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= psy10797
(517 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2E7S|A Chain A, Crystal Structure Of The Yeast Sec2p Gef Domain
pdb|2E7S|B Chain B, Crystal Structure Of The Yeast Sec2p Gef Domain
pdb|2E7S|C Chain C, Crystal Structure Of The Yeast Sec2p Gef Domain
pdb|2E7S|D Chain D, Crystal Structure Of The Yeast Sec2p Gef Domain
pdb|2E7S|E Chain E, Crystal Structure Of The Yeast Sec2p Gef Domain
pdb|2E7S|F Chain F, Crystal Structure Of The Yeast Sec2p Gef Domain
pdb|2E7S|G Chain G, Crystal Structure Of The Yeast Sec2p Gef Domain
pdb|2E7S|H Chain H, Crystal Structure Of The Yeast Sec2p Gef Domain
pdb|2E7S|I Chain I, Crystal Structure Of The Yeast Sec2p Gef Domain
pdb|2E7S|J Chain J, Crystal Structure Of The Yeast Sec2p Gef Domain
pdb|2E7S|K Chain K, Crystal Structure Of The Yeast Sec2p Gef Domain
pdb|2E7S|L Chain L, Crystal Structure Of The Yeast Sec2p Gef Domain
pdb|2E7S|M Chain M, Crystal Structure Of The Yeast Sec2p Gef Domain
pdb|2E7S|N Chain N, Crystal Structure Of The Yeast Sec2p Gef Domain
pdb|2E7S|O Chain O, Crystal Structure Of The Yeast Sec2p Gef Domain
pdb|2E7S|P Chain P, Crystal Structure Of The Yeast Sec2p Gef Domain
pdb|2E7S|Q Chain Q, Crystal Structure Of The Yeast Sec2p Gef Domain
pdb|2E7S|R Chain R, Crystal Structure Of The Yeast Sec2p Gef Domain
pdb|2E7S|S Chain S, Crystal Structure Of The Yeast Sec2p Gef Domain
pdb|2E7S|T Chain T, Crystal Structure Of The Yeast Sec2p Gef Domain
Length = 135
Score = 33.1 bits (74), Expect = 0.40, Method: Composition-based stats.
Identities = 22/80 (27%), Positives = 41/80 (51%), Gaps = 8/80 (10%)
Query: 311 QLQKQVATHKQEEEALLNEMEVTGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQ 370
QL K + T ++ A+ N + ++E + L ++L ++DD +L + K N+
Sbjct: 9 QLNKSLKTIASQKAAIEN--------YNQLKEDYNTLKRELSDRDDEVKRLREDIAKENE 60
Query: 371 LHKLAREEKDTLREQVQALS 390
L A EE D L ++V+ L+
Sbjct: 61 LRTKAEEEADKLNKEVEDLT 80
>pdb|3JSV|C Chain C, Crystal Structure Of Mouse Nemo Cozi In Complex With
Lys63- Linked Di-Ubiquitin
pdb|3JSV|D Chain D, Crystal Structure Of Mouse Nemo Cozi In Complex With
Lys63- Linked Di-Ubiquitin
Length = 94
Score = 33.1 bits (74), Expect = 0.40, Method: Composition-based stats.
Identities = 25/89 (28%), Positives = 41/89 (46%), Gaps = 4/89 (4%)
Query: 334 GQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDTLREQVQALSLQI 393
G ED+++Q LQQ E A +L+ + + + HK+ E L+ Q
Sbjct: 1 GMQLEDLRQQ----LQQAEEALVAKQELIDKLKEEAEQHKIVMETVPVLKAQADIYKADF 56
Query: 394 EAMHTAIRKLEEKERFLQTVLTNAEKELH 422
+A A KL EK+ +LQ L ++E +
Sbjct: 57 QAERHAREKLVEKKEYLQEQLEQLQREFN 85
>pdb|2EQB|B Chain B, Crystal Structure Of The Rab Gtpase Sec4p, The Sec2p Gef
Domain, And Phosphate Complex
pdb|2EQB|C Chain C, Crystal Structure Of The Rab Gtpase Sec4p, The Sec2p Gef
Domain, And Phosphate Complex
Length = 97
Score = 32.7 bits (73), Expect = 0.48, Method: Composition-based stats.
