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= 005055
(716 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1DG3|A Chain A, Structure Of Human Guanylate Binding Protein-1 In
Nucleotide Free Form
pdb|1F5N|A Chain A, Human Guanylate Binding Protein-1 In Complex With The Gtp
Analogue, Gmppnp
Length = 592
Score = 203 bits (516), Expect = 3e-52, Method: Compositional matrix adjust.
Identities = 171/599 (28%), Positives = 295/599 (49%), Gaps = 57/599 (9%)
Query: 36 VTGPARPIRLVYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRS 95
+TGP I + G+ +PEA+ L + +P+ VV++ G R GKS+++N+L G+
Sbjct: 7 MTGPMCLIE----NTNGRLMANPEALKILSAITQPMVVVAIVGLYRTGKSYLMNKLAGKK 62
Query: 96 SGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI-DAYDQTGTYSTQIFSL 154
GF + ST + TKG+W+W P + + L+LLD+EG+ D + IF+L
Sbjct: 63 KGFSLGSTVQSHTKGIWMWCVPHPKKP----GHILVLLDTEGLGDVEKGDNQNDSWIFAL 118
Query: 155 AVLLSSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKTT-----PSELGQFSPIF 209
AVLLSS F+YN +G I++ A+D+L VT++T IR ++S + ++ F P F
Sbjct: 119 AVLLSSTFVYNSIGTINQQAMDQLYYVTELTHRIRSKSSPDENENEVEDSADFVSFFPDF 178
Query: 210 VWLLRDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTL 269
VW LRDF LDL D + +TP +YL +L+ +G+ + N R IR FP ++CF
Sbjct: 179 VWTLRDFSLDLEADGQPLTPDEYLTYSLKLKKGTSQKDETFNLPRLCIRKFFPKKKCFVF 238
Query: 270 VRPLSNENELQRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQV-GATVLTGPVLIGIT 328
RP+ + +L +L+++ + L PEF + ++F ++ K + G + GP L +
Sbjct: 239 DRPV-HRRKLAQLEKLQDEELDPEFVQQVADFCSYIFSNSKTKTLSGGIQVNGPRLESLV 297
Query: 329 ESYLDAINNGAVPTISSSWQSVEEAECRRAYDSATETYMSTFDRSK--PPEEVA-LGEAH 385
+Y++AI++G +P + ++ ++ + E A A Y + P E + L + H
Sbjct: 298 LTYVNAISSGDLPCMENAVLALAQIENSAAVQKAIAHYEQQMGQKVQLPTESLQELLDLH 357
Query: 386 EAAVQKALAVYNAGAVGVGLARKKYEGLLQKFFRKAFEDH-----KKNVYMEADIRCSSA 440
+ ++A+ V+ + + K + L QK E K+N +D RCS
Sbjct: 358 RDSEREAIEVF------IRSSFKDVDHLFQKELAAQLEKKRDDFCKQNQEASSD-RCSGL 410
Query: 441 IQ----SMERKLRAACHSSDASIDNVVKVLDGLISE-YETSCHGPGKWQKLATFL--QQS 493
+Q +E +++A +S V+ L L + YE G + L T+L ++S
Sbjct: 411 LQVIFSPLEEEVKAGIYSKPGGYRLFVQKLQDLKKKYYEEPRKGIQAEEILQTYLKSKES 470
Query: 494 SEGPILDLVKRLID---QIGSERSSLMLKYRSIEDNMKLL-------KKQLEDSERYKSE 543
IL + L + +I ER +K S + + K+L ++ +E ER E
Sbjct: 471 MTDAILQTDQTLTEKEKEIEVER----VKAESAQASAKMLHEMQRKNEQMMEQKERSYQE 526
Query: 544 YLKRYDDAI-NDKKKLADDYTSRIN-NLQGENISLREKSSSLSKTVDSLKNEISDWKRK 600
+LK+ + + ND+ +L + + LQ + L+E K +KNEI D + K
