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= 007631
(595 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 = 1009 bits (2610), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 481/576 (83%), Positives = 521/576 (90%)
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 AQQKKLNLPNLPTTTIGSFPQTMDLRRVRREFKAKKISEDDYVKTIKEEINNVVKLQEEL 481
AQQKKLNLP LPTTTIGSFPQT++LRRVRRE+KAKK+SE+DYVK IKEEI VV LQEEL
Sbjct: 422 AQQKKLNLPILPTTTIGSFPQTVELRRVRREYKAKKVSEEDYVKAIKEEIKKVVDLQEEL 481
Query: 482 DIDVLVHGEPERNDMVEYFGEQLSGFAFTVNGWVQSYGSRCVKPPIIYGDVSRPKAMTVF 541
DIDVLVHGEPERND VEYFGEQLSGFAFT NGWVQSYGSRCVKPP+IYGDVSRPKA TVF
Sbjct: 482 DIDVLVHGEPERNDXVEYFGEQLSGFAFTANGWVQSYGSRCVKPPVIYGDVSRPKAXTVF 541
Query: 542 WSSMAQSMTKRPMKGMLTGPVTILNWSFVRNDQPRQ 577
WS+ AQS T RP KG LTGPVTILNWSFVRNDQPR
Sbjct: 542 WSAXAQSXTSRPXKGXLTGPVTILNWSFVRNDQPRH 577
>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 = 528 bits (1361), Expect = e-150, Method: Compositional matrix adjust.
Identities = 297/608 (48%), Positives = 380/608 (62%), Gaps = 31/608 (5%)
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 AAALKGSDHRRATNVSARLDAQQKKLNLPNLPTTTIGSFPQTMDLRRVRREFKAKKISED 461
+ + R RL Q+ K NLP PTTTIGSFPQT D+R R +F +I+ +
Sbjct: 433 LTTINEALATRKAAFPERLTEQKAKYNLPLFPTTTIGSFPQTKDIRINRNKFAKGQITAE 492
Query: 462 DYVKTIKEEINNVVKLQEELDIDVLVHGEPERNDMVEYFGEQLSGFAFTVNGWVQSYGSR 521
+Y I +EI VV+ QEE+ +DVLVHGEPERNDMV+YFGEQL+GFAFT NGWVQSYGSR
Sbjct: 493 EYEAFINKEIETVVRFQEEIGLDVLVHGEPERNDMVQYFGEQLNGFAFTTNGWVQSYGSR 552
Query: 522 CVKPPIIYGDVSRPKAMTVFWSSMAQSMTKRPMKGMLTGPVTILNWSFVRNDQPRQGINQ 581
V+PPII GDVSRPKAMTV S AQS+T +PMKGMLTGPVTIL WSF R+D + I
Sbjct: 553 YVRPPIIVGDVSRPKAMTVKESVYAQSITSKPMKGMLTGPVTILRWSFPRDDVSGK-IQA 611
Query: 582 IQCPVNLR 589
+Q + LR
Sbjct: 612 LQLGLALR 619
>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 = 528 bits (1361), Expect = e-150, Method: Compositional matrix adjust.
Identities = 297/608 (48%), Positives = 380/608 (62%), Gaps = 31/608 (5%)
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 AAALKGSDHRRATNVSARLDAQQKKLNLPNLPTTTIGSFPQTMDLRRVRREFKAKKISED 461
+ + R RL Q+ K NLP PTTTIGSFPQT D+R R +F +I+ +
Sbjct: 433 LTTINEALATRKAAFPERLTEQKAKYNLPLFPTTTIGSFPQTKDIRINRNKFAKGQITAE 492
Query: 462 DYVKTIKEEINNVVKLQEELDIDVLVHGEPERNDMVEYFGEQLSGFAFTVNGWVQSYGSR 521
+Y I +EI VV+ QEE+ +DVLVHGEPERNDMV+YFGEQL+GFAFT NGWVQSYGSR
Sbjct: 493 EYEAFINKEIETVVRFQEEIGLDVLVHGEPERNDMVQYFGEQLNGFAFTTNGWVQSYGSR 552
Query: 522 CVKPPIIYGDVSRPKAMTVFWSSMAQSMTKRPMKGMLTGPVTILNWSFVRNDQPRQGINQ 581
V+PPII GDVSRPKAMTV S AQS+T +PMKGMLTGPVTIL WSF R+D + I
Sbjct: 553 YVRPPIIVGDVSRPKAMTVKESVYAQSITSKPMKGMLTGPVTILRWSFPRDDVSGK-IQA 611
Query: 582 IQCPVNLR 589
+Q + LR
Sbjct: 612 LQLGLALR 619
>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 = 528 bits (1361), Expect = e-150, Method: Compositional matrix adjust.
