BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 003819
(793 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1U1H|A Chain A, A. Thaliana Cobalamine Independent Methionine Synthase
pdb|1U1J|A Chain A, A. Thaliana Cobalamine Independent Methionine Synthase
pdb|1U1U|A Chain A, A. Thaliana Cobalamine Independent Methionine Synthase
pdb|1U22|A Chain A, A. Thaliana Cobalamine Independent Methionine Synthase
Length = 765
Score = 1323 bits (3425), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 647/792 (81%), Positives = 696/792 (87%), Gaps = 28/792 (3%)
Query: 2 ASHVVGYPRMGPKRELKFALESFWDGKSSADELQNVAADLRASIWNQMADAGIKFIPSNT 61
ASH+VGYPR GPKRELKFALESFWDGKS+A++LQ V+ADLR+SIW Q + AG KFIPSNT
Sbjct: 2 ASHIVGYPRXGPKRELKFALESFWDGKSTAEDLQKVSADLRSSIWKQXSAAGTKFIPSNT 61
Query: 62 FSYYDQVLDTTAMLGAVPPRYSWNGGEIGFDVYFSMARGNASVPAMEMTKWFDTNYHYIV 121
F++YDQVLDTTA LGAVPPRY + GGEIG DVYFS ARGNASVPA E TKWFDTNYHYIV
Sbjct: 62 FAHYDQVLDTTAXLGAVPPRYGYTGGEIGLDVYFSXARGNASVPAXEXTKWFDTNYHYIV 121
Query: 122 PELGPDVNFSYASHKAVQEYKEAKALGMETVPVLVGPVSYLLLSKPAKGVEKSFSLLSLI 181
PELGP+VNFSYASHKAV EYKEAKALG++TVPVLVGPVSYLLLSK AKGV+KSF LLSL+
Sbjct: 122 PELGPEVNFSYASHKAVNEYKEAKALGVDTVPVLVGPVSYLLLSKAAKGVDKSFELLSLL 181
Query: 182 DKIIPVYKEVVAELKAAGATWIQFDEPTLVLDLDSHKLQAFSDAYSELQSSLSGLNVLIE 241
KI+P+YKEV+ ELKAAGATWIQ DEP LV DL+ KLQAF+ AY+EL+S+LSGLNVL+E
Sbjct: 182 PKILPIYKEVITELKAAGATWIQLDEPVLVXDLEGQKLQAFTGAYAELESTLSGLNVLVE 241
Query: 242 TYFADVPAETYKILTSLKGVTGFGFDLIRGTKTLDLIKTEFPLGKYLFAGVVDGRNIWAN 301
TYFAD+PAE YK LTSLKGVT FGFDL+RGTKTLDL+K FP GKYLFAGVVDGRNIWAN
Sbjct: 242 TYFADIPAEAYKTLTSLKGVTAFGFDLVRGTKTLDLVKAGFPEGKYLFAGVVDGRNIWAN 301
Query: 302 DLASSLTTLQDLAGTVGKDKVVVSTSCSLLHTAVDLENETKLDQEIKSWLAFAAQKVVEV 361
D A+SL+TLQ L G VGKDK+VVSTSCSLLHTAVDL NETKLD EIKSW AFAAQKVVEV
Sbjct: 302 DFAASLSTLQALEGIVGKDKLVVSTSCSLLHTAVDLINETKLDDEIKSWXAFAAQKVVEV 361
Query: 362 NALAKALSGQKDEAYFSSNAAAQASRKSSPRVTNEAVQKPAAALKGSDHRRATNVSARLD 421
NALAKAL+GQKDEA FS+NAAA ASR+SSPRVTNE VQK AAALKGSDHRRATNVSARLD
Sbjct: 362 NALAKALAGQKDEALFSANAAALASRRSSPRVTNEGVQKAAAALKGSDHRRATNVSARLD 421
Query: 422 AQQKKLNLPNLPTTTIGSFPQTMDLRRVRREFKAKKRVXXXXXXXXXXXXXXQIVFHKLV 481
AQQKKLNLP LPTTTIGSFPQT++LRRVRRE+KAKK
Sbjct: 422 AQQKKLNLPILPTTTIGSFPQTVELRRVRREYKAKK------------------------ 457
Query: 482 FYFRISEDDYVKTIKEEINNVVKLQEELDIDVLVHGEPERNDMVEYFGEQLSGFAFTVNG 541
+SE+DYVK IKEEI VV LQEELDIDVLVHGEPERND VEYFGEQLSGFAFT NG
Sbjct: 458 ----VSEEDYVKAIKEEIKKVVDLQEELDIDVLVHGEPERNDXVEYFGEQLSGFAFTANG 513
Query: 542 WVQSYGSRCVKPPIIYGDVSRPKAMTVFWSSMAQSMTKRPMKGMLTGPVTILNWSFVRND 601
WVQSYGSRCVKPP+IYGDVSRPKA TVFWS+ AQS T RP KG LTGPVTILNWSFVRND
Sbjct: 514 WVQSYGSRCVKPPVIYGDVSRPKAXTVFWSAXAQSXTSRPXKGXLTGPVTILNWSFVRND 573
Query: 602 QPRFETCYQIALAIKDEVEDLEKAGITVIQIDEAALREGLPLRKSEQDFYLKWAVHSFRI 661
QPR ETCYQIALAIKDEVEDLEK GI VIQIDEAALREGLPLRKSE FYL WAVHSFRI
Sbjct: 574 QPRHETCYQIALAIKDEVEDLEKGGIGVIQIDEAALREGLPLRKSEHAFYLDWAVHSFRI 633
Query: 662 TNCGVQDTTQVHTHMCYSNFNDIIHSIMDMDADVITIENSRSDEKLLSVFREGVKYRAGI 721
TNCGVQD+TQ+HTH CYS+FNDIIHSI+D DADVITIENSRSDEKLLSVFREGVKY AGI
Sbjct: 634 TNCGVQDSTQIHTHXCYSHFNDIIHSIIDXDADVITIENSRSDEKLLSVFREGVKYGAGI 693
Query: 722 GPGVYDIHSPRIPSTEEIADRINKMLAVLESNILWVNPDCGLKTRKYSEVKPALSNMVAA 781
GPGVYDIHSPRIPS+EEIADR+NK LAVLE NILWVNPDCGLKTRKY+EVKPAL N V A
Sbjct: 694 GPGVYDIHSPRIPSSEEIADRVNKXLAVLEQNILWVNPDCGLKTRKYTEVKPALKNXVDA 753
Query: 782 AKLLRTQLASAK 793
AKL+R+QLASAK
Sbjct: 754 AKLIRSQLASAK 765
>pdb|3PPC|A Chain A, Crystal Structure Of The Candida Albicans Methionine
Synthase By Surface Entropy Reduction, Tyrosine Variant
With Zinc
pdb|3PPC|B Chain B, Crystal Structure Of The Candida Albicans Methionine
Synthase By Surface Entropy Reduction, Tyrosine Variant
With Zinc
Length = 789
Score = 696 bits (1795), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 386/808 (47%), Positives = 500/808 (61%), Gaps = 63/808 (7%)
Query: 1 MASHVVGYPRMGPKRELKFALESFWDGKSSADELQNVAADLRASIWNQMADAGIKFIPSN 60
+ S V+G+PR+G +RELK E++W GK++ +EL +LR W AG+ IPSN
Sbjct: 24 VQSSVLGFPRIGGQRELKKITEAYWSGKATVEELLAKGKELREHNWKLQQKAGVDIIPSN 83
Query: 61 TFSYYDQVLDTTAMLGAVPPRYS-WNGGEIGFDVYFSMARG----------NASVPAMEM 109
FSYYDQVLD + + A+P RY+ ++ I DV F+M RG V A+EM
Sbjct: 84 DFSYYDQVLDLSLLFNAIPERYTKFDLAPI--DVLFAMGRGLQYYATYTQAAVDVTALEM 141
Query: 110 TKWFDTNYHYIVPELGPDVNF---SYASHKAVQEYKEAKALGMETVPVLVGPVSYLLLSK 166
KWFD+NYHY+ P F + A K V E+ EAKALG++T PV++GPVSYL L K