Sbjct: 527 HLKQLTEKMENDRVQLLKEQERTLALKLQEQEQLLKE---GFQKESRIMKNEIQDLQTK 582
>pdb|2B8W|A Chain A, Crystal-Structure Of The N-Terminal Large Gtpase Domain Of
Human Guanylate Binding Protein 1 (Hgbp1) In Complex
With GmpALF4
pdb|2B8W|B Chain B, Crystal-Structure Of The N-Terminal Large Gtpase Domain Of
Human Guanylate Binding Protein 1 (Hgbp1) In Complex
With GmpALF4
pdb|2B92|A Chain A, Crystal-Structure Of The N-Terminal Large Gtpase Domain Of
Human Guanylate Binding Protein 1 (Hgbp1) In Complex
With GdpALF3
pdb|2B92|B Chain B, Crystal-Structure Of The N-Terminal Large Gtpase Domain Of
Human Guanylate Binding Protein 1 (Hgbp1) In Complex
With GdpALF3
pdb|2BC9|A Chain A, Crystal-Structure Of The N-Terminal Large Gtpase Domain Of
Human Guanylate Binding Protein 1 (Hgbp1) In Complex
With Non-Hydrolysable Gtp Analogue Gppnhp
pdb|2D4H|A Chain A, Crystal-Structure Of The N-Terminal Large Gtpase Domain Of
Human Guanylate Binding Protein 1 (Hgbp1) In Complex
With Gmp
pdb|2D4H|B Chain B, Crystal-Structure Of The N-Terminal Large Gtpase Domain Of
Human Guanylate Binding Protein 1 (Hgbp1) In Complex
With Gmp
Length = 328
Score = 188 bits (477), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 106/318 (33%), Positives = 180/318 (56%), Gaps = 16/318 (5%)
Query: 36 VTGPARPIRLVYCDEKGKFRMDPEAVAALQLVKEPIGVVSVCGRARQGKSFILNQLLGRS 95
+TGP I + G+ +PEA+ L + +P+ VV++ G R GKS+++N+L G+
Sbjct: 18 MTGPMCLIE----NTNGRLMANPEALKILSAITQPMVVVAIVGLYRTGKSYLMNKLAGKK 73
Query: 96 SGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGI-DAYDQTGTYSTQIFSL 154
GF + ST + TKG+W+W P + + L+LLD+EG+ D + IF+L
Sbjct: 74 KGFSLGSTVQSHTKGIWMWCVPHPKKP----GHILVLLDTEGLGDVEKGDNQNDSWIFAL 129
Query: 155 AVLLSSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKT-----TPSELGQFSPIF 209
AVLLSS F+YN +G I++ A+D+L VT++T IR ++S + ++ F P F
Sbjct: 130 AVLLSSTFVYNSIGTINQQAMDQLYYVTELTHRIRSKSSPDENENEVEDSADFVSFFPDF 189
Query: 210 VWLLRDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTL 269
VW LRDF LDL D + +TP +YL +L+ +G+ + N R IR FP ++CF
Sbjct: 190 VWTLRDFSLDLEADGQPLTPDEYLTYSLKLKKGTSQKDETFNLPRLCIRKFFPKKKCFVF 249
Query: 270 VRPLSNENELQRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQV-GATVLTGPVLIGIT 328
RP+ + +L +L+++ + L PEF + ++F ++ K + G + GP L +
Sbjct: 250 DRPV-HRRKLAQLEKLQDEELDPEFVQQVADFCSYIFSNSKTKTLSGGIQVNGPRLESLV 308
Query: 329 ESYLDAINNGAVPTISSS 346
+Y++AI++G +P + ++
Sbjct: 309 LTYVNAISSGDLPCMENA 326