Identities = 297/608 (48%), Positives = 380/608 (62%), Gaps = 31/608 (5%)
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 AAALKGSDHRRATNVSARLDAQQKKLNLPNLPTTTIGSFPQTMDLRRVRREFKAKKISED 461
+ + R RL Q+ K NLP PTTTIGSFPQT D+R R +F +I+ +
Sbjct: 433 LTTINEALATRKAAFPERLTEQKAKYNLPLFPTTTIGSFPQTKDIRINRNKFAKGQITAE 492
Query: 462 DYVKTIKEEINNVVKLQEELDIDVLVHGEPERNDMVEYFGEQLSGFAFTVNGWVQSYGSR 521
+Y I +EI VV+ QEE+ +DVLVHGEPERNDMV+YFGEQL+GFAFT NGWVQSYGSR
Sbjct: 493 EYEAFINKEIETVVRFQEEIGLDVLVHGEPERNDMVQYFGEQLNGFAFTTNGWVQSYGSR 552
Query: 522 CVKPPIIYGDVSRPKAMTVFWSSMAQSMTKRPMKGMLTGPVTILNWSFVRNDQPRQGINQ 581
V+PPII GDVSRPKAMTV S AQS+T +PMKGMLTGPVTIL WSF R+D + I
Sbjct: 553 YVRPPIIVGDVSRPKAMTVKESVYAQSITSKPMKGMLTGPVTILRWSFPRDDVSGK-IQA 611
Query: 582 IQCPVNLR 589
+Q + LR
Sbjct: 612 LQLGLALR 619
>pdb|2NQ5|A Chain A, Crystal Structure Of Methyltransferase From Streptococcus
Mutans
Length = 755
Score = 431 bits (1107), Expect = e-121, Method: Compositional matrix adjust.
Identities = 251/597 (42%), Positives = 354/597 (59%), Gaps = 31/597 (5%)
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----NNRLLDLYLEAREVVGDKAKPVITGPITYVALST---GVE---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 SDFVKTSALLETIEEQSAA--LTIQPSCSLLHVPVTTKNETDLDPVLRNGLAFADEKLTE 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 LDAQQKKLNLPNLPTTTIGSFPQTMDLRRVRREFKAKKISEDDYVKTIKEEINNVVKLQE 479
D QQ+KL+LP LPTTTIGSFPQ+ ++RR R +K IS+ +Y + I+ EI +++QE
Sbjct: 405 RDIQQEKLHLPLLPTTTIGSFPQSREIRRTRLAWKRGDISDAEYKQFIQAEIERWIRIQE 464
Query: 480 ELDIDVLVHGEPERNDMVEYFGEQLSGFAFTVNGWVQSYGSRCVKPPIIYGDVSRPKAMT 539
+LD+DVLVHGE ER DMVE+FG++L+GF T GWVQSYGSR VKPPIIYGDV + +T
Sbjct: 465 DLDLDVLVHGEFERVDMVEFFGQKLAGFTTTKFGWVQSYGSRAVKPPIIYGDVQHLEPIT 524
Query: 540 VFWSSMAQSMTKRPMKGMLTGPVTILNWSFVRNDQPR-QGINQIQCPVNLRIFKLFN 595
V + AQS+T RP+KGMLTGP+TI NWSF R D PR Q NQI + I L N
Sbjct: 525 VEETVYAQSLTDRPVKGMLTGPITITNWSFERTDIPRDQLFNQIGLAIKDEIKLLEN 581
>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 = 430 bits (1105), Expect = e-120, Method: Compositional matrix adjust.