Sbjct: 142 VKWFDSNYHYVRPTFSHSTEFKLNTAAGIKPVDEFNEAKALGVQTRPVILGPVSYLYLGK 201
Query: 167 PAKGVEKSFSL--LSLIDKIIPVYKEVVAELKAAGATWIQFDEPTLVLDLDSHKLQAFSD 224
K S L +SL+ KI+PVYKE++ +LK AGA +Q DEP LVLDL F +
Sbjct: 202 ADK---DSLDLEPISLLPKILPVYKELLQKLKEAGAEQVQIDEPVLVLDLPEAVQSKFKE 258
Query: 225 AYSELQSSLSGLNV---LIETYFADVPAETYKILTSLKGVTGFGFDLIRGTKTLDLIKTE 281
AY +L G +V ++ TYF DV K + +L V GF FD +R + LD + +
Sbjct: 259 AYD----ALVGADVPELILTTYFGDV-RPNLKAIENLP-VAGFHFDFVRVPEQLDEVASI 312
Query: 282 FPLGKYLFAGVVDGRNIWANDLASSLTTLQDLAGTVGKDKVVVSTSCSLLHTAVDLENET 341
G+ L AGVVDGRNIW D A + +Q VGKDKVVV+TS SLLHT VDLE+ET
Sbjct: 313 LKDGQTLSAGVVDGRNIWKTDFAKASAVVQKAIEKVGKDKVVVATSSSLLHTPVDLESET 372
Query: 342 KLDQEIKSWLAFAAQKVVEVNALAKALSGQKDEAYFSSNAAAQASRKSSPRVTNEAVQKP 401
KLD IK W +FA QK+ EV +AK +SG+ +NAA+ +R S + VQ+
Sbjct: 373 KLDAVIKDWFSFATQKLDEVVVIAKNVSGEDVSKQLEANAASIKARSESSITNDPKVQER 432
Query: 402 AAALKGSDHRRATNVSARLDAQQKKLNLPNLPTTTIGSFPQTMDLRRVRREFKAKKRVXX 461
+ + R RL Q+ K NLP PTTTIGSFPQT D+R R +F +
Sbjct: 433 LTTINEALATRKAAFPERLTEQKAKYNLPLFPTTTIGSFPQTKDIRINRNKFAKGQ---- 488
Query: 462 XXXXXXXXXXXXQIVFHKLVFYFRISEDDYVKTIKEEINNVVKLQEELDIDVLVHGEPER 521
I+ ++Y I +EI VV+ QEE+ +DVLVHGEPER
Sbjct: 489 ------------------------ITAEEYEAFINKEIETVVRFQEEIGLDVLVHGEPER 524
Query: 522 NDMVEYFGEQLSGFAFTVNGWVQSYGSRCVKPPIIYGDVSRPKAMTVFWSSMAQSMTKRP 581
NDMV+YFGEQL+GFAFT NGWVQSYGSR V+PPII GDVSRPKAMTV S AQS+T +P
Sbjct: 525 NDMVQYFGEQLNGFAFTTNGWVQSYGSRYVRPPIIVGDVSRPKAMTVKESVYAQSITSKP 584
Query: 582 MKGMLTGPVTILNWSFVRNDQPRFETCYQIALAIKDEVEDLEKAGITVIQIDEAALREGL 641
MKGMLTGPVTIL WSF R+D Q+ LA++DEV DLE AGITVIQ+DE A+REGL
Sbjct: 585 MKGMLTGPVTILRWSFPRDDVSGKIQALQLGLALRDEVNDLEGAGITVIQVDEPAIREGL 644
Query: 642 PLRKS-EQDFYLKWAVHSFRITNCGVQDTTQVHTHMCYSNFNDIIHSIMDMDADVITIEN 700
PLR E+ YL WA SFR+ GV+++TQ+H+H CYS+ + + I +DADV++IE
Sbjct: 645 PLRAGKERSDYLNWAAQSFRVATSGVENSTQIHSHFCYSDLDP--NHIKALDADVVSIEF 702
Query: 701 SRSDEKLLSVFREGVKYRAGIGPGVYDIHSPRIPSTEEIADRINKMLAVLESNILWVNPD 760
S+ D+ + +E +Y IG G++DIHSPRIPS +E RI ++L V ++ WVNPD
Sbjct: 703 SKKDDP--NYIQEFSEYPNHIGLGLFDIHSPRIPSKQEFVSRIEEILKVYPASKFWVNPD 760
Query: 761 CGLKTRKYSEVKPALSNMVAAAKLLRTQ 788
CGLKTR + EVK +L+NMV AAK R +
Sbjct: 761 CGLKTRGWPEVKESLTNMVEAAKEFRAK 788
>pdb|3PPH|A Chain A, Crystal Structure Of The Candida Albicans Methionine
Synthase By Surface Entropy Reduction, Threonine Variant
pdb|3PPH|B Chain B, Crystal Structure Of The Candida Albicans Methionine
Synthase By Surface Entropy Reduction, Threonine Variant
Length = 789
Score = 695 bits (1794), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 386/808 (47%), Positives = 500/808 (61%), Gaps = 63/808 (7%)
Query: 1 MASHVVGYPRMGPKRELKFALESFWDGKSSADELQNVAADLRASIWNQMADAGIKFIPSN 60
+ S V+G+PR+G +RELK E++W GK++ +EL +LR W AG+ IPSN
Sbjct: 24 VQSSVLGFPRIGGQRELKKITEAYWSGKATVEELLAKGKELREHNWKLQQKAGVDIIPSN 83
Query: 61 TFSYYDQVLDTTAMLGAVPPRYS-WNGGEIGFDVYFSMARG----------NASVPAMEM 109
FSYYDQVLD + + A+P RY+ ++ I DV F+M RG V A+EM
Sbjct: 84 DFSYYDQVLDLSLLFNAIPERYTKFDLAPI--DVLFAMGRGLQTTATTTQAAVDVTALEM 141
Query: 110 TKWFDTNYHYIVPELGPDVNF---SYASHKAVQEYKEAKALGMETVPVLVGPVSYLLLSK 166
KWFD+NYHY+ P F + A K V E+ EAKALG++T PV++GPVSYL L K
Sbjct: 142 VKWFDSNYHYVRPTFSHSTEFKLNTAAGIKPVDEFNEAKALGVQTRPVILGPVSYLYLGK 201
Query: 167 PAKGVEKSFSL--LSLIDKIIPVYKEVVAELKAAGATWIQFDEPTLVLDLDSHKLQAFSD 224
K S L +SL+ KI+PVYKE++ +LK AGA +Q DEP LVLDL F +
Sbjct: 202 ADK---DSLDLEPISLLPKILPVYKELLQKLKEAGAEQVQIDEPVLVLDLPEAVQSKFKE 258
Query: 225 AYSELQSSLSGLNV---LIETYFADVPAETYKILTSLKGVTGFGFDLIRGTKTLDLIKTE 281
AY +L G +V ++ TYF DV K + +L V GF FD +R + LD + +
Sbjct: 259 AYD----ALVGADVPELILTTYFGDV-RPNLKAIENLP-VAGFHFDFVRVPEQLDEVASI 312
Query: 282 FPLGKYLFAGVVDGRNIWANDLASSLTTLQDLAGTVGKDKVVVSTSCSLLHTAVDLENET 341
G+ L AGVVDGRNIW D A + +Q VGKDKVVV+TS SLLHT VDLE+ET
Sbjct: 313 LKDGQTLSAGVVDGRNIWKTDFAKASAVVQKAIEKVGKDKVVVATSSSLLHTPVDLESET 372
Query: 342 KLDQEIKSWLAFAAQKVVEVNALAKALSGQKDEAYFSSNAAAQASRKSSPRVTNEAVQKP 401
KLD IK W +FA QK+ EV +AK +SG+ +NAA+ +R S + VQ+
Sbjct: 373 KLDAVIKDWFSFATQKLDEVVVIAKNVSGEDVSKQLEANAASIKARSESSITNDPKVQER 432
Query: 402 AAALKGSDHRRATNVSARLDAQQKKLNLPNLPTTTIGSFPQTMDLRRVRREFKAKKRVXX 461
+ + R RL Q+ K NLP PTTTIGSFPQT D+R R +F +
Sbjct: 433 LTTINEALATRKAAFPERLTEQKAKYNLPLFPTTTIGSFPQTKDIRINRNKFAKGQ---- 488
Query: 462 XXXXXXXXXXXXQIVFHKLVFYFRISEDDYVKTIKEEINNVVKLQEELDIDVLVHGEPER 521
I+ ++Y I +EI VV+ QEE+ +DVLVHGEPER
