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= psy2654
(1949 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3VKG|A Chain A, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein Motor
Domain
pdb|3VKG|B Chain B, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein Motor
Domain
Length = 3245
Score = 333 bits (855), Expect = 5e-91, Method: Compositional matrix adjust.
Identities = 212/731 (29%), Positives = 349/731 (47%), Gaps = 99/731 (13%)
Query: 1238 LKNWLNNVTDSMRRTGIHCMSLAVAAY------DEKPREQWLFDYPGQTALCGTQIWWTT 1291
+ WL V M+ T +S ++ + D +W+ +YP Q L +QI W+T
Sbjct: 403 IHEWLTMVESEMKSTLATLLSESLQHFNQVDVNDHSKYSEWVDNYPTQLVLLTSQIVWST 462
Query: 1292 EVSICFARLEEGYENALKDYNKKQFIIGFAGTGKSCVWKTLYKTYV---NAKKKPMYNDL 1348
+ +++ +K Q + + L + + +A+K+ + L
Sbjct: 463 Q-------VDQALGGGTLQQSKIQEQLQSIEQTTQMILNNLADSVLQDLSAQKRKKFEHL 515
Query: 1349 EPKAVTNDELFGIINPSTREWKDGRYSDSGFLSY------GSLLGDCFANICDAEFKFDH 1402
+ V ++ + + + + Y ++L ++ +A F +
Sbjct: 516 ITELVHQRDVVRQLQKCKNLTGNKDFDWLYHMRYYYDATQENVLHKLVIHMANATFYYGF 575
Query: 1403 EYLGCTPRLVITPLTDRCYITLSQSLHLNMXXXXXXXXXXXXXXXXXDLGKAIGIMVYVF 1462
EYLG RLV TPLTDRCY+TL+Q+L M LG +G V VF
Sbjct: 576 EYLGIGERLVQTPLTDRCYLTLTQALESRMGGNPFGPAGTGKTETVKALGSQLGRFVLVF 635
Query: 1463 NCSEQMDYRSCGNIYKGLAQTGAWGCFDEFNRIXXXXXXXXXXXXXXXXXXXKMRKSRFN 1522
C E D ++ I+
Sbjct: 636 CCDEGFDLQAMSRIF--------------------------------------------- 650
Query: 1523 FMGESSLAGLAQTGAWGCFDEFNRIXXXXXXXXXXXXXXXXXXXKMRKSRFNFMG-ENIK 1581
GL Q GAWGCFDEFNR+ K +G +NI
Sbjct: 651 -------VGLCQCGAWGCFDEFNRLEERILSAVSQQIQTIQVALKENSKEVELLGGKNIS 703
Query: 1582 LVTTVGMFITMNPGYAGRAELPENLKALFRPCAMVVPDFALICEIMLVSEGFQEARLLSR 1641
L +G+F+TMNPGYAGR+ LP+NLK LFR AM+ PD +I ++ML S+GF+ A +L+
Sbjct: 704 LHQDMGIFVTMNPGYAGRSNLPDNLKKLFRSMAMIKPDREMIAQVMLYSQGFKTAEVLAG 763
Query: 1642 KFITLYSLCKELLSKQDHYDWGLRAIKSVLVVAGSLKR------------GDRQRPEDQ- 1688
K + L+ LC+E LS Q HYD+GLRA+KSVLV AG +KR + + DQ
Sbjct: 764 KIVPLFKLCQEQLSAQSHYDFGLRALKSVLVSAGGIKRKCQPPQLPPITDAESKTKADQI 823
Query: 1689 -------VLMRALRDFNIPKIITEDLQVFMGLIGDLFPALDVPRKRDIDFEKQVRQATID 1741
VL+ ++ D IPK++ +D+ + L+ D+FP + + K++++
Sbjct: 824 YCQYEIGVLLNSINDTMIPKLVADDIPLIQSLLLDVFPGSQLQPIQMDQLRKKIQEIAKQ 883
Query: 1742 MKLQPEDSFILKVVQLVELFAVRHSVFIIGFAGTGKSCVWKTLYKTYVNAKK-KPMYNDL 1800
L + ++ K++QL ++ + H V ++G +G GK+ W+ + K + +
Sbjct: 884 RHLVTKQEWVEKILQLHQILNINHGVMMVGPSGGGKTTSWEVYLEAIEQVDNIKSEAHVM 943
Query: 1801 EPKAVTNDELFGIINPSTREWKDGLFSCLIREQAQST-GDGPK--WMVMDGDIDPMWIES 1857
+PKA+T D+LFG ++ +TREW DGLF+ +R + G+ K W++ DGD+DP W+E+
Sbjct: 944 DPKAITKDQLFGSLDLTTREWTDGLFTATLRRIIDNVRGESTKRHWIIFDGDVDPEWVEN 1003
Query: 1858 LNTVMDDNKVLTLASNERIALTPSMRLLFEISNLRTATPATVSRAGILYINPQDLGWNPY 1917
LN+++DDNK+LTL + ER+AL ++R++FE+ +L+ AT AT+SR G+++ + + L
Sbjct: 1004 LNSLLDDNKLLTLPNGERLALPNNVRVMFEVQDLKYATLATISRCGMVWFSEEILTTQMI 1063
Query: 1918 VLSWTDTRESE 1928
++ DT +E
Sbjct: 1064 FQNYLDTLSNE 1074
Score = 250 bits (638), Expect = 7e-66, Method: Compositional matrix adjust.