>pdb|4IDN|A Chain A, Human Atlastin-1 1-446, C-his6, Gppnhp
pdb|4IDN|B Chain B, Human Atlastin-1 1-446, C-his6, Gppnhp
pdb|4IDO|A Chain A, Human Atlastin-1 1-446, C-his6, Gdpalf4-
pdb|4IDO|B Chain B, Human Atlastin-1 1-446, C-his6, Gdpalf4-
Length = 457
Score = 66.6 bits (161), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 86/372 (23%), Positives = 150/372 (40%), Gaps = 53/372 (14%)
Query: 40 ARPIRLVYCDEKGKFRMDPEAVAALQLVK----EPIGVVSVCGRARQGKSFILNQLL--- 92
A P++++ + F +D A+ + L + + + VSV G R+GKSF+++ +L
Sbjct: 32 AGPVQVLIVKDDHSFELDETALNRILLSEAVRDKEVVAVSVAGAFRKGKSFLMDFMLRYM 91
Query: 93 -GRSSGFQVASTHRPCTKGLW------------LWSAPLKRTALDGTEYNLLLLDSEGID 139
+ S V + P T W +WS DG + +LL+D++G
Sbjct: 92 YNQESVDWVGDYNEPLTGFSWRGGSERETTGIQIWSEIFLINKPDGKKVAVLLMDTQGTF 151
Query: 140 AYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKTTP 199
T S +F+L+ ++SS+ +YN + E + L L T+ G+
Sbjct: 152 DSQSTLRDSATVFALSTMISSIQVYNLSQNVQEDDLQHLQLFTEY----------GRLAM 201
Query: 200 SE--LGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSI 257
E L F + ++L+RD+ +LE L+ SG +R I
Sbjct: 202 EETFLKPFQSL-IFLVRDWSFPYEFSYGADGGAKFLEKRLKV---SGNQHEELQNVRKHI 257
Query: 258 RALFPDRECFTLVRP----LSNENELQRLDQISLDRLRPEFRAGLDALTKFVF--ERTRP 311
+ F + CF L P +N N +L +I EF L L ++ E
Sbjct: 258 HSCFTNISCFLLPHPGLKVATNPNFDGKLKEID-----DEFIKNLKILIPWLLSPESLDI 312
Query: 312 KQVGATVLTGPVLIGITESYLDAINNGAVPTISSSWQSVEEAECRRAYDSATETYMSTFD 371
K++ +T L+ ++Y+ +P S Q+ EA A +A +TY
Sbjct: 313 KEINGNKITCRGLVEYFKAYIKIYQGEELPHPKSMLQATAEANNLAAVATAKDTY----- 367
Query: 372 RSKPPEEVALGE 383
+K EE+ G+
Sbjct: 368 -NKKMEEICGGD 378
>pdb|3QNU|A Chain A, Crystal Structure Of The Cytosolic Domain Of Human
Atlastin-1 In Complex With Gdp, Hexagonal Form
pdb|3QOF|A Chain A, Crystal Structure Of The Cytosolic Domain Of Human
Atlastin-1 In Complex With Gdp, Orthorhombic Form
pdb|3QOF|B Chain B, Crystal Structure Of The Cytosolic Domain Of Human
Atlastin-1 In Complex With Gdp, Orthorhombic Form
pdb|3QOF|C Chain C, Crystal Structure Of The Cytosolic Domain Of Human
Atlastin-1 In Complex With Gdp, Orthorhombic Form
pdb|3QOF|D Chain D, Crystal Structure Of The Cytosolic Domain Of Human
Atlastin-1 In Complex With Gdp, Orthorhombic Form
Length = 459
Score = 66.6 bits (161), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 86/372 (23%), Positives = 151/372 (40%), Gaps = 53/372 (14%)
Query: 40 ARPIRLVYCDEKGKFRMDPEAVAALQLVK----EPIGVVSVCGRARQGKSFILNQLL--- 92