Identities = 251/597 (42%), Positives = 354/597 (59%), Gaps = 31/597 (5%)
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----NNRLLDLYLEAREVVGDKAKPVITGPITYVALST---GVE---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 SDFVKTSALLETIEEQSAA--LTIQPSCSLLHVPVTTKNETDLDPVLRNGLAFADEKLTE 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 LDAQQKKLNLPNLPTTTIGSFPQTMDLRRVRREFKAKKISEDDYVKTIKEEINNVVKLQE 479
D QQ+KL+LP LPTTTIGSFPQ+ ++RR R +K IS+ +Y + I+ EI +++QE
Sbjct: 437 RDIQQEKLHLPLLPTTTIGSFPQSREIRRTRLAWKRGDISDAEYKQFIQAEIERWIRIQE 496
Query: 480 ELDIDVLVHGEPERNDMVEYFGEQLSGFAFTVNGWVQSYGSRCVKPPIIYGDVSRPKAMT 539
+LD+DVLVHGE ER DMVE+FG++L+GF T GWVQSYGSR VKPPIIYGDV + +T
Sbjct: 497 DLDLDVLVHGEFERVDMVEFFGQKLAGFTTTKFGWVQSYGSRAVKPPIIYGDVQHLEPIT 556
Query: 540 VFWSSMAQSMTKRPMKGMLTGPVTILNWSFVRNDQPR-QGINQIQCPVNLRIFKLFN 595
V + AQS+T RP+KGMLTGP+TI NWSF R D PR Q NQI + I L N
Sbjct: 557 VEETVYAQSLTDRPVKGMLTGPITITNWSFERTDIPRDQLFNQIGLAIKDEIKLLEN 613
>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 = 397 bits (1019), Expect = e-110, Method: Compositional matrix adjust.
Identities = 234/588 (39%), Positives = 334/588 (56%), Gaps = 33/588 (5%)
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 DAQQKKLNLPNLPTTTIGSFPQTMDLRRVRREFKAKKISEDDYVKTIKEEINNVVKLQEE 480
Q+++LNLP PTTTIGSFPQT ++R++R +++ +IS+++Y IKE+I ++LQEE
Sbjct: 425 RIQRERLNLPLFPTTTIGSFPQTPEVRKMRSKYRKGEISKEEYEAFIKEQIKKAIELQEE 484
Query: 481 LDIDVLVHGEPERNDMVEYFGEQLSGFAFTVNGWVQSYGSRCVKPPIIYGDVSRPKAMTV 540
+ +DVLVHGE ER DMVE+F E+L+G A T NGWV SYGSRC +PPIIYG V+RP+ MT+
Sbjct: 485 IGLDVLVHGEFERTDMVEFFAEKLNGIATTQNGWVLSYGSRCYRPPIIYGTVTRPEPMTL 544
Query: 541 FWSSMAQSMTKRPMKGMLTGPVTILNWSFVRNDQPRQGIN-QIQCPVN 587
+ AQS+T++P+KGMLTGPVTI++WS+ R D P + I QI +N
Sbjct: 545 KEITYAQSLTEKPVKGMLTGPVTIMSWSYYREDIPEREIAYQIALAIN 592
>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 = 396 bits (1018), Expect = e-110, Method: Compositional matrix adjust.