Identities = 164/502 (32%), Positives = 243/502 (48%), Gaps = 60/502 (11%)
Query: 924 EELIEMLEENQINQLNALIVLLLGELTVGDRQKIMTICTIDVHSRDVVAKLI-LQKIESS 982
+E ++ +E+ LN L +L +L+ R+K + T VH RDVV +L + + +
Sbjct: 479 QEQLQSIEQTTQMILNNLADSVLQDLSAQKRKKFEHLITELVHQRDVVRQLQKCKNLTGN 538
Query: 983 GAFMWQSQLRHRWDKEVGDCFA----NICDAEFKFDHEYLGCTPRLVITPLTDRCYITLS 1038
F W +R+ +D + ++ +A F + EYLG RLV TPLTDRCY+TL+
Sbjct: 539 KDFDWLYHMRYYYDATQENVLHKLVIHMANATFYYGFEYLGIGERLVQTPLTDRCYLTLT 598
Query: 1039 QSLHLNMXXXXXXXXXXXXXXXXXDLGKAIGIMVYVFNCSEQMDYRSCGNIYKGLAQTGA 1098
Q+L M LG +G V VF C E D ++ I+ GL Q GA
Sbjct: 599 QALESRMGGNPFGPAGTGKTETVKALGSQLGRFVLVFCCDEGFDLQAMSRIFVGLCQCGA 658
Query: 1099 WGCFDEFNRIXXXXXXXXXXXXXXXXXXXKMRKSRFNFMG-ENIKLVTTVGMFITMNPGY 1157
WGCFDEFNR+ K +G +NI L +G+F+TMNPGY
Sbjct: 659 WGCFDEFNRLEERILSAVSQQIQTIQVALKENSKEVELLGGKNISLHQDMGIFVTMNPGY 718
Query: 1158 AGRAELPENLKALFRPCAMVVPDFALICEIMLVSEGFQEARLLSRKFITLYSLCKELLSK 1217
AGR+ LP+NLK LFR AM+ PD +I ++ML S+GF+ A +L+ K + L+ LC+E LS
Sbjct: 719 AGRSNLPDNLKKLFRSMAMIKPDREMIAQVMLYSQGFKTAEVLAGKIVPLFKLCQEQLSA 778
Query: 1218 QDHYDWGLRAIKSVLVVAGSLKN-----WLNNVTDSMRRTG---IHC------------- 1256
Q HYD+GLRA+KSVLV AG +K L +TD+ +T I+C
Sbjct: 779 QSHYDFGLRALKSVLVSAGGIKRKCQPPQLPPITDAESKTKADQIYCQYEIGVLLNSIND 838
Query: 1257 -MSLAVAAYDEKPREQWLFD-YPG--------------------QTALCGTQIWWTTEVS 1294
M + A D + L D +PG Q L Q W +
Sbjct: 839 TMIPKLVADDIPLIQSLLLDVFPGSQLQPIQMDQLRKKIQEIAKQRHLVTKQEWVEKILQ 898
Query: 1295 ICFARLEEGYENALKDYNKKQFIIGFAGTGKSCVWKTLYKTYVNAKK-KPMYNDLEPKAV 1353
+ + + + N ++G +G GK+ W+ + K + ++PKA+
Sbjct: 899 L----------HQILNINHGVMMVGPSGGGKTTSWEVYLEAIEQVDNIKSEAHVMDPKAI 948
Query: 1354 TNDELFGIINPSTREWKDGRYS 1375
T D+LFG ++ +TREW DG ++
Sbjct: 949 TKDQLFGSLDLTTREWTDGLFT 970
Score = 116 bits (290), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 69/218 (31%), Positives = 115/218 (52%), Gaps = 11/218 (5%)
Query: 499 WSTLEFEYDIHARTKTPLLRCSEELIEMLEENQVQLQNMASSKFVGYFQKEVNEWQIKLS 558
W+TLE + ++ + K L+R ++L L E+ + M S + F++E N W +L+
Sbjct: 175 WTTLELDL-VNYQRKCKLVRGWDDLFNKLAEHLNSISAMKMSPYYKVFEEEANHWDDRLN 233
Query: 559 NADAVISIWIEVQRTWQHLESIFIGSDDIRQQLPEDSRRFDATDKAFRALAQDMHKTPNV 618
+++ +WI+VQR W +LE IF GS DI Q LP +S RF + + F A+ + + P +
Sbjct: 234 KVRSLLDVWIDVQRRWVYLEGIFSGSGDINQLLPAESTRFKSINSEFIAILKKVSGAPLI 293
Query: 619 VIGTNKPGLYEKLETIQKDLTKCEKALAQYLETKKLTYPRFYFVSSSDLLDILANGNN-- 676
+ + + +E + L K +KAL +YLE ++ + RFYFV DLL+I+ N +
Sbjct: 294 LEVLAIERIQQTMERLSDLLGKVQKALGEYLERQRSAFARFYFVGDEDLLEIIGNSKDII 353
Query: 677 --PEAFRPGKDGKINVKIAQ------GMYAKDGEYVEF 706
+ FR G N+ + GM + +GE V F
Sbjct: 354 KIQKHFRKMFAGLANLTLDDEKTTIIGMSSAEGETVTF 391
Score = 46.2 bits (108), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 38/164 (23%), Positives = 74/164 (45%), Gaps = 3/164 (1%)
Query: 778 KETLWKKIDSEAMDMELKKFTKELRTLDKDLRNWDIFLQLESEIKNMIAALKAVTELQNP 837
KET W I + L+ ++L+ L +R + F ++ IK + +T+L +
Sbjct: 52 KETAWSAIIPRKVRKSLEDTLQKLKNLPNRIRQYSAFDHAQNLIKIYLKGNAIITDLHSE 111
Query: 838 AIRDRHWEELMSVTKVKFSIXXXXXXXXXXXXXXXXXXXXVKTIVDKSVKEQQMEKVLKD 897
AI+DRHW+ L + I + ++ + E +E+ LK
Sbjct: 112 AIKDRHWKILKKRLNTNW-IITELTLGSIWDSDLARNENIYREVITAAQGEIALEEFLKG 170
Query: 898 FDKVWSTLEFEYDIHARTKTPLLRCSEELIEMLEENQINQLNAL 941
+ W+TLE + ++ + K L+R ++L L E+ +N ++A+
Sbjct: 171 VREFWTTLELDL-VNYQRKCKLVRGWDDLFNKLAEH-LNSISAM 212
>pdb|3VKH|A Chain A, X-Ray Structure Of A Functional Full-Length Dynein Motor
Domain
pdb|3VKH|B Chain B, X-Ray Structure Of A Functional Full-Length Dynein Motor
Domain
Length = 3367
Score = 333 bits (854), Expect = 6e-91, Method: Compositional matrix adjust.