Sbjct: 489 ------------------------ITAEEYEAFINKEIETVVRFQEEIGLDVLVHGEPER 524
Query: 522 NDMVEYFGEQLSGFAFTVNGWVQSYGSRCVKPPIIYGDVSRPKAMTVFWSSMAQSMTKRP 581
NDMV+YFGEQL+GFAFT NGWVQSYGSR V+PPII GDVSRPKAMTV S AQS+T +P
Sbjct: 525 NDMVQYFGEQLNGFAFTTNGWVQSYGSRYVRPPIIVGDVSRPKAMTVKESVYAQSITSKP 584
Query: 582 MKGMLTGPVTILNWSFVRNDQPRFETCYQIALAIKDEVEDLEKAGITVIQIDEAALREGL 641
MKGMLTGPVTIL WSF R+D Q+ LA++DEV DLE AGITVIQ+DE A+REGL
Sbjct: 585 MKGMLTGPVTILRWSFPRDDVSGKIQALQLGLALRDEVNDLEGAGITVIQVDEPAIREGL 644
Query: 642 PLRKS-EQDFYLKWAVHSFRITNCGVQDTTQVHTHMCYSNFNDIIHSIMDMDADVITIEN 700
PLR E+ YL WA SFR+ GV+++TQ+H+H CYS+ + + I +DADV++IE
Sbjct: 645 PLRAGKERSDYLNWAAQSFRVATSGVENSTQIHSHFCYSDLDP--NHIKALDADVVSIEF 702
Query: 701 SRSDEKLLSVFREGVKYRAGIGPGVYDIHSPRIPSTEEIADRINKMLAVLESNILWVNPD 760
S+ D+ + +E +Y IG G++DIHSPRIPS +E RI ++L V ++ WVNPD
Sbjct: 703 SKKDDP--NYIQEFSEYPNHIGLGLFDIHSPRIPSKQEFVSRIEEILKVYPASKFWVNPD 760
Query: 761 CGLKTRKYSEVKPALSNMVAAAKLLRTQ 788
CGLKTR + EVK +L+NMV AAK R +
Sbjct: 761 CGLKTRGWPEVKESLTNMVEAAKEFRAK 788
>pdb|3PPF|A Chain A, Crystal Structure Of The Candida Albicans Methionine
Synthase By Surface Entropy Reduction, Alanine Variant
Without Zinc
pdb|3PPG|A Chain A, Crystal Structure Of The Candida Albicans Methionine
Synthase By Surface Entropy Reduction, Alanine Variant
With Zinc
Length = 789
Score = 695 bits (1794), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 386/808 (47%), Positives = 500/808 (61%), Gaps = 63/808 (7%)
Query: 1 MASHVVGYPRMGPKRELKFALESFWDGKSSADELQNVAADLRASIWNQMADAGIKFIPSN 60
+ S V+G+PR+G +RELK E++W GK++ +EL +LR W AG+ IPSN
Sbjct: 24 VQSSVLGFPRIGGQRELKKITEAYWSGKATVEELLAKGKELREHNWKLQQKAGVDIIPSN 83
Query: 61 TFSYYDQVLDTTAMLGAVPPRYS-WNGGEIGFDVYFSMARG----------NASVPAMEM 109
FSYYDQVLD + + A+P RY+ ++ I DV F+M RG V A+EM
Sbjct: 84 DFSYYDQVLDLSLLFNAIPERYTKFDLAPI--DVLFAMGRGLQAAATATQAAVDVTALEM 141
Query: 110 TKWFDTNYHYIVPELGPDVNF---SYASHKAVQEYKEAKALGMETVPVLVGPVSYLLLSK 166
KWFD+NYHY+ P F + A K V E+ EAKALG++T PV++GPVSYL L K
Sbjct: 142 VKWFDSNYHYVRPTFSHSTEFKLNTAAGIKPVDEFNEAKALGVQTRPVILGPVSYLYLGK 201
Query: 167 PAKGVEKSFSL--LSLIDKIIPVYKEVVAELKAAGATWIQFDEPTLVLDLDSHKLQAFSD 224
K S L +SL+ KI+PVYKE++ +LK AGA +Q DEP LVLDL F +
Sbjct: 202 ADK---DSLDLEPISLLPKILPVYKELLQKLKEAGAEQVQIDEPVLVLDLPEAVQSKFKE 258
Query: 225 AYSELQSSLSGLNV---LIETYFADVPAETYKILTSLKGVTGFGFDLIRGTKTLDLIKTE 281
AY +L G +V ++ TYF DV K + +L V GF FD +R + LD + +
Sbjct: 259 AYD----ALVGADVPELILTTYFGDV-RPNLKAIENLP-VAGFHFDFVRVPEQLDEVASI 312
Query: 282 FPLGKYLFAGVVDGRNIWANDLASSLTTLQDLAGTVGKDKVVVSTSCSLLHTAVDLENET 341
G+ L AGVVDGRNIW D A + +Q VGKDKVVV+TS SLLHT VDLE+ET
Sbjct: 313 LKDGQTLSAGVVDGRNIWKTDFAKASAVVQKAIEKVGKDKVVVATSSSLLHTPVDLESET 372
Query: 342 KLDQEIKSWLAFAAQKVVEVNALAKALSGQKDEAYFSSNAAAQASRKSSPRVTNEAVQKP 401
KLD IK W +FA QK+ EV +AK +SG+ +NAA+ +R S + VQ+
Sbjct: 373 KLDAVIKDWFSFATQKLDEVVVIAKNVSGEDVSKQLEANAASIKARSESSITNDPKVQER 432
Query: 402 AAALKGSDHRRATNVSARLDAQQKKLNLPNLPTTTIGSFPQTMDLRRVRREFKAKKRVXX 461
+ + R RL Q+ K NLP PTTTIGSFPQT D+R R +F +
Sbjct: 433 LTTINEALATRKAAFPERLTEQKAKYNLPLFPTTTIGSFPQTKDIRINRNKFAKGQ---- 488
Query: 462 XXXXXXXXXXXXQIVFHKLVFYFRISEDDYVKTIKEEINNVVKLQEELDIDVLVHGEPER 521
I+ ++Y I +EI VV+ QEE+ +DVLVHGEPER
Sbjct: 489 ------------------------ITAEEYEAFINKEIETVVRFQEEIGLDVLVHGEPER 524
Query: 522 NDMVEYFGEQLSGFAFTVNGWVQSYGSRCVKPPIIYGDVSRPKAMTVFWSSMAQSMTKRP 581
NDMV+YFGEQL+GFAFT NGWVQSYGSR V+PPII GDVSRPKAMTV S AQS+T +P
Sbjct: 525 NDMVQYFGEQLNGFAFTTNGWVQSYGSRYVRPPIIVGDVSRPKAMTVKESVYAQSITSKP 584
Query: 582 MKGMLTGPVTILNWSFVRNDQPRFETCYQIALAIKDEVEDLEKAGITVIQIDEAALREGL 641
MKGMLTGPVTIL WSF R+D Q+ LA++DEV DLE AGITVIQ+DE A+REGL
Sbjct: 585 MKGMLTGPVTILRWSFPRDDVSGKIQALQLGLALRDEVNDLEGAGITVIQVDEPAIREGL 644
Query: 642 PLRKS-EQDFYLKWAVHSFRITNCGVQDTTQVHTHMCYSNFNDIIHSIMDMDADVITIEN 700
PLR E+ YL WA SFR+ GV+++TQ+H+H CYS+ + + I +DADV++IE
Sbjct: 645 PLRAGKERSDYLNWAAQSFRVATSGVENSTQIHSHFCYSDLDP--NHIKALDADVVSIEF 702
Query: 701 SRSDEKLLSVFREGVKYRAGIGPGVYDIHSPRIPSTEEIADRINKMLAVLESNILWVNPD 760
S+ D+ + +E +Y IG G++DIHSPRIPS +E RI ++L V ++ WVNPD
Sbjct: 703 SKKDDP--NYIQEFSEYPNHIGLGLFDIHSPRIPSKQEFVSRIEEILKVYPASKFWVNPD 760
Query: 761 CGLKTRKYSEVKPALSNMVAAAKLLRTQ 788
CGLKTR + EVK +L+NMV AAK R +
Sbjct: 761 CGLKTRGWPEVKESLTNMVEAAKEFRAK 788
>pdb|2NQ5|A Chain A, Crystal Structure Of Methyltransferase From Streptococcus
Mutans
Length = 755
Score = 613 bits (1581), Expect = e-175, Method: Compositional matrix adjust.