A P++++ + F +D A+ + L + + + VSV G R+GKSF+++ +L
Sbjct: 44 AGPVQVLIVKDDHSFELDETALNRILLSEAVRDKEVVAVSVAGAFRKGKSFLMDFMLRYM 103
Query: 93 -GRSSGFQVASTHRPCT------------KGLWLWSAPLKRTALDGTEYNLLLLDSEGID 139
+ S V + P T G+ +WS DG + +LL+D++G
Sbjct: 104 YNQESVDWVGDYNEPLTGFSWRGGSERETTGIQIWSEIFLINKPDGKKVAVLLMDTQGTF 163
Query: 140 AYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKTTP 199
T S +F+L+ ++SS+ +YN + E + L L T+ G+
Sbjct: 164 DSQSTLRDSATVFALSTMISSIQVYNLSQNVQEDDLQHLQLFTEY----------GRLAM 213
Query: 200 SE--LGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSI 257
E L F + ++L+RD+ +LE L+ SG +R I
Sbjct: 214 EETFLKPFQSL-IFLVRDWSFPYEFSYGADGGAKFLEKRLKV---SGNQHEELQNVRKHI 269
Query: 258 RALFPDRECFTLVRP----LSNENELQRLDQISLDRLRPEFRAGLDALTKFVF--ERTRP 311
+ F + CF L P +N N +L +I EF L L ++ E
Sbjct: 270 HSCFTNISCFLLPHPGLKVATNPNFDGKLKEID-----DEFIKNLKILIPWLLSPESLDI 324
Query: 312 KQVGATVLTGPVLIGITESYLDAINNGAVPTISSSWQSVEEAECRRAYDSATETYMSTFD 371
K++ +T L+ ++Y+ +P S Q+ EA A +A +TY
Sbjct: 325 KEINGNKITCRGLVEYFKAYIKIYQGEELPHPKSMLQATAEANNLAAVATAKDTY----- 379
Query: 372 RSKPPEEVALGE 383
+K EE+ G+
Sbjct: 380 -NKKMEEICGGD 390
>pdb|3Q5E|A Chain A, Crystal Structure Of Human Atlastin-1 (Residues 1-447)
Bound To Gdp, Crystal Form 2
pdb|3Q5E|C Chain C, Crystal Structure Of Human Atlastin-1 (Residues 1-447)
Bound To Gdp, Crystal Form 2
pdb|3Q5E|E Chain E, Crystal Structure Of Human Atlastin-1 (Residues 1-447)
Bound To Gdp, Crystal Form 2
pdb|3Q5E|G Chain G, Crystal Structure Of Human Atlastin-1 (Residues 1-447)
Bound To Gdp, Crystal Form 2
Length = 447
Score = 66.2 bits (160), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 86/372 (23%), Positives = 151/372 (40%), Gaps = 53/372 (14%)
Query: 40 ARPIRLVYCDEKGKFRMDPEAVAALQLVK----EPIGVVSVCGRARQGKSFILNQLL--- 92
A P++++ + F +D A+ + L + + + VSV G R+GKSF+++ +L
Sbjct: 32 AGPVQVLIVKDDHSFELDETALNRILLSEAVRDKEVVAVSVAGAFRKGKSFLMDFMLRYM 91
Query: 93 -GRSSGFQVASTHRPCT------------KGLWLWSAPLKRTALDGTEYNLLLLDSEGID 139
+ S V + P T G+ +WS DG + +LL+D++G
Sbjct: 92 YNQESVDWVGDYNEPLTGFSWRGGSERETTGIQIWSEIFLINKPDGKKVAVLLMDTQGTF 151
Query: 140 AYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKTTP 199
T S +F+L+ ++SS+ +YN + E + L L T+ G+
Sbjct: 152 DSQSTLRDSATVFALSTMISSIQVYNLSQNVQEDDLQHLQLFTEY----------GRLAM 201
Query: 200 SE--LGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSI 257
E L F + ++L+RD+ +LE L+ SG +R I