Identities = 212/731 (29%), Positives = 349/731 (47%), Gaps = 99/731 (13%)
Query: 1238 LKNWLNNVTDSMRRTGIHCMSLAVAAY------DEKPREQWLFDYPGQTALCGTQIWWTT 1291
+ WL V M+ T +S ++ + D +W+ +YP Q L +QI W+T
Sbjct: 403 IHEWLTMVESEMKSTLATLLSESLQHFNQVDVNDHSKYSEWVDNYPTQLVLLTSQIVWST 462
Query: 1292 EVSICFARLEEGYENALKDYNKKQFIIGFAGTGKSCVWKTLYKTYV---NAKKKPMYNDL 1348
+ +++ +K Q + + L + + +A+K+ + L
Sbjct: 463 Q-------VDQALGGGTLQQSKIQEQLQSIEQTTQMILNNLADSVLQDLSAQKRKKFEHL 515
Query: 1349 EPKAVTNDELFGIINPSTREWKDGRYSDSGFLSY------GSLLGDCFANICDAEFKFDH 1402
+ V ++ + + + + Y ++L ++ +A F +
Sbjct: 516 ITELVHQRDVVRQLQKCKNLTGNKDFDWLYHMRYYYDATQENVLHKLVIHMANATFYYGF 575
Query: 1403 EYLGCTPRLVITPLTDRCYITLSQSLHLNMXXXXXXXXXXXXXXXXXDLGKAIGIMVYVF 1462
EYLG RLV TPLTDRCY+TL+Q+L M LG +G V VF
Sbjct: 576 EYLGIGERLVQTPLTDRCYLTLTQALESRMGGNPFGPAGTGKTETVKALGSQLGRFVLVF 635
Query: 1463 NCSEQMDYRSCGNIYKGLAQTGAWGCFDEFNRIXXXXXXXXXXXXXXXXXXXKMRKSRFN 1522
C E D ++ I+
Sbjct: 636 CCDEGFDLQAMSRIF--------------------------------------------- 650
Query: 1523 FMGESSLAGLAQTGAWGCFDEFNRIXXXXXXXXXXXXXXXXXXXKMRKSRFNFMG-ENIK 1581
GL Q GAWGCFDEFNR+ K +G +NI
Sbjct: 651 -------VGLCQCGAWGCFDEFNRLEERILSAVSQQIQTIQVALKENSKEVELLGGKNIS 703
Query: 1582 LVTTVGMFITMNPGYAGRAELPENLKALFRPCAMVVPDFALICEIMLVSEGFQEARLLSR 1641
L +G+F+TMNPGYAGR+ LP+NLK LFR AM+ PD +I ++ML S+GF+ A +L+
Sbjct: 704 LHQDMGIFVTMNPGYAGRSNLPDNLKKLFRSMAMIKPDREMIAQVMLYSQGFKTAEVLAG 763
Query: 1642 KFITLYSLCKELLSKQDHYDWGLRAIKSVLVVAGSLKR------------GDRQRPEDQ- 1688
K + L+ LC+E LS Q HYD+GLRA+KSVLV AG +KR + + DQ
Sbjct: 764 KIVPLFKLCQEQLSAQSHYDFGLRALKSVLVSAGGIKRKCQPPQLPPITDAESKTKADQI 823
Query: 1689 -------VLMRALRDFNIPKIITEDLQVFMGLIGDLFPALDVPRKRDIDFEKQVRQATID 1741
VL+ ++ D IPK++ +D+ + L+ D+FP + + K++++
Sbjct: 824 YCQYEIGVLLNSINDTMIPKLVADDIPLIQSLLLDVFPGSQLQPIQMDQLRKKIQEIAKQ 883
Query: 1742 MKLQPEDSFILKVVQLVELFAVRHSVFIIGFAGTGKSCVWKTLYKTYVNAKK-KPMYNDL 1800
L + ++ K++QL ++ + H V ++G +G GK+ W+ + K + +
Sbjct: 884 RHLVTKQEWVEKILQLHQILNINHGVMMVGPSGGGKTTSWEVYLEAIEQVDNIKSEAHVM 943
Query: 1801 EPKAVTNDELFGIINPSTREWKDGLFSCLIREQAQST-GDGPK--WMVMDGDIDPMWIES 1857
+PKA+T D+LFG ++ +TREW DGLF+ +R + G+ K W++ DGD+DP W+E+
Sbjct: 944 DPKAITKDQLFGSLDLTTREWTDGLFTATLRRIIDNVRGESTKRHWIIFDGDVDPEWVEN 1003
Query: 1858 LNTVMDDNKVLTLASNERIALTPSMRLLFEISNLRTATPATVSRAGILYINPQDLGWNPY 1917
LN+++DDNK+LTL + ER+AL ++R++FE+ +L+ AT AT+SR G+++ + + L
Sbjct: 1004 LNSLLDDNKLLTLPNGERLALPNNVRVMFEVQDLKYATLATISRCGMVWFSEEILTTQMI 1063
Query: 1918 VLSWTDTRESE 1928
++ DT +E
Sbjct: 1064 FQNYLDTLSNE 1074
Score = 249 bits (637), Expect = 8e-66, Method: Compositional matrix adjust.