Identities = 347/792 (43%), Positives = 474/792 (59%), Gaps = 59/792 (7%)
Query: 6 VGYPRMGPKRELKFALESFWDGKSSADELQNVAADLRASIWNQMADAGIKFIPSNTFSYY 65
+GYPR+G RE K +E++W GK S ++L A +LR + +AG+ IP FS Y
Sbjct: 9 LGYPRLGENREWKKLIEAYWAGKVSKNDLFAGAKELRLDFLKKQLNAGLDLIPVGDFSLY 68
Query: 66 DQVLDTTAMLGAVPPRYSWNGGEIGFDVYFSMARGNASVPAMEMTKWFDTNYHYIVPELG 125
D +LD + +P R++ I D+YF++ARGN A M KWF+TNYHYIVPE
Sbjct: 69 DHILDLSVQFNIIPKRFAKE--PIDIDLYFAIARGNKENVASSMKKWFNTNYHYIVPEWS 126
Query: 126 ---PDVNFSYASHKAVQEYKEAK-ALGMETVPVLVGPVSYLLLSKPAKGVEKSFSLLSLI 181
P +N +++ + Y EA+ +G + PV+ GP++Y+ LS GVE + +
Sbjct: 127 KQRPKLN----NNRLLDLYLEAREVVGDKAKPVITGPITYVALS---TGVE---DFTAAV 176
Query: 182 DKIIPVYKEVVAELKAAGATWIQFDEPTLVLDLDSHKLQAFSDAYSELQSSLSGLNVLIE 241
++P+YK+V EL AGA++IQ DEP V D LQA Y+ + + +
Sbjct: 177 KSLLPLYKQVFTELVKAGASYIQVDEPIFVTDEGKDYLQAAKAVYAYFAKEVPDAKFIFQ 236
Query: 242 TYFADVPAETYKILTSLKGVTGFGFDLIRG-TKTLDLIKTEFPLGKYLFAGVVDGRNIWA 300
TYF + ++L+ L V FG D + G + L+ IKT GK +FAGV+DGRNIW+
Sbjct: 237 TYFEGLIDS--QVLSQLP-VDAFGLDFVYGLEENLEAIKTGAFKGKEIFAGVIDGRNIWS 293
Query: 301 NDLASSLTTLQDLAGTVGKDKVVVSTSCSLLHTAVDLENETKLDQEIKSWLAFAAQKVVE 360
+D + L+ + + + SCSLLH V +NET LD +++ LAFA +K+ E
Sbjct: 294 SDFVKTSALLETIEEQSA--ALTIQPSCSLLHVPVTTKNETDLDPVLRNGLAFADEKLTE 351
Query: 361 VNALAKALSGQKDEAYFSSNAAAQASRKSSPR-VTNEAVQKPAAALKGSDHRRATNVSAR 419
V LA+ L G++D AY A A + + R V E + + A +R ++ + R
Sbjct: 352 VKRLAEHLDGREDPAYDLHIAHFDALQAADFRNVKLEDLSRVAT-------KRPSDFAKR 404
Query: 420 LDAQQKKLNLPNLPTTTIGSFPQTMDLRRVRREFKAKKRVXXXXXXXXXXXXXXQIVFHK 479
D QQ+KL+LP LPTTTIGSFPQ+ ++RR R +K
Sbjct: 405 RDIQQEKLHLPLLPTTTIGSFPQSREIRRTRLAWKRGD---------------------- 442
Query: 480 LVFYFRISEDDYVKTIKEEINNVVKLQEELDIDVLVHGEPERNDMVEYFGEQLSGFAFTV 539
IS+ +Y + I+ EI +++QE+LD+DVLVHGE ER DMVE+FG++L+GF T
Sbjct: 443 ------ISDAEYKQFIQAEIERWIRIQEDLDLDVLVHGEFERVDMVEFFGQKLAGFTTTK 496
Query: 540 NGWVQSYGSRCVKPPIIYGDVSRPKAMTVFWSSMAQSMTKRPMKGMLTGPVTILNWSFVR 599
GWVQSYGSR VKPPIIYGDV + +TV + AQS+T RP+KGMLTGP+TI NWSF R
Sbjct: 497 FGWVQSYGSRAVKPPIIYGDVQHLEPITVEETVYAQSLTDRPVKGMLTGPITITNWSFER 556
Query: 600 NDQPRFETCYQIALAIKDEVEDLEKAGITVIQIDEAALREGLPLRKSEQDFYLKWAVHSF 659
D PR + QI LAIKDE++ LE AGI +IQ+DEAALREGLPLRKS+Q YL AVH+F
Sbjct: 557 TDIPRDQLFNQIGLAIKDEIKLLENAGIAIIQVDEAALREGLPLRKSKQKAYLDDAVHAF 616
Query: 660 RITNCGVQDTTQVHTHMCYSNFNDIIHSIMDMDADVITIENSRSDEKLLSVFREGVKYRA 719
I V+D TQ+HTHMCYS F++II +I +DADVI+IE SRS ++ F V Y
Sbjct: 617 HIATSSVKDETQIHTHMCYSKFDEIIDAIRALDADVISIETSRSHGDIIESFETAV-YPL 675
Query: 720 GIGPGVYDIHSPRIPSTEEIADRINKMLAVLESNILWVNPDCGLKTRKYSEVKPALSNMV 779
GIG GVYDIHSPR+P+ EE+ I + L L WVNPDCGLKTR+ E AL +V
Sbjct: 676 GIGLGVYDIHSPRVPTKEEVVANIERPLRQLSPTQFWVNPDCGLKTRQEPETIAALKVLV 735
Query: 780 AAAKLLRTQLAS 791
AA K +R +L +
Sbjct: 736 AATKEVRQKLGN 747
>pdb|3L7R|A Chain A, Crystal Structure Of Mete From Streptococcus Mutans
pdb|3T0C|A Chain A, Crystal Structure Of Streptococcus Mutans Mete Complexed
With Zinc
Length = 779
Score = 613 bits (1581), Expect = e-175, Method: Compositional matrix adjust.
Identities = 347/792 (43%), Positives = 474/792 (59%), Gaps = 59/792 (7%)
Query: 6 VGYPRMGPKRELKFALESFWDGKSSADELQNVAADLRASIWNQMADAGIKFIPSNTFSYY 65
+GYPR+G RE K +E++W GK S ++L A +LR + +AG+ IP FS Y
Sbjct: 41 LGYPRLGENREWKKLIEAYWAGKVSKNDLFAGAKELRLDFLKKQLNAGLDLIPVGDFSLY 100
Query: 66 DQVLDTTAMLGAVPPRYSWNGGEIGFDVYFSMARGNASVPAMEMTKWFDTNYHYIVPELG 125
D +LD + +P R++ I D+YF++ARGN A M KWF+TNYHYIVPE
Sbjct: 101 DHILDLSVQFNIIPKRFAKE--PIDIDLYFAIARGNKENVASSMKKWFNTNYHYIVPEWS 158
Query: 126 ---PDVNFSYASHKAVQEYKEAK-ALGMETVPVLVGPVSYLLLSKPAKGVEKSFSLLSLI 181
P +N +++ + Y EA+ +G + PV+ GP++Y+ LS GVE + +
Sbjct: 159 KQRPKLN----NNRLLDLYLEAREVVGDKAKPVITGPITYVALS---TGVE---DFTAAV 208
Query: 182 DKIIPVYKEVVAELKAAGATWIQFDEPTLVLDLDSHKLQAFSDAYSELQSSLSGLNVLIE 241
++P+YK+V EL AGA++IQ DEP V D LQA Y+ + + +
Sbjct: 209 KSLLPLYKQVFTELVKAGASYIQVDEPIFVTDEGKDYLQAAKAVYAYFAKEVPDAKFIFQ 268
Query: 242 TYFADVPAETYKILTSLKGVTGFGFDLIRG-TKTLDLIKTEFPLGKYLFAGVVDGRNIWA 300
TYF + ++L+ L V FG D + G + L+ IKT GK +FAGV+DGRNIW+
Sbjct: 269 TYFEGLIDS--QVLSQLP-VDAFGLDFVYGLEENLEAIKTGAFKGKEIFAGVIDGRNIWS 325
Query: 301 NDLASSLTTLQDLAGTVGKDKVVVSTSCSLLHTAVDLENETKLDQEIKSWLAFAAQKVVE 360
+D + L+ + + + SCSLLH V +NET LD +++ LAFA +K+ E
Sbjct: 326 SDFVKTSALLETIEEQSA--ALTIQPSCSLLHVPVTTKNETDLDPVLRNGLAFADEKLTE 383
Query: 361 VNALAKALSGQKDEAYFSSNAAAQASRKSSPR-VTNEAVQKPAAALKGSDHRRATNVSAR 419
V LA+ L G++D AY A A + + R V E + + A +R ++ + R
Sbjct: 384 VKRLAEHLDGREDPAYDLHIAHFDALQAADFRNVKLEDLSRVAT-------KRPSDFAKR 436
Query: 420 LDAQQKKLNLPNLPTTTIGSFPQTMDLRRVRREFKAKKRVXXXXXXXXXXXXXXQIVFHK 479
D QQ+KL+LP LPTTTIGSFPQ+ ++RR R +K
Sbjct: 437 RDIQQEKLHLPLLPTTTIGSFPQSREIRRTRLAWKRGD---------------------- 474
Query: 480 LVFYFRISEDDYVKTIKEEINNVVKLQEELDIDVLVHGEPERNDMVEYFGEQLSGFAFTV 539
IS+ +Y + I+ EI +++QE+LD+DVLVHGE ER DMVE+FG++L+GF T
Sbjct: 475 ------ISDAEYKQFIQAEIERWIRIQEDLDLDVLVHGEFERVDMVEFFGQKLAGFTTTK 528
Query: 540 NGWVQSYGSRCVKPPIIYGDVSRPKAMTVFWSSMAQSMTKRPMKGMLTGPVTILNWSFVR 599
GWVQSYGSR VKPPIIYGDV + +TV + AQS+T RP+KGMLTGP+TI NWSF R
Sbjct: 529 FGWVQSYGSRAVKPPIIYGDVQHLEPITVEETVYAQSLTDRPVKGMLTGPITITNWSFER 588
Query: 600 NDQPRFETCYQIALAIKDEVEDLEKAGITVIQIDEAALREGLPLRKSEQDFYLKWAVHSF 659
D PR + QI LAIKDE++ LE AGI +IQ+DEAALREGLPLRKS+Q YL AVH+F
Sbjct: 589 TDIPRDQLFNQIGLAIKDEIKLLENAGIAIIQVDEAALREGLPLRKSKQKAYLDDAVHAF 648
Query: 660 RITNCGVQDTTQVHTHMCYSNFNDIIHSIMDMDADVITIENSRSDEKLLSVFREGVKYRA 719
I V+D TQ+HTHMCYS F++II +I +DADVI+IE SRS ++ F V Y
Sbjct: 649 HIATSSVKDETQIHTHMCYSKFDEIIDAIRALDADVISIETSRSHGDIIESFETAV-YPL 707
Query: 720 GIGPGVYDIHSPRIPSTEEIADRINKMLAVLESNILWVNPDCGLKTRKYSEVKPALSNMV 779
GIG GVYDIHSPR+P+ EE+ I + L L WVNPDCGLKTR+ E AL +V
Sbjct: 708 GIGLGVYDIHSPRVPTKEEVVANIERPLRQLSPTQFWVNPDCGLKTRQEPETIAALKVLV 767
Query: 780 AAAKLLRTQLAS 791
AA K +R +L +
Sbjct: 768 AATKEVRQKLGN 779
>pdb|1T7L|A Chain A, Crystal Structure Of Cobalamin-Independent Methionine
Synthase From T. Maritima
pdb|1T7L|B Chain B, Crystal Structure Of Cobalamin-Independent Methionine
Synthase From T. Maritima
pdb|3BQ5|A Chain A, Crystal Structure Of T. Maritima Cobalamin-Independent
Methionine Synthase Complexed With Zn2+ And Homocysteine
(Monoclinic)
pdb|3BQ5|B Chain B, Crystal Structure Of T. Maritima Cobalamin-Independent
Methionine Synthase Complexed With Zn2+ And Homocysteine
(Monoclinic)
pdb|3BQ6|A Chain A, Crystal Structure Of T. Maritima Cobalamin-Independent
Methionine Synthase Complexed With Zn2+ (Monoclinic)
pdb|3BQ6|B Chain B, Crystal Structure Of T. Maritima Cobalamin-Independent
Methionine Synthase Complexed With Zn2+ (Monoclinic)
Length = 766
Score = 566 bits (1459), Expect = e-161, Method: Compositional matrix adjust.