Sbjct: 202 EETFLKPFQSL-IFLVRDWSFPYEFSYGADGGAKFLEKRLKV---SGNQHEELQNVRKHI 257
Query: 258 RALFPDRECFTLVRP----LSNENELQRLDQISLDRLRPEFRAGLDALTKFVF--ERTRP 311
+ F + CF L P +N N +L +I EF L L ++ E
Sbjct: 258 HSCFTNISCFLLPHPGLKVATNPNFDGKLKEID-----DEFIKNLKILIPWLLSPESLDI 312
Query: 312 KQVGATVLTGPVLIGITESYLDAINNGAVPTISSSWQSVEEAECRRAYDSATETYMSTFD 371
K++ +T L+ ++Y+ +P S Q+ EA A +A +TY
Sbjct: 313 KEINGNKITCRGLVEYFKAYIKIYQGEELPHPKSMLQATAEANNLAAVATAKDTY----- 367
Query: 372 RSKPPEEVALGE 383
+K EE+ G+
Sbjct: 368 -NKKMEEICGGD 378
>pdb|4IDQ|A Chain A, Human Atlastin-1 1-446, N440t, Gdpalf4-
pdb|4IDQ|B Chain B, Human Atlastin-1 1-446, N440t, Gdpalf4-
pdb|4IDQ|C Chain C, Human Atlastin-1 1-446, N440t, Gdpalf4-
pdb|4IDQ|D Chain D, Human Atlastin-1 1-446, N440t, Gdpalf4-
Length = 447
Score = 66.2 bits (160), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 86/372 (23%), Positives = 151/372 (40%), Gaps = 53/372 (14%)
Query: 40 ARPIRLVYCDEKGKFRMDPEAVAALQLVK----EPIGVVSVCGRARQGKSFILNQLL--- 92
A P++++ + F +D A+ + L + + + VSV G R+GKSF+++ +L
Sbjct: 33 AGPVQVLIVKDDHSFELDETALNRILLSEAVRDKEVVAVSVAGAFRKGKSFLMDFMLRYM 92
Query: 93 -GRSSGFQVASTHRPCT------------KGLWLWSAPLKRTALDGTEYNLLLLDSEGID 139
+ S V + P T G+ +WS DG + +LL+D++G
Sbjct: 93 YNQESVDWVGDYNEPLTGFSWRGGSERETTGIQIWSEIFLINKPDGKKVAVLLMDTQGTF 152
Query: 140 AYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKTTP 199
T S +F+L+ ++SS+ +YN + E + L L T+ G+
Sbjct: 153 DSQSTLRDSATVFALSTMISSIQVYNLSQNVQEDDLQHLQLFTEY----------GRLAM 202
Query: 200 SE--LGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSI 257
E L F + ++L+RD+ +LE L+ SG +R I
Sbjct: 203 EETFLKPFQSL-IFLVRDWSFPYEFSYGADGGAKFLEKRLKV---SGNQHEELQNVRKHI 258
Query: 258 RALFPDRECFTLVRP----LSNENELQRLDQISLDRLRPEFRAGLDALTKFVF--ERTRP 311
+ F + CF L P +N N +L +I EF L L ++ E
Sbjct: 259 HSCFTNISCFLLPHPGLKVATNPNFDGKLKEID-----DEFIKNLKILIPWLLSPESLDI 313
Query: 312 KQVGATVLTGPVLIGITESYLDAINNGAVPTISSSWQSVEEAECRRAYDSATETYMSTFD 371
K++ +T L+ ++Y+ +P S Q+ EA A +A +TY
Sbjct: 314 KEINGNKITCRGLVEYFKAYIKIYQGEELPHPKSMLQATAEANNLAAVATAKDTY----- 368
Query: 372 RSKPPEEVALGE 383
+K EE+ G+
Sbjct: 369 -NKKMEEICGGD 379
>pdb|3Q5D|A Chain A, Crystal Structure Of Human Atlastin-1 (Residues 1-447)
Bound To Gdp, Crystal Form 1
Length = 447
Score = 62.0 bits (149), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 85/372 (22%), Positives = 145/372 (38%), Gaps = 53/372 (14%)
Query: 40 ARPIRLVYCDEKGKFRMDPEAVAALQLVK----EPIGVVSVCGRARQGKSFILNQLLGRS 95