Identities = 164/502 (32%), Positives = 243/502 (48%), Gaps = 60/502 (11%)
Query: 924 EELIEMLEENQINQLNALIVLLLGELTVGDRQKIMTICTIDVHSRDVVAKL-ILQKIESS 982
+E ++ +E+ LN L +L +L+ R+K + T VH RDVV +L + + +
Sbjct: 479 QEQLQSIEQTTQMILNNLADSVLQDLSAQKRKKFEHLITELVHQRDVVRQLQKCKNLTGN 538
Query: 983 GAFMWQSQLRHRWDKE----VGDCFANICDAEFKFDHEYLGCTPRLVITPLTDRCYITLS 1038
F W +R+ +D + ++ +A F + EYLG RLV TPLTDRCY+TL+
Sbjct: 539 KDFDWLYHMRYYYDATQENVLHKLVIHMANATFYYGFEYLGIGERLVQTPLTDRCYLTLT 598
Query: 1039 QSLHLNMXXXXXXXXXXXXXXXXXDLGKAIGIMVYVFNCSEQMDYRSCGNIYKGLAQTGA 1098
Q+L M LG +G V VF C E D ++ I+ GL Q GA
Sbjct: 599 QALESRMGGNPFGPAGTGKTETVKALGSQLGRFVLVFCCDEGFDLQAMSRIFVGLCQCGA 658
Query: 1099 WGCFDEFNRIXXXXXXXXXXXXXXXXXXXKMRKSRFNFMG-ENIKLVTTVGMFITMNPGY 1157
WGCFDEFNR+ K +G +NI L +G+F+TMNPGY
Sbjct: 659 WGCFDEFNRLEERILSAVSQQIQTIQVALKENSKEVELLGGKNISLHQDMGIFVTMNPGY 718
Query: 1158 AGRAELPENLKALFRPCAMVVPDFALICEIMLVSEGFQEARLLSRKFITLYSLCKELLSK 1217
AGR+ LP+NLK LFR AM+ PD +I ++ML S+GF+ A +L+ K + L+ LC+E LS
Sbjct: 719 AGRSNLPDNLKKLFRSMAMIKPDREMIAQVMLYSQGFKTAEVLAGKIVPLFKLCQEQLSA 778
Query: 1218 QDHYDWGLRAIKSVLVVAGSLKN-----WLNNVTDSMRRTG---IHC------------- 1256
Q HYD+GLRA+KSVLV AG +K L +TD+ +T I+C
Sbjct: 779 QSHYDFGLRALKSVLVSAGGIKRKCQPPQLPPITDAESKTKADQIYCQYEIGVLLNSIND 838
Query: 1257 -MSLAVAAYDEKPREQWLFD-YPG--------------------QTALCGTQIWWTTEVS 1294
M + A D + L D +PG Q L Q W +
Sbjct: 839 TMIPKLVADDIPLIQSLLLDVFPGSQLQPIQMDQLRKKIQEIAKQRHLVTKQEWVEKILQ 898
Query: 1295 ICFARLEEGYENALKDYNKKQFIIGFAGTGKSCVWKTLYKTYVNAKK-KPMYNDLEPKAV 1353
+ + + + N ++G +G GK+ W+ + K + ++PKA+
Sbjct: 899 L----------HQILNINHGVMMVGPSGGGKTTSWEVYLEAIEQVDNIKSEAHVMDPKAI 948
Query: 1354 TNDELFGIINPSTREWKDGRYS 1375
T D+LFG ++ +TREW DG ++
Sbjct: 949 TKDQLFGSLDLTTREWTDGLFT 970
Score = 115 bits (289), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 69/218 (31%), Positives = 115/218 (52%), Gaps = 11/218 (5%)
Query: 499 WSTLEFEYDIHARTKTPLLRCSEELIEMLEENQVQLQNMASSKFVGYFQKEVNEWQIKLS 558
W+TLE + ++ + K L+R ++L L E+ + M S + F++E N W +L+
Sbjct: 175 WTTLELDL-VNYQRKCKLVRGWDDLFNKLAEHLNSISAMKMSPYYKVFEEEANHWDDRLN 233
Query: 559 NADAVISIWIEVQRTWQHLESIFIGSDDIRQQLPEDSRRFDATDKAFRALAQDMHKTPNV 618
+++ +WI+VQR W +LE IF GS DI Q LP +S RF + + F A+ + + P +
Sbjct: 234 KVRSLLDVWIDVQRRWVYLEGIFSGSGDINQLLPAESTRFKSINSEFIAILKKVSGAPLI 293
Query: 619 VIGTNKPGLYEKLETIQKDLTKCEKALAQYLETKKLTYPRFYFVSSSDLLDILANGNN-- 676
+ + + +E + L K +KAL +YLE ++ + RFYFV DLL+I+ N +
Sbjct: 294 LEVLAIERIQQTMERLSDLLGKVQKALGEYLERQRSAFARFYFVGDEDLLEIIGNSKDII 353
Query: 677 --PEAFRPGKDGKINVKIAQ------GMYAKDGEYVEF 706
+ FR G N+ + GM + +GE V F
Sbjct: 354 KIQKHFRKMFAGLANLTLDDEKTTIIGMSSAEGETVTF 391
Score = 45.8 bits (107), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 38/164 (23%), Positives = 74/164 (45%), Gaps = 3/164 (1%)
Query: 778 KETLWKKIDSEAMDMELKKFTKELRTLDKDLRNWDIFLQLESEIKNMIAALKAVTELQNP 837
KET W I + L+ ++L+ L +R + F ++ IK + +T+L +
Sbjct: 52 KETAWSAIIPRKVRKSLEDTLQKLKNLPNRIRQYSAFDHAQNLIKIYLKGNAIITDLHSE 111
Query: 838 AIRDRHWEELMSVTKVKFSIXXXXXXXXXXXXXXXXXXXXVKTIVDKSVKEQQMEKVLKD 897
AI+DRHW+ L + I + ++ + E +E+ LK
Sbjct: 112 AIKDRHWKILKKRLNTNW-IITELTLGSIWDSDLARNENIYREVITAAQGEIALEEFLKG 170
Query: 898 FDKVWSTLEFEYDIHARTKTPLLRCSEELIEMLEENQINQLNAL 941
+ W+TLE + ++ + K L+R ++L L E+ +N ++A+
Sbjct: 171 VREFWTTLELDL-VNYQRKCKLVRGWDDLFNKLAEH-LNSISAM 212
>pdb|3QMZ|A Chain A, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
pdb|3QMZ|B Chain B, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
Length = 2486
Score = 229 bits (584), Expect = 1e-59, Method: Compositional matrix adjust.