Identities = 320/791 (40%), Positives = 456/791 (57%), Gaps = 61/791 (7%)
Query: 3 SHVVGYPRMGPKRELKFALESFWDGKSSADELQNVAADLRASIWNQMADAGIKFIPSNTF 62
++ G+P++G KRE K ALE FW GK + ++ + LR + + IPSN
Sbjct: 35 AYAFGFPKIGEKREFKKALEDFWKGKITEEQFEEEMNKLRMYMVENYR-KNVDVIPSNEL 93
Query: 63 SYYDQVLDTTAMLGAVPPRYSWNGGEIGFDVYFSMARGNASVPAMEMTKWFDTNYHYIVP 122
SYYD VLDT M+GAVP R+ G G YF MARG A+EMTK+F+TNYHY+VP
Sbjct: 94 SYYDFVLDTAVMVGAVPERF---GEYRGLSTYFDMARGGK---ALEMTKFFNTNYHYLVP 147
Query: 123 ELGPDVNFSYASHKAVQEYKEAKALGMETVPVLVGPVSYLLLSKP-AKGVEKSFSLLSLI 181
E+ + F +K +++Y K+ G+ET P ++GP ++L LSK + + + + L+
Sbjct: 148 EIETE-EFYLLENKPLEDYLFFKSKGIETAPWVIGPFTFLYLSKRNGEWIRRPNQMEKLL 206
Query: 182 DKIIPVYKEVVAELKAAGATWIQFDEPTLVLDLDSHKLQAFSDAYSELQSSLSGLNVLIE 241
+ ++ VYKEV +L G I +EP V DL+ + Y EL S + +
Sbjct: 207 ESLVSVYKEVFEKLVENGCKEILVNEPAFVCDLEKAHWDLILNVYREL----SEFPLTVF 262
Query: 242 TYFADVPAETYKILTSLKGVTGFGFDLIRGTKTL-DLIKTEFPLGKYLFAGVVDGRNIWA 300
TY+ V Y+ SL V FD + + L +L K FP K L AGV++GR W
Sbjct: 263 TYYDSV--SDYEACVSLP-VKRLHFDFVSNEENLKNLEKHGFPEDKKLVAGVINGRQPWK 319
Query: 301 NDLASSLTTLQDLAGTVGKDKVVVSTSCSLLHTAVDLENETKLDQEIKSWLAFAAQKVVE 360
DL + ++ L + +S SC L H V LE E L +K LAFA +K+ E
Sbjct: 320 VDLRKVASLVEKLGASA------ISNSCPLFHLPVTLELENNLPGGLKEKLAFAKEKLEE 373
Query: 361 VNALAKALSGQKDEAYFSSNAAAQASRKSSPRVTNEAVQKPAAALKGSDHRRATNVSARL 420
+ L L G+ + S ++ RV N L RR + R
Sbjct: 374 LKMLKDFLEGKTFDLPNVSFEDFAVDLQAVERVRN---------LPEDSFRREKEYTERD 424
Query: 421 DAQQKKLNLPNLPTTTIGSFPQTMDLRRVRREFKAKKRVXXXXXXXXXXXXXXQIVFHKL 480
Q+++LNLP PTTTIGSFPQT ++R++R +++ +
Sbjct: 425 RIQRERLNLPLFPTTTIGSFPQTPEVRKMRSKYRKGE----------------------- 461
Query: 481 VFYFRISEDDYVKTIKEEINNVVKLQEELDIDVLVHGEPERNDMVEYFGEQLSGFAFTVN 540
IS+++Y IKE+I ++LQEE+ +DVLVHGE ER DMVE+F E+L+G A T N
Sbjct: 462 -----ISKEEYEAFIKEQIKKAIELQEEIGLDVLVHGEFERTDMVEFFAEKLNGIATTQN 516
Query: 541 GWVQSYGSRCVKPPIIYGDVSRPKAMTVFWSSMAQSMTKRPMKGMLTGPVTILNWSFVRN 600
GWV SYGSRC +PPIIYG V+RP+ MT+ + AQS+T++P+KGMLTGPVTI++WS+ R
Sbjct: 517 GWVLSYGSRCYRPPIIYGTVTRPEPMTLKEITYAQSLTEKPVKGMLTGPVTIMSWSYYRE 576
Query: 601 DQPRFETCYQIALAIKDEVEDLEKAGITVIQIDEAALREGLPLRKSEQDFYLKWAVHSFR 660
D P E YQIALAI +EV+DLE+AGI ++QIDE A RE P++KS+ Y +WA+++F
Sbjct: 577 DIPEREIAYQIALAINEEVKDLEEAGIKIVQIDEPAFREKAPIKKSKWPEYFEWAINAFN 636
Query: 661 ITNCGVQDTTQVHTHMCYSNFNDIIHSIMDMDADVITIENSRSDEKLLSVFREGVKYRAG 720
+ + TQ+H HMCYS+FN+II I ++ DVI+IE SRS +++S F +
Sbjct: 637 LA-ANARPETQIHAHMCYSDFNEIIEYIHQLEFDVISIEASRSKGEIISAFENFKGWIKQ 695
Query: 721 IGPGVYDIHSPRIPSTEEIADRINKMLAVLESNILWVNPDCGLKTRKYSEVKPALSNMVA 780
IG GV+DIHSP +PS E+ + + ++L VL ++W+NPDCGLKTR + EV P+L NMVA
Sbjct: 696 IGVGVWDIHSPAVPSINEMREIVERVLRVLPKELIWINPDCGLKTRNWDEVIPSLRNMVA 755
Query: 781 AAKLLRTQLAS 791
AK +R + S
Sbjct: 756 LAKEMREKFES 766
>pdb|1XR2|A Chain A, Crystal Structure Of Oxidized T. Maritima Cobalamin-
Independent Methionine Synthase Complexed With
Methyltetrahydrofolate
pdb|1XR2|B Chain B, Crystal Structure Of Oxidized T. Maritima Cobalamin-
Independent Methionine Synthase Complexed With
Methyltetrahydrofolate
Length = 766
Score = 566 bits (1458), Expect = e-161, Method: Compositional matrix adjust.