A P++++ + F +D A+ + L + + + VSV G R+GKSF+ + L
Sbjct: 32 AGPVQVLIVKDDHSFELDETALNRILLSEAVRDKEVVAVSVAGAFRKGKSFLXDFXLRYX 91
Query: 96 ----------------SGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID 139
+GF T G+ +WS DG + +LL D++G
Sbjct: 92 YNQESVDWVGDYNEPLTGFSWRGGSERETTGIQIWSEIFLINKPDGKKVAVLLXDTQGTF 151
Query: 140 AYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKTTP 199
T S +F+L+ +SS+ +YN + E + L L T+ G+
Sbjct: 152 DSQSTLRDSATVFALSTXISSIQVYNLSQNVQEDDLQHLQLFTEY----------GRLAX 201
Query: 200 SE--LGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSI 257
E L F + ++L+RD+ +LE L+ SG +R I
Sbjct: 202 EETFLKPFQSL-IFLVRDWSFPYEFSYGADGGAKFLEKRLKV---SGNQHEELQNVRKHI 257
Query: 258 RALFPDRECFTLVRP----LSNENELQRLDQISLDRLRPEFRAGLDALTKFVF--ERTRP 311
+ F + CF L P +N N +L +I EF L L ++ E
Sbjct: 258 HSCFTNISCFLLPHPGLKVATNPNFDGKLKEID-----DEFIKNLKILIPWLLSPESLDI 312
Query: 312 KQVGATVLTGPVLIGITESYLDAINNGAVPTISSSWQSVEEAECRRAYDSATETYMSTFD 371
K++ +T L+ ++Y+ +P S Q+ EA A +A +TY
Sbjct: 313 KEINGNKITCRGLVEYFKAYIKIYQGEELPHPKSXLQATAEANNLAAVATAKDTY----- 367
Query: 372 RSKPPEEVALGE 383
+K EE+ G+
Sbjct: 368 -NKKXEEICGGD 378
>pdb|4IDP|A Chain A, Human Atlastin-1 1-446, N440t, Gppnhp
pdb|4IDP|B Chain B, Human Atlastin-1 1-446, N440t, Gppnhp
pdb|4IDP|C Chain C, Human Atlastin-1 1-446, N440t, Gppnhp
pdb|4IDP|D Chain D, Human Atlastin-1 1-446, N440t, Gppnhp
Length = 447
Score = 62.0 bits (149), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 85/372 (22%), Positives = 145/372 (38%), Gaps = 53/372 (14%)
Query: 40 ARPIRLVYCDEKGKFRMDPEAVAALQLVK----EPIGVVSVCGRARQGKSFILNQLLGRS 95
A P++++ + F +D A+ + L + + + VSV G R+GKSF+ + L
Sbjct: 33 AGPVQVLIVKDDHSFELDETALNRILLSEAVRDKEVVAVSVAGAFRKGKSFLXDFXLRYX 92
Query: 96 ----------------SGFQVASTHRPCTKGLWLWSAPLKRTALDGTEYNLLLLDSEGID 139
+GF T G+ +WS DG + +LL D++G
Sbjct: 93 YNQESVDWVGDYNEPLTGFSWRGGSERETTGIQIWSEIFLINKPDGKKVAVLLXDTQGTF 152
Query: 140 AYDQTGTYSTQIFSLAVLLSSMFIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKTTP 199
T S +F+L+ +SS+ +YN + E + L L T+ G+
Sbjct: 153 DSQSTLRDSATVFALSTXISSIQVYNLSQNVQEDDLQHLQLFTEY----------GRLAX 202
Query: 200 SE--LGQFSPIFVWLLRDFYLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSI 257
E L F + ++L+RD+ +LE L+ SG +R I
Sbjct: 203 EETFLKPFQSL-IFLVRDWSFPYEFSYGADGGAKFLEKRLKV---SGNQHEELQNVRKHI 258
Query: 258 RALFPDRECFTLVRP----LSNENELQRLDQISLDRLRPEFRAGLDALTKFVF--ERTRP 311
+ F + CF L P +N N +L +I EF L L ++ E