Identities = 148/531 (27%), Positives = 239/531 (45%), Gaps = 66/531 (12%)
Query: 1386 LGDCFANICDAEFKFDHEYLGCTPRLVITPLTDRCYITLSQSLHLNMXXXXXXXXXXXXX 1445
L F + ++ EY+G RL+ TPL + TL+ SLH
Sbjct: 381 LNSVFISQSGYLLQYKFEYIGIPERLIYTPLLLIGFATLTDSLHQKYGGCFFGPAGTGKT 440
Query: 1446 XXXXDLGKAIGIMVYVFNCSEQMDYRSCGNIYKGLAQTGAWGCFDEFNRIXXXXXXXXXX 1505
G+ +G +V VFNC + DY+ +
Sbjct: 441 ETVKAFGQNLGRVVVVFNCDDSFDYQVLSRL----------------------------- 471
Query: 1506 XXXXXXXXXKMRKSRFNFMGESSLAGLAQTGAWGCFDEFNRIXXXXXXXXXXXXXXXXXX 1565
L G+ Q GAWGCFDEFNR+
Sbjct: 472 -----------------------LVGITQIGAWGCFDEFNRLDEKVLSAVSANIQQIQNG 508
Query: 1566 XKMRKSRFNFMGENIKLVTTVGMFITMNPGYAGRAELPENLKALFRPCAMVVPDFALICE 1625
++ KS + E L +FIT+NPGY GR+ELPENLK FR +M P I E
Sbjct: 509 LQVGKSHITLLEEETPLSPHTAVFITLNPGYNGRSELPENLKKSFREFSMKSPQSGTIAE 568
Query: 1626 IMLVSEGFQEARLLSRKFITLYSLCKELLSKQDHYDWGLRAIKSVLVVAGSL--KRGDRQ 1683
++L GF++++ L+ K + L S +HY +GLR +K VL L + G+ +
Sbjct: 569 MILQIMGFEDSKSLASKIVHFLELLSSKCSSMNHYHFGLRTLKGVLRNCSPLISEFGEGE 628
Query: 1684 RPEDQVLMRALRDFNIPKIITEDLQVFMGLIGDLFPALDVPRKRDIDFEKQVRQATIDMK 1743
+ + L R + +P + D VF + +F + P + ++ A
Sbjct: 629 KTVVESLKRVI----LPSLGDTDELVFKDELSKIFDSAGTPLNSKA-IVQCLKDAGQRSG 683
Query: 1744 LQPEDSFILKVVQLVELFAVRHSVFIIGFAGTGKSCVWKTLYKTYV--NAKKKPMYNDLE 1801
+ F+ K +Q + + ++ ++G AG GK+ WKT+ + +Y ++
Sbjct: 684 FSMSEEFLKKCMQFYYMQKTQQALILVGKAGCGKTATWKTVIDAMAIFDGHANVVYV-ID 742
Query: 1802 PKAVTNDELFGIINPSTREWKDGLFSCLIREQAQS-TG---DGPKWMVMDGDIDPMWIES 1857
K +T + L+G + +T EW+DGLF+ ++R TG + W+V D D+DP ++E+
Sbjct: 743 TKVLTKESLYGSMLKATLEWRDGLFTSILRRVNDDITGTFKNSRIWVVFDSDLDPEYVEA 802
Query: 1858 LNTVMDDNKVLTLASNERIALTPSMRLLFEISNLRTATPATVSRAGILYIN 1908
+N+V+DDNK+LTL + ER+ + P+ R+LFE NL TPAT++R G+L+ +
Sbjct: 803 MNSVLDDNKILTLPNGERLPIPPNFRILFETDNLDHTTPATITRCGLLWFS 853
Score = 163 bits (413), Expect = 9e-40, Method: Compositional matrix adjust.