Identities = 234/588 (39%), Positives = 334/588 (56%), Gaps = 33/588 (5%)
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 DAQQKKLNLPNLPTTTIGSFPQTMDLRRVRREFKAKKISEDDYVKTIKEEINNVVKLQEE 480
Q+++LNLP PTTTIGSFPQT ++R++R +++ +IS+++Y IKE+I ++LQEE
Sbjct: 425 RIQRERLNLPLFPTTTIGSFPQTPEVRKMRSKYRKGEISKEEYEAFIKEQIKKAIELQEE 484
Query: 481 LDIDVLVHGEPERNDMVEYFGEQLSGFAFTVNGWVQSYGSRCVKPPIIYGDVSRPKAMTV 540
+ +DVLVHGE ER DMVE+F E+L+G A T NGWV SYGSRC +PPIIYG V+RP+ MT+
Sbjct: 485 IGLDVLVHGEFERTDMVEFFAEKLNGIATTQNGWVLSYGSRCYRPPIIYGTVTRPEPMTL 544
Query: 541 FWSSMAQSMTKRPMKGMLTGPVTILNWSFVRNDQPRQGIN-QIQCPVN 587
+ AQS+T++P+KGMLTGPVTI++WS+ R D P + I QI +N
Sbjct: 545 KEITYAQSLTEKPVKGMLTGPVTIMSWSYYREDIPEREIAYQIALAIN 592
>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 = 369 bits (946), Expect = e-102, Method: Compositional matrix adjust.
Identities = 229/589 (38%), Positives = 327/589 (55%), Gaps = 35/589 (5%)
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 PELGPDVNFSYASHKAVQEYKEAKALGMETVPVLVGPVSYLLLSKP-AKGVEKSFSLLSL 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 LDAQQKKLNLPNLPTTTIGSFPQTMDLRRVRREFKAKKISEDDYVKTIKEEINNVVKLQE 479
Q+++LNLP PTTTIGSFPQT ++R+ R +++ +IS+++Y IKE+I ++LQE
Sbjct: 424 DRIQRERLNLPLFPTTTIGSFPQTPEVRKXRSKYRKGEISKEEYEAFIKEQIKKAIELQE 483
Query: 480 ELDIDVLVHGEPERNDMVEYFGEQLSGFAFTVNGWVQSYGSRCVKPPIIYGDVSRPKAMT 539
E+ +DVLVHGE ER D VE+F E+L+G A T NGWV SYGSRC +PPIIYG V+RP+ T
Sbjct: 484 EIGLDVLVHGEFERTDXVEFFAEKLNGIATTQNGWVLSYGSRCYRPPIIYGTVTRPEPXT 543
Query: 540 VFWSSMAQSMTKRPMKGMLTGPVTILNWSFVRNDQPRQGIN-QIQCPVN 587
+ + AQS+T++P+KG LTGPVTI +WS+ R D P + I QI +N
Sbjct: 544 LKEITYAQSLTEKPVKGXLTGPVTIXSWSYYREDIPEREIAYQIALAIN 592
>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 = 368 bits (944), Expect = e-102, Method: Compositional matrix adjust.
Identities = 229/589 (38%), Positives = 327/589 (55%), Gaps = 35/589 (5%)
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 PELGPDVNFSYASHKAVQEYKEAKALGMETVPVLVGPVSYLLLSKP-AKGVEKSFSLLSL 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 LDAQQKKLNLPNLPTTTIGSFPQTMDLRRVRREFKAKKISEDDYVKTIKEEINNVVKLQE 479
Q+++LNLP PTTTIGSFPQT ++R+ R +++ +IS+++Y IKE+I ++LQE
Sbjct: 424 DRIQRERLNLPLFPTTTIGSFPQTPEVRKXRSKYRKGEISKEEYEAFIKEQIKKAIELQE 483
Query: 480 ELDIDVLVHGEPERNDMVEYFGEQLSGFAFTVNGWVQSYGSRCVKPPIIYGDVSRPKAMT 539
E+ +DVLVHGE ER D VE+F E+L+G A T NGWV SYGSRC +PPIIYG V+RP+ T
Sbjct: 484 EIGLDVLVHGEFERTDXVEFFAEKLNGIATTQNGWVLSYGSRCYRPPIIYGTVTRPEPXT 543
Query: 540 VFWSSMAQSMTKRPMKGMLTGPVTILNWSFVRNDQPRQGIN-QIQCPVN 587
+ + AQS+T++P+KG LTGPVTI +WS+ R D P + I QI +N
Sbjct: 544 LKEITYAQSLTEKPVKGXLTGPVTIXSWSYYREDIPEREIAYQIALAIN 592
>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 = 53.5 bits (127), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 38/140 (27%), Positives = 65/140 (46%)
Query: 427 LNLPNLPTTTIGSFPQTMDLRRVRREFKAKKISEDDYVKTIKEEINNVVKLQEELDIDVL 486