Identities = 320/791 (40%), Positives = 456/791 (57%), Gaps = 61/791 (7%)
Query: 3 SHVVGYPRMGPKRELKFALESFWDGKSSADELQNVAADLRASIWNQMADAGIKFIPSNTF 62
++ G+P++G KRE K ALE FW GK + ++ + LR + + IPSN
Sbjct: 35 AYAFGFPKIGEKREFKKALEDFWKGKITEEQFEEEMNKLRMYMVENYR-KNVDVIPSNEL 93
Query: 63 SYYDQVLDTTAMLGAVPPRYSWNGGEIGFDVYFSMARGNASVPAMEMTKWFDTNYHYIVP 122
SYYD VLDT M+GAVP R+ G G YF MARG A+EMTK+F+TNYHY+VP
Sbjct: 94 SYYDFVLDTAVMVGAVPERF---GEYRGLSTYFDMARGGK---ALEMTKFFNTNYHYLVP 147
Query: 123 ELGPDVNFSYASHKAVQEYKEAKALGMETVPVLVGPVSYLLLSKP-AKGVEKSFSLLSLI 181
E+ + F +K +++Y K+ G+ET P ++GP ++L LSK + + + + L+
Sbjct: 148 EIETE-EFYLLENKPLEDYLFFKSKGIETAPWVIGPFTFLYLSKRNGEWIRRPNQMEKLL 206
Query: 182 DKIIPVYKEVVAELKAAGATWIQFDEPTLVLDLDSHKLQAFSDAYSELQSSLSGLNVLIE 241
+ ++ VYKEV +L G I +EP V DL+ + Y EL S + +
Sbjct: 207 ESLVSVYKEVFEKLVENGCKEILVNEPAFVCDLEKAHWDLILNVYREL----SEFPLTVF 262
Query: 242 TYFADVPAETYKILTSLKGVTGFGFDLIRGTKTL-DLIKTEFPLGKYLFAGVVDGRNIWA 300
TY+ V Y+ SL V FD + + L +L K FP K L AGV++GR W
Sbjct: 263 TYYDSV--SDYEACVSLP-VKRLHFDFVSNEENLKNLEKHGFPEDKKLVAGVINGRQPWK 319
Query: 301 NDLASSLTTLQDLAGTVGKDKVVVSTSCSLLHTAVDLENETKLDQEIKSWLAFAAQKVVE 360
DL + ++ L + +S SC L H V LE E L +K LAFA +K+ E
Sbjct: 320 VDLRKVASLVEKLGASA------ISNSCPLFHLPVTLELENNLPGGLKEKLAFAKEKLEE 373
Query: 361 VNALAKALSGQKDEAYFSSNAAAQASRKSSPRVTNEAVQKPAAALKGSDHRRATNVSARL 420
+ L L G+ + S ++ RV N L RR + R
Sbjct: 374 LKMLKDFLEGKTFDLPNVSFEDFAVDLQAVERVRN---------LPEDSFRREKEYTERD 424
Query: 421 DAQQKKLNLPNLPTTTIGSFPQTMDLRRVRREFKAKKRVXXXXXXXXXXXXXXQIVFHKL 480
Q+++LNLP PTTTIGSFPQT ++R++R +++ +
Sbjct: 425 RIQRERLNLPLFPTTTIGSFPQTPEVRKMRSKYRKGE----------------------- 461
Query: 481 VFYFRISEDDYVKTIKEEINNVVKLQEELDIDVLVHGEPERNDMVEYFGEQLSGFAFTVN 540
IS+++Y IKE+I ++LQEE+ +DVLVHGE ER DMVE+F E+L+G A T N
Sbjct: 462 -----ISKEEYEAFIKEQIKKAIELQEEIGLDVLVHGEFERTDMVEFFAEKLNGIATTQN 516
Query: 541 GWVQSYGSRCVKPPIIYGDVSRPKAMTVFWSSMAQSMTKRPMKGMLTGPVTILNWSFVRN 600
GWV SYGSRC +PPIIYG V+RP+ MT+ + AQS+T++P+KGMLTGPVTI++WS+ R
Sbjct: 517 GWVLSYGSRCYRPPIIYGTVTRPEPMTLKEITYAQSLTEKPVKGMLTGPVTIMSWSYYRE 576
Query: 601 DQPRFETCYQIALAIKDEVEDLEKAGITVIQIDEAALREGLPLRKSEQDFYLKWAVHSFR 660
D P E YQIALAI +EV+DLE+AGI ++QIDE A RE P++KS+ Y +WA+++F
Sbjct: 577 DIPEREIAYQIALAINEEVKDLEEAGIKIVQIDEPAFREKAPIKKSKWPEYFEWAINAFN 636
Query: 661 ITNCGVQDTTQVHTHMCYSNFNDIIHSIMDMDADVITIENSRSDEKLLSVFREGVKYRAG 720
+ + TQ+H HMCYS+FN+II I ++ DVI+IE SRS +++S F +
Sbjct: 637 LA-ANARPETQIHAHMCYSDFNEIIEYIHQLEFDVISIEASRSKGEIISAFENFKGWIKQ 695
Query: 721 IGPGVYDIHSPRIPSTEEIADRINKMLAVLESNILWVNPDCGLKTRKYSEVKPALSNMVA 780
IG GV+DIHSP +PS E+ + + ++L VL ++W+NPDCGLKTR + EV P+L NMVA
Sbjct: 696 IGVGVWDIHSPAVPSINEMREIVERVLRVLPKELIWINPDCGLKTRNWDEVIPSLRNMVA 755
Query: 781 AAKLLRTQLAS 791
AK +R + S
Sbjct: 756 LAKEMREKFES 766
>pdb|1XPG|A Chain A, Crystal Structure Of T. Maritima Cobalamin-Independent
Methionine Synthase Complexed With Zn2+ And
Methyltetrahydrofolate
pdb|1XPG|B Chain B, Crystal Structure Of T. Maritima Cobalamin-Independent
Methionine Synthase Complexed With Zn2+ And
Methyltetrahydrofolate
Length = 765
Score = 531 bits (1368), Expect = e-151, Method: Compositional matrix adjust.
Identities = 313/791 (39%), Positives = 445/791 (56%), Gaps = 63/791 (7%)
Query: 3 SHVVGYPRMGPKRELKFALESFWDGKSSADELQNVAADLRA-SIWNQMADAGIKFIPSNT 61
++ G+P++G KRE K ALE FW GK + ++ + LR + N + + IPSN
Sbjct: 35 AYAFGFPKIGEKREFKKALEDFWKGKITEEQFEEEXNKLRXYXVENYRKNVDV--IPSNE 92
Query: 62 FSYYDQVLDTTAMLGAVPPRYSWNGGEIGFDVYFSMARGNASVPAMEMTKWFDTNYHYIV 121
SYYD VLDT +GAVP R+ G G YF ARG A+E TK+F+TNYHY+V
Sbjct: 93 LSYYDFVLDTAVXVGAVPERF---GEYRGLSTYFDXARGGK---ALEXTKFFNTNYHYLV 146
Query: 122 PELGPDVNFSYASHKAVQEYKEAKALGMETVPVLVGPVSYLLLSK-PAKGVEKSFSLLSL 180
PE+ + F +K +++Y K+ G+ET P ++GP ++L LSK + + + L
Sbjct: 147 PEIETE-EFYLLENKPLEDYLFFKSKGIETAPWVIGPFTFLYLSKRNGEWIRRPNQXEKL 205
Query: 181 IDKIIPVYKEVVAELKAAGATWIQFDEPTLVLDLDSHKLQAFSDAYSELQSSLSGLNVLI 240
++ ++ VYKEV +L G I +EP V DL+ + Y EL S + +
Sbjct: 206 LESLVSVYKEVFEKLVENGCKEILVNEPAFVCDLEKAHWDLILNVYREL----SEFPLTV 261
Query: 241 ETYFADVPAETYKILTSLKGVTGFGFDLIRGTKTL-DLIKTEFPLGKYLFAGVVDGRNIW 299
TY+ V Y+ SL V FD + + L +L K FP K L AGV++GR W
Sbjct: 262 FTYYDSV--SDYEACVSLP-VKRLHFDFVSNEENLKNLEKHGFPEDKKLVAGVINGRQPW 318
Query: 300 ANDLASSLTTLQDLAGTVGKDKVVVSTSCSLLHTAVDLENETKLDQEIKSWLAFAAQKVV 359
DL + ++ L + +S SC L H V LE E L +K LAFA +K+
Sbjct: 319 KVDLRKVASLVEKLGASA------ISNSCPLFHLPVTLELENNLPGGLKEKLAFAKEKLE 372
Query: 360 EVNALAKALSGQKDEAYFSSNAAAQASRKSSPRVTNEAVQKPAAALKGSDHRRATNVSAR 419
E+ L L G+ + S ++ RV N L RR + R
Sbjct: 373 ELKXLKDFLEGKTFDLPNVSFEDFAVDLQAVERVRN---------LPEDSFRREKEYTER 423
Query: 420 LDAQQKKLNLPNLPTTTIGSFPQTMDLRRVRREFKAKKRVXXXXXXXXXXXXXXQIVFHK 479
Q+++LNLP PTTTIGSFPQT ++R+ R +++ +
Sbjct: 424 DRIQRERLNLPLFPTTTIGSFPQTPEVRKXRSKYRKGE---------------------- 461
Query: 480 LVFYFRISEDDYVKTIKEEINNVVKLQEELDIDVLVHGEPERNDMVEYFGEQLSGFAFTV 539
IS+++Y IKE+I ++LQEE+ +DVLVHGE ER D VE+F E+L+G A T
Sbjct: 462 ------ISKEEYEAFIKEQIKKAIELQEEIGLDVLVHGEFERTDXVEFFAEKLNGIATTQ 515
Query: 540 NGWVQSYGSRCVKPPIIYGDVSRPKAMTVFWSSMAQSMTKRPMKGMLTGPVTILNWSFVR 599
NGWV SYGSRC +PPIIYG V+RP+ T+ + AQS+T++P+KG LTGPVTI +WS+ R
Sbjct: 516 NGWVLSYGSRCYRPPIIYGTVTRPEPXTLKEITYAQSLTEKPVKGXLTGPVTIXSWSYYR 575
Query: 600 NDQPRFETCYQIALAIKDEVEDLEKAGITVIQIDEAALREGLPLRKSEQDFYLKWAVHSF 659
D P E YQIALAI +EV+DLE+AGI ++QIDE A RE P++KS+ Y +WA+++F
Sbjct: 576 EDIPEREIAYQIALAINEEVKDLEEAGIKIVQIDEPAFREKAPIKKSKWPEYFEWAINAF 635
Query: 660 RITNCGVQDTTQVHTHMCYSNFNDIIHSIMDMDADVITIENSRSDEKLLSVFREGVKYRA 719
+ + TQ+H H CYS+FN+II I ++ DVI+IE SRS +++S F +
Sbjct: 636 NLA-ANARPETQIHAHXCYSDFNEIIEYIHQLEFDVISIEASRSKGEIISAFENFKGWIK 694
Query: 720 GIGPGVYDIHSPRIPSTEEIADRINKMLAVLESNILWVNPDCGLKTRKYSEVKPALSNMV 779
IG GV+DIHSP +PS E + + ++L VL ++W+NPDCGLKTR + EV P+L N V
Sbjct: 695 QIGVGVWDIHSPAVPSINEXREIVERVLRVLPKELIWINPDCGLKTRNWDEVIPSLRNXV 754
Query: 780 AAAKLLRTQLA 790
A AK R + A
Sbjct: 755 ALAKEXREKFA 765
>pdb|1XDJ|A Chain A, Crystal Structure Of T. Maritima Cobalamin-Independent
Methionine Synthase Complexed With Zn2+ And Homocysteine
pdb|1XDJ|B Chain B, Crystal Structure Of T. Maritima Cobalamin-Independent
Methionine Synthase Complexed With Zn2+ And Homocysteine
Length = 766
Score = 531 bits (1367), Expect = e-151, Method: Compositional matrix adjust.