Sbjct: 259 HSCFTNISCFLLPHPGLKVATNPNFDGKLKEID-----DEFIKNLKILIPWLLSPESLDI 313
Query: 312 KQVGATVLTGPVLIGITESYLDAINNGAVPTISSSWQSVEEAECRRAYDSATETYMSTFD 371
K++ +T L+ ++Y+ +P S Q+ EA A +A +TY
Sbjct: 314 KEINGNKITCRGLVEYFKAYIKIYQGEELPHPKSXLQATAEANNLAAVATAKDTY----- 368
Query: 372 RSKPPEEVALGE 383
+K EE+ G+
Sbjct: 369 -NKKXEEICGGD 379
>pdb|4GF2|A Chain A, Crystal Structure Of Plasmodium Falciparum Erythrocyte
Binding Antigen 140 (Pfeba-140BAEBL)
Length = 615
Score = 35.0 bits (79), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 43/160 (26%), Positives = 73/160 (45%), Gaps = 16/160 (10%)
Query: 456 DASIDNVVKVLDGLISEYETSCHGPGKWQKLATFLQQSSEGPILDLVKRLIDQIGS-ERS 514
D + +NV KV+ ++ ET C K+QK+ FL+ E D ++ ++I S E
Sbjct: 447 DENKENVWKVMSAVLKNKET-CKDYDKFQKIPQFLRWFKEWGD-DFCEKRKEKIYSFESF 504
Query: 515 SLMLKYRSIEDNMKLLKKQLEDSERY----KSEYLKRYDDAINDKKKLADDYTSRINNLQ 570
+ K + ++N K + + +++ KSEY K+ D DK K D + N +
Sbjct: 505 KVECKKKDCDENT--CKNKCSEYKKWIDLKKSEYEKQVDKYTKDKNKKMYDNIDEVKNKE 562
Query: 571 GENISLREKSSSL------SKTVDSLKNEISDWKRKYDQV 604
N+ L+EKS K + NE D +K D++
Sbjct: 563 A-NVYLKEKSKECKDVNFDDKIFNEAPNEYEDMCKKCDEI 601
>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 = 29.6 bits (65), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 21/33 (63%), Gaps = 2/33 (6%)
Query: 574 ISLREKSSSLSKTVDSLKNEISDWKRKY--DQV 604
I LR++ S SK VD ++ SDWK+ + DQV
Sbjct: 2536 ICLRQQVPSFSKLVDHIQQNSSDWKQFFGKDQV 2568
>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 = 29.6 bits (65), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 21/33 (63%), Gaps = 2/33 (6%)
Query: 574 ISLREKSSSLSKTVDSLKNEISDWKRKY--DQV 604
I LR++ S SK VD ++ SDWK+ + DQV
Sbjct: 2658 ICLRQQVPSFSKLVDHIQQNSSDWKQFFGKDQV 2690
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
0.316 0.132 0.372
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,273,107
Number of Sequences: 62578
Number of extensions: 706832
Number of successful extensions: 2315
Number of sequences better than 100.0: 44
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 35
Number of HSP's that attempted gapping in prelim test: 2268
Number of HSP's gapped (non-prelim): 67
length of query: 716
length of database: 14,973,337
effective HSP length: 106
effective length of query: 610
effective length of database: 8,340,069
effective search space: 5087442090
effective search space used: 5087442090
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 55 (25.8 bits)