LN LPT+T GS P+ + L + K+ ++ + + + ++ Q+ ID++
Sbjct: 13 LNQALLPTSTAGSLPKPLWLAEPETLWSPWKLQGEELITGKHDALRLSLQDQQLAGIDIV 72
Query: 487 VHGEPERNDMVEYFGEQLSGFAFTVNGWVQSYGSRCVKPPIIYGDVSRPKAMTVFWSSMA 546
GE R V F E L+G F+ V+ P + G VSR K++ V +
Sbjct: 73 SDGEQTRQHFVTTFIEHLNGVDFSKRKIVKIRDRYDASVPTVVGPVSRQKSVFVEDAKFL 132
Query: 547 QSMTKRPMKGMLTGPVTILN 566
+ T +P+K L GP T ++
Sbjct: 133 RKQTTQPIKWALPGPXTXID 152
>pdb|2A0Z|A Chain A, The Molecular Structure Of Toll-like Receptor 3 Ligand
Binding Domain
Length = 705
Score = 37.0 bits (84), Expect = 0.033, 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 = 37.0 bits (84), Expect = 0.035, 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 = 0.040, 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|2B4K|A Chain A, Acetobacter Turbidans Alpha-Amino Acid Ester Hydrolase
Complexed With Phenylglycine
pdb|2B4K|B Chain B, Acetobacter Turbidans Alpha-Amino Acid Ester Hydrolase
Complexed With Phenylglycine
pdb|2B4K|C Chain C, Acetobacter Turbidans Alpha-Amino Acid Ester Hydrolase
Complexed With Phenylglycine
pdb|2B4K|D Chain D, Acetobacter Turbidans Alpha-Amino Acid Ester Hydrolase
Complexed With Phenylglycine
pdb|2B9V|A Chain A, Acetobacter Turbidans Alpha-amino Acid Ester Hydrolase
pdb|2B9V|B Chain B, Acetobacter Turbidans Alpha-amino Acid Ester Hydrolase
pdb|2B9V|C Chain C, Acetobacter Turbidans Alpha-amino Acid Ester Hydrolase
pdb|2B9V|D Chain D, Acetobacter Turbidans Alpha-amino Acid Ester Hydrolase
pdb|2B9V|E Chain E, Acetobacter Turbidans Alpha-amino Acid Ester Hydrolase
pdb|2B9V|F Chain F, Acetobacter Turbidans Alpha-amino Acid Ester Hydrolase
pdb|2B9V|G Chain G, Acetobacter Turbidans Alpha-amino Acid Ester Hydrolase
pdb|2B9V|H Chain H, Acetobacter Turbidans Alpha-amino Acid Ester Hydrolase
pdb|2B9V|I Chain I, Acetobacter Turbidans Alpha-amino Acid Ester Hydrolase
pdb|2B9V|J Chain J, Acetobacter Turbidans Alpha-amino Acid Ester Hydrolase
pdb|2B9V|K Chain K, Acetobacter Turbidans Alpha-amino Acid Ester Hydrolase
pdb|2B9V|L Chain L, Acetobacter Turbidans Alpha-amino Acid Ester Hydrolase
pdb|2B9V|M Chain M, Acetobacter Turbidans Alpha-amino Acid Ester Hydrolase
pdb|2B9V|N Chain N, Acetobacter Turbidans Alpha-amino Acid Ester Hydrolase
pdb|2B9V|O Chain O, Acetobacter Turbidans Alpha-amino Acid Ester Hydrolase
pdb|2B9V|P Chain P, Acetobacter Turbidans Alpha-amino Acid Ester Hydrolase
Length = 652
Score = 31.2 bits (69), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 28/65 (43%), Gaps = 5/65 (7%)
Query: 448 RVRREFKAKKISEDDYVKTIKEEIN-NVVKLQEELD----IDVLVHGEPERNDMVEYFGE 502
RV ++ + K S+ DYV T N K E D +D LVH PE N V G
Sbjct: 105 RVFQDIRGKYGSQGDYVMTRPPHGPLNPTKTDETTDAWDTVDWLVHNVPESNGRVGMTGS 164
Query: 503 QLSGF 507
GF
Sbjct: 165 SYEGF 169
>pdb|1RYY|A Chain A, Acetobacter Turbidans Alpha-Amino Acid Ester Hydrolase