Identities = 313/792 (39%), Positives = 445/792 (56%), Gaps = 63/792 (7%)
Query: 3 SHVVGYPRMGPKRELKFALESFWDGKSSADELQNVAADLRA-SIWNQMADAGIKFIPSNT 61
++ G+P++G KRE K ALE FW GK + ++ + LR + N + + IPSN
Sbjct: 35 AYAFGFPKIGEKREFKKALEDFWKGKITEEQFEEEXNKLRXYXVENYRKNVDV--IPSNE 92
Query: 62 FSYYDQVLDTTAMLGAVPPRYSWNGGEIGFDVYFSMARGNASVPAMEMTKWFDTNYHYIV 121
SYYD VLDT +GAVP R+ G G YF ARG A+E TK+F+TNYHY+V
Sbjct: 93 LSYYDFVLDTAVXVGAVPERF---GEYRGLSTYFDXARGGK---ALEXTKFFNTNYHYLV 146
Query: 122 PELGPDVNFSYASHKAVQEYKEAKALGMETVPVLVGPVSYLLLSK-PAKGVEKSFSLLSL 180
PE+ + F +K +++Y K+ G+ET P ++GP ++L LSK + + + L
Sbjct: 147 PEIETE-EFYLLENKPLEDYLFFKSKGIETAPWVIGPFTFLYLSKRNGEWIRRPNQXEKL 205
Query: 181 IDKIIPVYKEVVAELKAAGATWIQFDEPTLVLDLDSHKLQAFSDAYSELQSSLSGLNVLI 240
++ ++ VYKEV +L G I +EP V DL+ + Y EL S + +
Sbjct: 206 LESLVSVYKEVFEKLVENGCKEILVNEPAFVCDLEKAHWDLILNVYREL----SEFPLTV 261
Query: 241 ETYFADVPAETYKILTSLKGVTGFGFDLIRGTKTL-DLIKTEFPLGKYLFAGVVDGRNIW 299
TY+ V Y+ SL V FD + + L +L K FP K L AGV++GR W
Sbjct: 262 FTYYDSV--SDYEACVSLP-VKRLHFDFVSNEENLKNLEKHGFPEDKKLVAGVINGRQPW 318
Query: 300 ANDLASSLTTLQDLAGTVGKDKVVVSTSCSLLHTAVDLENETKLDQEIKSWLAFAAQKVV 359
DL + ++ L + +S SC L H V LE E L +K LAFA +K+
Sbjct: 319 KVDLRKVASLVEKLGASA------ISNSCPLFHLPVTLELENNLPGGLKEKLAFAKEKLE 372
Query: 360 EVNALAKALSGQKDEAYFSSNAAAQASRKSSPRVTNEAVQKPAAALKGSDHRRATNVSAR 419
E+ L L G+ + S ++ RV N L RR + R
Sbjct: 373 ELKXLKDFLEGKTFDLPNVSFEDFAVDLQAVERVRN---------LPEDSFRREKEYTER 423
Query: 420 LDAQQKKLNLPNLPTTTIGSFPQTMDLRRVRREFKAKKRVXXXXXXXXXXXXXXQIVFHK 479
Q+++LNLP PTTTIGSFPQT ++R+ R +++ +
Sbjct: 424 DRIQRERLNLPLFPTTTIGSFPQTPEVRKXRSKYRKGE---------------------- 461
Query: 480 LVFYFRISEDDYVKTIKEEINNVVKLQEELDIDVLVHGEPERNDMVEYFGEQLSGFAFTV 539
IS+++Y IKE+I ++LQEE+ +DVLVHGE ER D VE+F E+L+G A T
Sbjct: 462 ------ISKEEYEAFIKEQIKKAIELQEEIGLDVLVHGEFERTDXVEFFAEKLNGIATTQ 515
Query: 540 NGWVQSYGSRCVKPPIIYGDVSRPKAMTVFWSSMAQSMTKRPMKGMLTGPVTILNWSFVR 599
NGWV SYGSRC +PPIIYG V+RP+ T+ + AQS+T++P+KG LTGPVTI +WS+ R
Sbjct: 516 NGWVLSYGSRCYRPPIIYGTVTRPEPXTLKEITYAQSLTEKPVKGXLTGPVTIXSWSYYR 575
Query: 600 NDQPRFETCYQIALAIKDEVEDLEKAGITVIQIDEAALREGLPLRKSEQDFYLKWAVHSF 659
D P E YQIALAI +EV+DLE+AGI ++QIDE A RE P++KS+ Y +WA+++F
Sbjct: 576 EDIPEREIAYQIALAINEEVKDLEEAGIKIVQIDEPAFREKAPIKKSKWPEYFEWAINAF 635
Query: 660 RITNCGVQDTTQVHTHMCYSNFNDIIHSIMDMDADVITIENSRSDEKLLSVFREGVKYRA 719
+ + TQ+H H CYS+FN+II I ++ DVI+IE SRS +++S F +
Sbjct: 636 NLA-ANARPETQIHAHXCYSDFNEIIEYIHQLEFDVISIEASRSKGEIISAFENFKGWIK 694
Query: 720 GIGPGVYDIHSPRIPSTEEIADRINKMLAVLESNILWVNPDCGLKTRKYSEVKPALSNMV 779
IG GV+DIHSP +PS E + + ++L VL ++W+NPDCGLKTR + EV P+L N V
Sbjct: 695 QIGVGVWDIHSPAVPSINEXREIVERVLRVLPKELIWINPDCGLKTRNWDEVIPSLRNXV 754
Query: 780 AAAKLLRTQLAS 791
A AK R + S
Sbjct: 755 ALAKEXREKFES 766
>pdb|3RPD|A Chain A, The Structure Of A B12-Independent Methionine Synthase
From Shewanella Sp. W3-18-1 In Complex With
Selenomethionine.