Identities = 116/442 (26%), Positives = 198/442 (44%), Gaps = 25/442 (5%)
Query: 954 RQKIMTICTIDVHSRDVVAKLILQKIESSGAFMWQSQLRHRWDK-----EVGDCFANICD 1008
++KI + +H +V+ +L + +W ++++ + K ++ F +
Sbjct: 332 KKKIEALLVEYLHFNNVIGQLKNCSTKEEARLLW-AKVQKFYQKNDTLDDLNSVFISQSG 390
Query: 1009 AEFKFDHEYLGCTPRLVITPLTDRCYITLSQSLHLNMXXXXXXXXXXXXXXXXXDLGKAI 1068
++ EY+G RL+ TPL + TL+ SLH G+ +
Sbjct: 391 YLLQYKFEYIGIPERLIYTPLLLIGFATLTDSLHQKYGGCFFGPAGTGKTETVKAFGQNL 450
Query: 1069 GIMVYVFNCSEQMDYRSCGNIYKGLAQTGAWGCFDEFNRIXXXXXXXXXXXXXXXXXXXK 1128
G +V VFNC + DY+ + G+ Q GAWGCFDEFNR+ +
Sbjct: 451 GRVVVVFNCDDSFDYQVLSRLLVGITQIGAWGCFDEFNRLDEKVLSAVSANIQQIQNGLQ 510
Query: 1129 MRKSRFNFMGENIKLVTTVGMFITMNPGYAGRAELPENLKALFRPCAMVVPDFALICEIM 1188
+ KS + E L +FIT+NPGY GR+ELPENLK FR +M P I E++
Sbjct: 511 VGKSHITLLEEETPLSPHTAVFITLNPGYNGRSELPENLKKSFREFSMKSPQSGTIAEMI 570
Query: 1189 LVSEGFQEARLLSRKFITLYSLCKELLSKQDHYDWGLRAIKSVLVVAGSLKNWLN----N 1244
L GF++++ L+ K + L S +HY +GLR +K VL L +
Sbjct: 571 LQIMGFEDSKSLASKIVHFLELLSSKCSSMNHYHFGLRTLKGVLRNCSPLISEFGEGEKT 630
Query: 1245 VTDSMRRTGIHCM--SLAVAAYDEKPREQWLFDYPGQ--TALCGTQIWWTTEVSICFARL 1300
V +S++R + + + + DE + +FD G + Q F+
Sbjct: 631 VVESLKRVILPSLGDTDELVFKDELSK---IFDSAGTPLNSKAIVQCLKDAGQRSGFSMS 687
Query: 1301 EEGYENALKDYNKKQ-----FIIGFAGTGKSCVWKTLYKTYV--NAKKKPMYNDLEPKAV 1353
EE + ++ Y ++ ++G AG GK+ WKT+ + +Y ++ K +
Sbjct: 688 EEFLKKCMQFYYMQKTQQALILVGKAGCGKTATWKTVIDAMAIFDGHANVVYV-IDTKVL 746
Query: 1354 TNDELFGIINPSTREWKDGRYS 1375
T + L+G + +T EW+DG ++
Sbjct: 747 TKESLYGSMLKATLEWRDGLFT 768
Score = 66.2 bits (160), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 43/189 (22%), Positives = 90/189 (47%), Gaps = 1/189 (0%)
Query: 488 VAKRTENTYKVWSTLEFEYDIHARTKTPLLRCSEELIEMLEENQVQLQNMASSKFVGYFQ 547
+ K K W ++E H+ + L+R + L + +E+ +L +M +S + F+
Sbjct: 4 IEKSLNRIKKFWKEAQYEVIEHS-SGLKLVREWDVLEQACKEDLEELVSMKASNYYKIFE 62
Query: 548 KEVNEWQIKLSNADAVISIWIEVQRTWQHLESIFIGSDDIRQQLPEDSRRFDATDKAFRA 607
++ + + KL+ + W+EVQ W L I + DI+ LP ++ +F + ++
Sbjct: 63 QDCLDLESKLTKLSEIQVNWVEVQFYWLDLYGILGENLDIQNFLPLETSKFKSLTSEYKM 122
Query: 608 LAQDMHKTPNVVIGTNKPGLYEKLETIQKDLTKCEKALAQYLETKKLTYPRFYFVSSSDL 667
+ + + + P L+ L + +L+ +LE ++ +PRFYF+ + DL
Sbjct: 123 ITTRAFQLDTTIEVIHIPNFDTTLKLTIDSLKMIKSSLSTFLERQRRQFPRFYFLGNDDL 182
Query: 668 LDILANGNN 676
L I+ +G +
Sbjct: 183 LKIIGSGKH 191
>pdb|4AI6|A Chain A, Dynein Motor Domain - Adp Complex
pdb|4AI6|B Chain B, Dynein Motor Domain - Adp Complex
pdb|4AKG|A Chain A, Dynein Motor Domain - Atp Complex
pdb|4AKG|B Chain B, Dynein Motor Domain - Atp Complex
pdb|4AKH|A Chain A, Dynein Motor Domain - Amppnp Complex
pdb|4AKH|B Chain B, Dynein Motor Domain - Amppnp Complex
pdb|4AKI|A Chain A, Dynein Motor Domain - Luac Derivative
pdb|4AKI|B Chain B, Dynein Motor Domain - Luac Derivative
Length = 2695
Score = 229 bits (583), Expect = 2e-59, Method: Compositional matrix adjust.
Identities = 148/531 (27%), Positives = 239/531 (45%), Gaps = 66/531 (12%)
Query: 1386 LGDCFANICDAEFKFDHEYLGCTPRLVITPLTDRCYITLSQSLHLNMXXXXXXXXXXXXX 1445
L F + ++ EY+G RL+ TPL + TL+ SLH
Sbjct: 600 LNSVFISQSGYLLQYKFEYIGIPERLIYTPLLLIGFATLTDSLHQKYGGCFFGPAGTGKT 659
Query: 1446 XXXXDLGKAIGIMVYVFNCSEQMDYRSCGNIYKGLAQTGAWGCFDEFNRIXXXXXXXXXX 1505
G+ +G +V VFNC + DY+ +
Sbjct: 660 ETVKAFGQNLGRVVVVFNCDDSFDYQVLSRL----------------------------- 690
Query: 1506 XXXXXXXXXKMRKSRFNFMGESSLAGLAQTGAWGCFDEFNRIXXXXXXXXXXXXXXXXXX 1565
L G+ Q GAWGCFDEFNR+
Sbjct: 691 -----------------------LVGITQIGAWGCFDEFNRLDEKVLSAVSANIQQIQNG 727
Query: 1566 XKMRKSRFNFMGENIKLVTTVGMFITMNPGYAGRAELPENLKALFRPCAMVVPDFALICE 1625
++ KS + E L +FIT+NPGY GR+ELPENLK FR +M P I E