Y206a Mutant
pdb|1RYY|B Chain B, Acetobacter Turbidans Alpha-Amino Acid Ester Hydrolase
Y206a Mutant
pdb|1RYY|C Chain C, Acetobacter Turbidans Alpha-Amino Acid Ester Hydrolase
Y206a Mutant
pdb|1RYY|D Chain D, Acetobacter Turbidans Alpha-Amino Acid Ester Hydrolase
Y206a Mutant
pdb|1RYY|E Chain E, Acetobacter Turbidans Alpha-Amino Acid Ester Hydrolase
Y206a Mutant
pdb|1RYY|F Chain F, Acetobacter Turbidans Alpha-Amino Acid Ester Hydrolase
Y206a Mutant
pdb|1RYY|G Chain G, Acetobacter Turbidans Alpha-Amino Acid Ester Hydrolase
Y206a Mutant
pdb|1RYY|H Chain H, Acetobacter Turbidans Alpha-Amino Acid Ester Hydrolase
Y206a Mutant
Length = 652
Score = 31.2 bits (69), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 28/65 (43%), Gaps = 5/65 (7%)
Query: 448 RVRREFKAKKISEDDYVKTIKEEIN-NVVKLQEELD----IDVLVHGEPERNDMVEYFGE 502
RV ++ + K S+ DYV T N K E D +D LVH PE N V G
Sbjct: 105 RVFQDIRGKYGSQGDYVMTRPPHGPLNPTKTDETTDAWDTVDWLVHNVPESNGRVGMTGS 164
Query: 503 QLSGF 507
GF
Sbjct: 165 SAEGF 169
>pdb|1NX9|A Chain A, Acetobacter Turbidans Alpha-Amino Acid Ester Hydrolase
S205a Mutant Complexed With Ampicillin
pdb|1NX9|B Chain B, Acetobacter Turbidans Alpha-Amino Acid Ester Hydrolase
S205a Mutant Complexed With Ampicillin
pdb|1NX9|C Chain C, Acetobacter Turbidans Alpha-Amino Acid Ester Hydrolase
S205a Mutant Complexed With Ampicillin
pdb|1NX9|D Chain D, Acetobacter Turbidans Alpha-Amino Acid Ester Hydrolase
S205a Mutant Complexed With Ampicillin
Length = 652
Score = 31.2 bits (69), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 28/65 (43%), Gaps = 5/65 (7%)
Query: 448 RVRREFKAKKISEDDYVKTIKEEIN-NVVKLQEELD----IDVLVHGEPERNDMVEYFGE 502
RV ++ + K S+ DYV T N K E D +D LVH PE N V G
Sbjct: 105 RVFQDIRGKYGSQGDYVMTRPPHGPLNPTKTDETTDAWDTVDWLVHNVPESNGRVGMTGS 164
Query: 503 QLSGF 507
GF
Sbjct: 165 AYEGF 169
>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 = 29.3 bits (64), Expect = 6.5, 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|4AP5|A Chain A, Crystal Structure Of Human Pofut2
pdb|4AP5|B Chain B, Crystal Structure Of Human Pofut2
Length = 408
Score = 29.3 bits (64), Expect = 6.9, 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
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
0.317 0.132 0.384
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,365,543
Number of Sequences: 62578
Number of extensions: 725408
Number of successful extensions: 2051
Number of sequences better than 100.0: 29
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 1977
Number of HSP's gapped (non-prelim): 34
length of query: 595
length of database: 14,973,337
effective HSP length: 104
effective length of query: 491
effective length of database: 8,465,225
effective search space: 4156425475
effective search space used: 4156425475
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: 54 (25.4 bits)