pdb|3RPD|B Chain B, The Structure Of A B12-Independent Methionine Synthase
From Shewanella Sp. W3-18-1 In Complex With
Selenomethionine
Length = 357
Score = 89.7 bits (221), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 74/304 (24%), Positives = 135/304 (44%), Gaps = 34/304 (11%)
Query: 506 QEELDIDVLVHGEPERNDMVEYFGEQLSGFAFTVNGWVQSYGSRCVKPPIIYGDVSRPKA 565
Q+ ID++ GE R V F E L+G F+ V+ P + G VSR K+
Sbjct: 64 QQLAGIDIVSDGEQTRQHFVTTFIEHLNGVDFSKRKIVKIRDRYDASVPTVVGPVSRQKS 123
Query: 566 MTVFWSSMAQSMTKRPMKGMLTGPVTILNWSFVRNDQPRFETCYQIALAIKDEVEDLEKA 625
+ V + + T +P+K L GP T ++ + + + R + ++ A + +E ++LE A
Sbjct: 124 VFVEDAKFLRKQTTQPIKWALPGPXTXIDTLYDDHYKSREKLAWEFAKILNEEAKELEAA 183
Query: 626 GITVIQIDEAALREGLPLRKSEQDFYLKWAVHSFRITNCGVQDTTQVHTHMCYS------ 679
G+ +IQ DE A D W + G++ T V H+CY
Sbjct: 184 GVDIIQFDEPAFNVFF-------DEVNDWGIACLERAIEGLKCETAV--HICYGYGIKAN 234
Query: 680 ------------NFNDIIHSIMDMDADVITIE--NSRSDEKLLSVFREGVKYRAGIGPGV 725
+ ++ + + D+I++E NS +LL + R G K + G
Sbjct: 235 TDWKKTLGSEWRQYEEVFPKLQKSNIDIISLECHNSHVPXELLELIR-GKK----VXVGA 289
Query: 726 YDIHSPRIPSTEEIADRINKMLAVLESNILWVNPDCGLKTRKYSEVKPALSNMVAAAKLL 785
D+ + I + EE+AD + K L ++++ L+ +CG + + L+ + A A+++
Sbjct: 290 IDVATDTIETAEEVADTLRKALKFVDADKLYPCTNCGXTPLSHQVTRGKLNALSAGAEIV 349
Query: 786 RTQL 789
R +L
Sbjct: 350 RKEL 353
>pdb|2A0Z|A Chain A, The Molecular Structure Of Toll-like Receptor 3 Ligand
Binding Domain
Length = 705
Score = 37.0 bits (84), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 35/144 (24%), Positives = 69/144 (47%), Gaps = 17/144 (11%)
Query: 255 LTSLKGVTGFGFDLIRGTKTLDLIKTEFP-LGKYLFAGVVDGRNIWANDLASSLTTLQDL 313
L SL + F F ++ + L++ + P + +F G+++ + + L++S T+L+ L
Sbjct: 319 LASLPKIDDFSFQWLKCLEHLNMEDNDIPGIKSNMFTGLINLKYL---SLSNSFTSLRTL 375
Query: 314 AGTVGKDKVVVSTSCSLLHTAVDLENE-TKLDQEIKSWLAFAAQKVVEVNALAKALSGQK 372
++ VS + S LH +N+ +K++ + SWL + +N + + L+GQ+
Sbjct: 376 T-----NETFVSLAHSPLHILNLTKNKISKIESDAFSWLGHLEVLDLGLNEIGQELTGQE 430
Query: 373 -------DEAYFSSNAAAQASRKS 389
E Y S N Q +R S
Sbjct: 431 WRGLENIFEIYLSYNKYLQLTRNS 454
>pdb|1ZIW|A Chain A, Human Toll-Like Receptor 3 Extracellular Domain Structure
Length = 680
Score = 36.6 bits (83), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 35/144 (24%), Positives = 69/144 (47%), Gaps = 17/144 (11%)
Query: 255 LTSLKGVTGFGFDLIRGTKTLDLIKTEFP-LGKYLFAGVVDGRNIWANDLASSLTTLQDL 313
L SL + F F ++ + L++ + P + +F G+++ + + L++S T+L+ L
Sbjct: 314 LASLPKIDDFSFQWLKCLEHLNMEDNDIPGIKSNMFTGLINLKYL---SLSNSFTSLRTL 370
Query: 314 AGTVGKDKVVVSTSCSLLHTAVDLENE-TKLDQEIKSWLAFAAQKVVEVNALAKALSGQK 372
++ VS + S LH +N+ +K++ + SWL + +N + + L+GQ+
Sbjct: 371 T-----NETFVSLAHSPLHILNLTKNKISKIESDAFSWLGHLEVLDLGLNEIGQELTGQE 425
Query: 373 -------DEAYFSSNAAAQASRKS 389
E Y S N Q +R S
Sbjct: 426 WRGLENIFEIYLSYNKYLQLTRNS 449
>pdb|3ULU|A Chain A, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form1)
pdb|3ULV|A Chain A, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form2)
Length = 694
Score = 36.6 bits (83), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 35/144 (24%), Positives = 69/144 (47%), Gaps = 17/144 (11%)
Query: 255 LTSLKGVTGFGFDLIRGTKTLDLIKTEFP-LGKYLFAGVVDGRNIWANDLASSLTTLQDL 313
L SL + F F ++ + L++ + P + +F G+++ + + L++S T+L+ L
Sbjct: 324 LASLPKIDDFSFQWLKCLEHLNMEDNDIPGIKSNMFTGLINLKYL---SLSNSFTSLRTL 380
Query: 314 AGTVGKDKVVVSTSCSLLHTAVDLENE-TKLDQEIKSWLAFAAQKVVEVNALAKALSGQK 372
++ VS + S LH +N+ +K++ + SWL + +N + + L+GQ+
Sbjct: 381 T-----NETFVSLAHSPLHILNLTKNKISKIESDAFSWLGHLEVLDLGLNEIGQELTGQE 435
Query: 373 -------DEAYFSSNAAAQASRKS 389
E Y S N Q +R S
Sbjct: 436 WRGLENIFEIYLSYNKYLQLTRNS 459
>pdb|3IAY|A Chain A, Ternary Complex Of Dna Polymerase Delta
Length = 919
Score = 35.0 bits (79), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 43/76 (56%), Gaps = 3/76 (3%)
Query: 682 NDIIHSIMDMDADVI--TIENSRSDEKLLSVFREGVKYRAGIGPGVYD-IHSPRIPSTEE 738
NDI+H+ +D+ +I T+ + ++ + +V E +K R G+GP V D + I ++
Sbjct: 809 NDILHNRVDISKLIISKTLAPNYTNPQPHAVLAERMKRREGVGPNVGDRVDYVIIGGNDK 868
Query: 739 IADRINKMLAVLESNI 754
+ +R L VLE+NI
Sbjct: 869 LYNRAEDPLFVLENNI 884
>pdb|4AP5|A Chain A, Crystal Structure Of Human Pofut2
pdb|4AP5|B Chain B, Crystal Structure Of Human Pofut2
Length = 408
Score = 29.6 bits (65), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 28/134 (20%), Positives = 52/134 (38%), Gaps = 18/134 (13%)
Query: 22 ESFWDGKSSADELQNVAADLRASIWNQMADAGIKF---IPSNTFSYYDQVLDTTAMLGAV 78
+ FW G+S+AD L A+ R +++ G + S +L T + +
Sbjct: 3 QEFWPGQSAADILSGAASRRRYLLYDVNPPEGFNLRRDVYIRIASLLKTLLKTEEWVLVL 62
Query: 79 PPR---YSWNGGEIG-----FDVYFSMARGNASVPAMEMTKWFDTNYHYIVPELGPDVNF 130
PP Y W +I + +F + N ++P +E + +I GP ++
Sbjct: 63 PPWGRLYHWQSPDIHQVRIPWSEFFDLPSLNKNIPVIEYEQ-------FIAESGGPFIDQ 115
Query: 131 SYASHKAVQEYKEA 144
Y + +KE
Sbjct: 116 VYVLQSYAEGWKEG 129
>pdb|2J1N|A Chain A, Osmoporin Ompc
pdb|2J1N|B Chain B, Osmoporin Ompc
pdb|2J1N|C Chain C, Osmoporin Ompc
pdb|2J4U|P Chain P, E.Coli Ompc - Camel Lactoferrin Complex
pdb|2J4U|Q Chain Q, E.Coli Ompc - Camel Lactoferrin Complex
pdb|2J4U|R Chain R, E.Coli Ompc - Camel Lactoferrin Complex
pdb|2J4U|U Chain U, E.Coli Ompc - Camel Lactoferrin Complex
pdb|2J4U|V Chain V, E.Coli Ompc - Camel Lactoferrin Complex
pdb|2J4U|W Chain W, E.Coli Ompc - Camel Lactoferrin Complex
pdb|2ZLE|D Chain D, Cryo-Em Structure Of Degp12OMP
pdb|3NB3|D Chain D, The Host Outer Membrane Proteins Ompa And Ompc Are Packed
At Specific Sites In The Shigella Phage Sf6 Virion As
Structural Components
pdb|4A8D|M Chain M, Degp Dodecamer With Bound Omp
Length = 346
Score = 29.6 bits (65), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 34/77 (44%), Gaps = 15/77 (19%)
Query: 33 ELQNVAADLRASIWNQMADAGIKFIPSNTFSY---YDQVLDTTAMLGAVPPRYSWNGGEI 89
++Q +A+ + W ++A AG+KF +F Y Y V D T+ +P E
Sbjct: 59 QIQGNSAENENNSWTRVAFAGLKFQDVGSFDYGRNYGVVYDVTSWTDVLP--------EF 110
Query: 90 GFDVY----FSMARGNA 102
G D Y F RGN
Sbjct: 111 GGDTYGSDNFMQQRGNG 127
>pdb|3DO8|A Chain A, The Crystal Structure Of The Protein With Unknown Function
From Archaeoglobus Fulgidus
pdb|3DO8|B Chain B, The Crystal Structure Of The Protein With Unknown Function
From Archaeoglobus Fulgidus
Length = 148
Score = 29.3 bits (64), Expect = 9.8, Method: Composition-based stats.
Identities = 15/48 (31%), Positives = 27/48 (56%), Gaps = 5/48 (10%)
Query: 609 YQIALAIKDEVEDLEKAGITVIQIDEAALREGLP-----LRKSEQDFY 651
Y++AL I + E+L K IT++++D +G P +++ E D Y
Sbjct: 97 YEMALKINQKREELGKRKITIVKVDWMMAEDGKPISSTRIKRGEIDRY 144
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.318 0.133 0.385
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,534,321
Number of Sequences: 62578
Number of extensions: 938908
Number of successful extensions: 2653
Number of sequences better than 100.0: 27
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 2547
Number of HSP's gapped (non-prelim): 35
length of query: 793
length of database: 14,973,337
effective HSP length: 107
effective length of query: 686
effective length of database: 8,277,491
effective search space: 5678358826
effective search space used: 5678358826
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.8 bits)