......................................... #=GR PLACENT SA ......................................... ## POSS1: ......................................... ##nonrot.full2 ......................................... ##mmtp.full ......................................... ## POSS2: ......................................... XP_001363618 ......................................... ## 8DFR0 ......................................... #=GR 8DFR0 SS ......................................... #=GR 8DFR0 NP ......................................... #=GR 8DFR0 GR ......................................... #=GR 8DFR0 SA ......................................... 1DR10 ......................................... #=GR 1DR10 SS ......................................... #=GR 1DR10 LI ......................................... #=GR 1DR10 GR ......................................... #=GR 1DR10 SA ......................................... AGA ......................................... #=GR AGA SA ......................................... ## AG: ......................................... ## AI: ......................................... ## PG: ......................................... PGV ......................................... #=GR PGV SA ......................................... ## PI: ......................................... Q5U543_XENLA ......................................... ENSXETP49617 ......................................... AAK01951 ......................................... CAM14042 ......................................... NP_571850 ......................................... XP_001176553 ......................................... ## EED: ......................................... ## EEK: ......................................... ## KED: ......................................... ## KEK: ......................................... ## K_D: ......................................... ## K_K: ......................................... ## _EED: ......................................... ## _E_SKFED: ......................................... ## _E_GKFED: ......................................... ## _EE_D: ......................................... ## _EAED: ......................................... ## _EASKFED: ......................................... ## _EAGKFED: ......................................... ## _E_EDQ: ......................................... ES ......................................... #=GR ES SA ......................................... ## S2: ......................................... ## _E_GKFEDQ: ......................................... ## _EAEDQ: ......................................... ## _EASKFEDQ: ......................................... ## _EAGKFEDQ: ......................................... ## _EEK: ......................................... ## _KED: ......................................... ## _KE_D: ......................................... ## _KAED: ......................................... ## _KAEDQ: ......................................... ## _KASKFED: ......................................... ## _KASKFEDQ: ......................................... ## _KAGKFED: ......................................... KAG ......................................... #=GR KAG SA ......................................... ## S2: ......................................... ## _KEK: ......................................... ## _K_D: ......................................... ## _K_K: ......................................... XP_973338 ......................................... EAL28532 ......................................... DYR_DROME ......................................... AAA19051 ......................................... XP_393902 ......................................... Q7Q0L5_ANOGA ......................................... DYR_CAEEL_1 ......................................... Q61DT5_CAEBR_1 ............c............................ DYR_CAEEL_2 ......................................... Q61DT5_CAEBR_2 ............c............................ ## ## 1100_SVFQ ......................................... ## 1111_GTF ......................................... ## 1111_GVF ......................................... 1111_STF ......................................... ## 1111_SVF ......................................... ## ## 1111_chars2 ......................................... ## AAQ02615_1 ......................................... AAQ02617_1 ......................................... AAQ02619_1 ......................................... AAQ02621_1 ......................................... AAQ02615_2 ......................................... AAQ02617_2 ......................................... AAQ02619_2 ......................................... AAQ02621_2 ......................................... DYR_ENCCU_1 ......................................... DYR_ENCCU_2 ......................................... EAK84413 sadslrqylgsacpvaltdsrdmvtsegetwyqyqlwektv BAC75955 ......................................... DYR_CRYNE ......................................... # # 10100_chars2 ......................................... # 10101_chars2 ......................................... # 10110_chars2 ......................................... # 10111_chars2 ......................................... # 11100_chars2 ......................................... # 11101_chars2 ......................................... # 11110_chars2 ......................................... # 11111_chars2 ......................................... # # 0010_KD ......................................... # 0010_KP ......................................... # 0010_QD ......................................... # 0010_QP ......................................... # 0011_KD ......................................... # 0011_KP ......................................... # 0011_QD ......................................... # 0011_QP ......................................... # DYR_SCHPO_1 ....lek.l.sic............................ DYR_SCHPO_2 .le..k..l.sic............................ DYR_PNECA ......................................... AAF14071 ......................................... AAL25720 ......................................... AAT99406 ......................................... AAT99411 ......................................... AAT99412 ......................................... AAT99413 ......................................... AAT99417 ......................................... ABB84704 ......................................... ABB84712 ......................................... ABB84716 ......................................... ABB84718 ......................................... ABB84720 ......................................... ABB84722 ......................................... ABB84726 ......................................... ABB84744 ......................................... ABB84751 ......................................... ABF06467 ......................................... ABF06468 ......................................... ABF06469 ......................................... ABF06470 ......................................... Q6CC38_YARLI_1 ......................................... Q6CC38_YARLI_2 ......................................... CAG60823_1 ......................................... CAG60823_2 ......................................... AAS51350_1 ......................................... AAS51350_2 ......................................... DYR_YEAST_1 ......................................... DYR_YEAST_2 ......................................... EDN63566_1 ......................................... EDN63566_2 ......................................... CAA68779_1 ......................................... CAA68779_2 ......................................... CAG86485_1 ......................................... CAG86485_2 ......................................... ABN65593_1 ......................................... ABN65593_2 ......................................... ## DYR_CANAL_1 ......................................... DYR_CANAL_2 ......................................... ## 1J3KA ......................................... #=GR 1J3KA SS ......................................... #=GR 1J3KA LI ......................................... #=GR 1J3KA SA ......................................... 1J3KB ......................................... #=GR 1J3KB SS ......................................... #=GR 1J3KB LI ......................................... #=GR 1J3KB SA ......................................... 1J3IA ......................................... #=GR 1J3IA SA ......................................... #=GR 1J3IA S2 ......................................... 1J3IB ......................................... #=GR 1J3IB SA ......................................... #=GR 1J3IB S2 ......................................... DRTS_PLACH ......................................... Q7RGH7_PLAYO ......................................... Q95US9_PLAGA ......................................... 2BL9A ......................................... #=GR 2BL9A SS ......................................... #=GR 2BL9A LI ......................................... #=GR 2BL9A SA ......................................... DRTS_PLAVI ......................................... DRTS_PLAVN ......................................... AAV33644 ......................................... AAV33645 ......................................... 1SEJC ......................................... #=GR 1SEJC SS ......................................... #=GR 1SEJC LI ......................................... #=GR 1SEJC NP ......................................... #=GR 1SEJC GR ......................................... #=GR 1SEJC SA ......................................... 1QZFD ......................................... #=GR 1QZFD SA ......................................... #=GR 1QZFD S2 ......................................... AAC47229 ......................................... CAI76538 ......................................... EAN31856 ......................................... EAR85731 ......................................... DRTS_TRYBB ......................................... AAX78868 ......................................... DRTS_TRYCR ......................................... AAK71184 ......................................... AAK71177 ......................................... Q95NI3_TRYCR ......................................... Q95NT2_TRYCR ......................................... DRTS_LEIAM ......................................... DRTS_LEIMA ......................................... AAA29272 ......................................... Q8MXB7_LEITR ......................................... Q8MQV1_LEICH ......................................... DRT1_ARATH ......................................... DRTS_SOYBN ......................................... Q2R481_ORYSA ......................................... DRTS_MAIZE ......................................... #=GC RF ......................................... #=GC SS_cons ......................................... #=GC seq_cons ......................................... #=GC LI_cons ......................................... #=GC AS_cons ......................................... #=GC SA_cons ......................................... //