Sbjct: 728 LQVGKSHITLLEEETPLSPHTAVFITLNPGYNGRSELPENLKKSFREFSMKSPQSGTIAE 787
Query: 1626 IMLVSEGFQEARLLSRKFITLYSLCKELLSKQDHYDWGLRAIKSVLVVAGSL--KRGDRQ 1683
++L GF++++ L+ K + L S +HY +GLR +K VL L + G+ +
Sbjct: 788 MILQIMGFEDSKSLASKIVHFLELLSSKCSSMNHYHFGLRTLKGVLRNCSPLISEFGEGE 847
Query: 1684 RPEDQVLMRALRDFNIPKIITEDLQVFMGLIGDLFPALDVPRKRDIDFEKQVRQATIDMK 1743
+ + L R + +P + D VF + +F + P + ++ A
Sbjct: 848 KTVVESLKRVI----LPSLGDTDELVFKDELSKIFDSAGTPLNSKA-IVQCLKDAGQRSG 902
Query: 1744 LQPEDSFILKVVQLVELFAVRHSVFIIGFAGTGKSCVWKTLYKTYV--NAKKKPMYNDLE 1801
+ F+ K +Q + + ++ ++G AG GK+ WKT+ + +Y ++
Sbjct: 903 FSMSEEFLKKCMQFYYMQKTQQALILVGKAGCGKTATWKTVIDAMAIFDGHANVVYV-ID 961
Query: 1802 PKAVTNDELFGIINPSTREWKDGLFSCLIREQAQS-TG---DGPKWMVMDGDIDPMWIES 1857
K +T + L+G + +T EW+DGLF+ ++R TG + W+V D D+DP ++E+
Sbjct: 962 TKVLTKESLYGSMLKATLEWRDGLFTSILRRVNDDITGTFKNSRIWVVFDSDLDPEYVEA 1021
Query: 1858 LNTVMDDNKVLTLASNERIALTPSMRLLFEISNLRTATPATVSRAGILYIN 1908
+N+V+DDNK+LTL + ER+ + P+ R+LFE NL TPAT++R G+L+ +
Sbjct: 1022 MNSVLDDNKILTLPNGERLPIPPNFRILFETDNLDHTTPATITRCGLLWFS 1072
Score = 163 bits (412), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 116/442 (26%), Positives = 198/442 (44%), Gaps = 25/442 (5%)
Query: 954 RQKIMTICTIDVHSRDVVAKLILQKIESSGAFMWQSQLRHRWDK-----EVGDCFANICD 1008
++KI + +H +V+ +L + +W ++++ + K ++ F +
Sbjct: 551 KKKIEALLVEYLHFNNVIGQLKNCSTKEEARLLW-AKVQKFYQKNDTLDDLNSVFISQSG 609
Query: 1009 AEFKFDHEYLGCTPRLVITPLTDRCYITLSQSLHLNMXXXXXXXXXXXXXXXXXDLGKAI 1068
++ EY+G RL+ TPL + TL+ SLH G+ +
Sbjct: 610 YLLQYKFEYIGIPERLIYTPLLLIGFATLTDSLHQKYGGCFFGPAGTGKTETVKAFGQNL 669
Query: 1069 GIMVYVFNCSEQMDYRSCGNIYKGLAQTGAWGCFDEFNRIXXXXXXXXXXXXXXXXXXXK 1128
G +V VFNC + DY+ + G+ Q GAWGCFDEFNR+ +
Sbjct: 670 GRVVVVFNCDDSFDYQVLSRLLVGITQIGAWGCFDEFNRLDEKVLSAVSANIQQIQNGLQ 729
Query: 1129 MRKSRFNFMGENIKLVTTVGMFITMNPGYAGRAELPENLKALFRPCAMVVPDFALICEIM 1188
+ KS + E L +FIT+NPGY GR+ELPENLK FR +M P I E++
Sbjct: 730 VGKSHITLLEEETPLSPHTAVFITLNPGYNGRSELPENLKKSFREFSMKSPQSGTIAEMI 789
Query: 1189 LVSEGFQEARLLSRKFITLYSLCKELLSKQDHYDWGLRAIKSVLVVAGSLKNWLN----N 1244
L GF++++ L+ K + L S +HY +GLR +K VL L +
Sbjct: 790 LQIMGFEDSKSLASKIVHFLELLSSKCSSMNHYHFGLRTLKGVLRNCSPLISEFGEGEKT 849
Query: 1245 VTDSMRRTGIHCM--SLAVAAYDEKPREQWLFDYPGQ--TALCGTQIWWTTEVSICFARL 1300
V +S++R + + + + DE + +FD G + Q F+
Sbjct: 850 VVESLKRVILPSLGDTDELVFKDELSK---IFDSAGTPLNSKAIVQCLKDAGQRSGFSMS 906
Query: 1301 EEGYENALKDYNKKQ-----FIIGFAGTGKSCVWKTLYKTYV--NAKKKPMYNDLEPKAV 1353
EE + ++ Y ++ ++G AG GK+ WKT+ + +Y ++ K +
Sbjct: 907 EEFLKKCMQFYYMQKTQQALILVGKAGCGKTATWKTVIDAMAIFDGHANVVYV-IDTKVL 965
Query: 1354 TNDELFGIINPSTREWKDGRYS 1375
T + L+G + +T EW+DG ++
Sbjct: 966 TKESLYGSMLKATLEWRDGLFT 987
Score = 66.2 bits (160), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 43/189 (22%), Positives = 90/189 (47%), Gaps = 1/189 (0%)
Query: 488 VAKRTENTYKVWSTLEFEYDIHARTKTPLLRCSEELIEMLEENQVQLQNMASSKFVGYFQ 547
+ K K W ++E H+ + L+R + L + +E+ +L +M +S + F+
Sbjct: 223 IEKSLNRIKKFWKEAQYEVIEHS-SGLKLVREWDVLEQACKEDLEELVSMKASNYYKIFE 281
Query: 548 KEVNEWQIKLSNADAVISIWIEVQRTWQHLESIFIGSDDIRQQLPEDSRRFDATDKAFRA 607
++ + + KL+ + W+EVQ W L I + DI+ LP ++ +F + ++
Sbjct: 282 QDCLDLESKLTKLSEIQVNWVEVQFYWLDLYGILGENLDIQNFLPLETSKFKSLTSEYKM 341
Query: 608 LAQDMHKTPNVVIGTNKPGLYEKLETIQKDLTKCEKALAQYLETKKLTYPRFYFVSSSDL 667
+ + + + P L+ L + +L+ +LE ++ +PRFYF+ + DL
Sbjct: 342 ITTRAFQLDTTIEVIHIPNFDTTLKLTIDSLKMIKSSLSTFLERQRRQFPRFYFLGNDDL 401
Query: 668 LDILANGNN 676
L I+ +G +
Sbjct: 402 LKIIGSGKH 410
>pdb|3K6S|A Chain A, Structure Of Integrin Alphaxbeta2 Ectodomain
pdb|3K6S|C Chain C, Structure Of Integrin Alphaxbeta2 Ectodomain
pdb|3K6S|E Chain E, Structure Of Integrin Alphaxbeta2 Ectodomain
pdb|3K6S|G Chain G, Structure Of Integrin Alphaxbeta2 Ectodomain
pdb|3K71|A Chain A, Structure Of Integrin Alphax Beta2 Ectodomain
pdb|3K71|C Chain C, Structure Of Integrin Alphax Beta2 Ectodomain
pdb|3K71|E Chain E, Structure Of Integrin Alphax Beta2 Ectodomain
pdb|3K71|G Chain G, Structure Of Integrin Alphax Beta2 Ectodomain
pdb|3K72|A Chain A, Structure Of Integrin Alphax Beta2
pdb|3K72|C Chain C, Structure Of Integrin Alphax Beta2
Length = 1095
Score = 32.3 bits (72), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 30/115 (26%), Positives = 48/115 (41%), Gaps = 7/115 (6%)
Query: 412 LKLTSRVHLVYITDEMCHTDFSNKAPLFRVSFSLEEPDLVFTPTLNFNDEAEEESLCSQL 471
L LT+ V T T F + P+ +++ FT LNF++ E+ES +
Sbjct: 875 LLLTANVSSENNTPRTSKTTFQLELPVKYAVYTVVSSHEQFTKYLNFSESEEKESHVAMH 934
Query: 472 KEIIEDIT--DMGVKIKRVAKRTENTYKVWSTLEFEYDIHARTKTPLLRCSEELI 524
+ + ++ D+ V I N VW +E + + P LRCS E I
Sbjct: 935 RYQVNNLGQRDLPVSINFWVPVELNQEAVWMDVEVSHP-----QNPSLRCSSEKI 984
>pdb|1K9O|I Chain I, Crystal Structure Of Michaelis Serpin-Trypsin Complex
Length = 378
Score = 32.0 bits (71), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 38/68 (55%), Gaps = 5/68 (7%)
Query: 616 PNVVIGTNKPGLYEKLETIQKDLTKCEKALAQYLETKKLTYPRFYFVSSSDLLDILANGN 675
PN V G L +KL+ K L++ E+ L Y ++T P+F +++DL ++L+N N
Sbjct: 238 PNQVDGIT--ALEQKLKD-PKALSRAEERL--YNTEVEITLPKFKIETTTDLKEVLSNMN 292
Query: 676 NPEAFRPG 683
+ F PG
Sbjct: 293 IKKLFTPG 300
>pdb|3CBD|A Chain A, Directed Evolution Of Cytochrome P450 Bm3, To Octane
Monoxygenase 139-3
pdb|3CBD|B Chain B, Directed Evolution Of Cytochrome P450 Bm3, To Octane
Monoxygenase 139-3
Length = 455
Score = 30.8 bits (68), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 33/125 (26%), Positives = 55/125 (44%), Gaps = 16/125 (12%)
Query: 664 SSDLLDILANGNNPEAFRPGKDGKINVKIAQGMYAKDGEYVEFNGDCDCSGQANKASTEM 723
S DLL + NG +PE P DG I+ +I + A G SG + A +
Sbjct: 230 SDDLLTQMLNGKDPETGEPLDDGNISYQIITFLIA---------GHETTSGLLSFALYFL 280
Query: 724 IEMEDVLNKLMEQAALFEINK-PDFKALANARKDLKMAKLIWDYILVIQGWMLDWKETLW 782
++ VL K+ E+A ++ P +K + K LK ++ + L + W +L+
Sbjct: 281 VKNPHVLQKVAEEATRVLVDPVPSYKQV----KQLKYVGMVLNEALRL--WPTAPAFSLY 334
Query: 783 KKIDS 787
K D+
Sbjct: 335 AKEDT 339
>pdb|1JYT|A Chain A, Solution Structure Of Olfactory Marker Protein From Rat
pdb|1ZRI|A Chain A, Noe-Based Solution Structure With Dipolar Coupling
Restraints Of Rat Omp (Olfactory Marker Protein)
Length = 163
Score = 30.8 bits (68), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 30/104 (28%), Positives = 42/104 (40%), Gaps = 18/104 (17%)
Query: 38 DMQEVLDQFLTYGRTLNSDELDTMGKVGEDGLPLLKETPPNNDAFRQKIDQYEALYKTVN 97
DM VLDQ LT L + L G+ +DG LL+ P +R Q + L
Sbjct: 12 DMPLVLDQDLTKQMRLRVESLKQRGEKKQDGEKLLR---PAESVYRLDFIQQQKLQ---- 64
Query: 98 EIEESKVFDEWLLVDLKPFKYSLLNVVCKW----SMLFKKHLMD 137
FD W +V KP K ++ W + L + L+D
Sbjct: 65 -------FDHWNVVLDKPGKVTITGTSQNWTPDLTNLMTRQLLD 101
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
0.320 0.136 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 53,904,593
Number of Sequences: 62578
Number of extensions: 2167245
Number of successful extensions: 5521
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 5451
Number of HSP's gapped (non-prelim): 47
length of query: 1949
length of database: 14,973,337
effective HSP length: 113
effective length of query: 1836
effective length of database: 7,902,023
effective search space: 14508114228
effective search space used: 14508114228
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 59 (27.3 bits)