Identities = 17/57 (29%), Positives = 32/57 (56%)
Query: 334 GQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDTLREQVQALS 390
G + ++E + L ++L ++DD +L + K N+L A EE D L ++V+ L+
Sbjct: 4 GSNYNQLKEDYNTLKRELSDRDDEVKRLREDIAKENELRTKAEEEADKLNKEVEDLT 60
>pdb|3F89|A Chain A, Nemo Cozi Domain
pdb|3F89|B Chain B, Nemo Cozi Domain
Length = 92
Score = 32.3 bits (72), Expect = 0.66, Method: Composition-based stats.
Identities = 24/90 (26%), Positives = 41/90 (45%), Gaps = 4/90 (4%)
Query: 333 TGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDTLREQVQALSLQ 392
+G ED+++Q LQQ E A +L+ + + + H + E L+ Q
Sbjct: 2 SGMQLEDLRQQ----LQQAEEALVAKQELIDKLKEEAEQHNIVMETVPVLKAQADIYKAD 57
Query: 393 IEAMHTAIRKLEEKERFLQTVLTNAEKELH 422
+A A KL EK+ +LQ L ++E +
Sbjct: 58 FQAERHAREKLVEKKEYLQEQLEQLQREFN 87
>pdb|2V4H|A Chain A, Nemo Cc2-Lz Domain - 1d5 Darpin Complex
pdb|2V4H|B Chain B, Nemo Cc2-Lz Domain - 1d5 Darpin Complex
Length = 110
Score = 32.0 bits (71), Expect = 0.87, Method: Composition-based stats.
Identities = 24/86 (27%), Positives = 40/86 (46%), Gaps = 4/86 (4%)
Query: 337 FEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDTLREQVQALSLQIEAM 396
ED+++Q LQQ E A +L+ + + + HK+ E L+ Q +A
Sbjct: 26 LEDLRQQ----LQQAEEALVAKQELIDKLKEEAEQHKIVMETVPVLKAQADIYKADFQAE 81
Query: 397 HTAIRKLEEKERFLQTVLTNAEKELH 422
A KL EK+ +LQ L ++E +
Sbjct: 82 RHAREKLVEKKEYLQEQLEQLQREFN 107
>pdb|2ZVN|B Chain B, Nemo Cozi Domain Incomplex With Diubiquitin In P212121
Space Group
pdb|2ZVN|D Chain D, Nemo Cozi Domain Incomplex With Diubiquitin In P212121
Space Group
pdb|2ZVN|F Chain F, Nemo Cozi Domain Incomplex With Diubiquitin In P212121
Space Group
pdb|2ZVN|H Chain H, Nemo Cozi Domain Incomplex With Diubiquitin In P212121
Space Group
Length = 87
Score = 31.6 bits (70), Expect = 1.2, Method: Composition-based stats.
Identities = 24/87 (27%), Positives = 41/87 (47%), Gaps = 4/87 (4%)
Query: 336 AFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDTLREQVQALSLQIEA 395
+ ED+++Q LQQ E A +L+ + + + HK+ E L+ Q +A
Sbjct: 2 SLEDLRQQ----LQQAEEALVAKQELIDKLKEEAEQHKIVMETVPVLKAQADIYKADFQA 57
Query: 396 MHTAIRKLEEKERFLQTVLTNAEKELH 422
A KL EK+ +LQ L ++E +
Sbjct: 58 ERHAREKLVEKKEYLQEQLEQLQREFN 84
>pdb|2ZVO|B Chain B, Nemo Cozi Domain In Complex With Diubiquitin In C2 Space
Group
pdb|2ZVO|D Chain D, Nemo Cozi Domain In Complex With Diubiquitin In C2 Space
Group
Length = 92
Score = 31.2 bits (69), Expect = 1.4, Method: Composition-based stats.
Identities = 24/90 (26%), Positives = 40/90 (44%), Gaps = 4/90 (4%)
Query: 333 TGQAFEDMQEQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDTLREQVQALSLQ 392
+G ED+++Q LQQ E A +L+ + + H + E L+ Q
Sbjct: 2 SGMQLEDLRQQ----LQQAEEALVAKQELIDKLKEEAAQHAIVMETVPVLKAQADIYKAD 57
Query: 393 IEAMHTAIRKLEEKERFLQTVLTNAEKELH 422
+A A KL EK+ +LQ L ++E +
Sbjct: 58 FQAERHAREKLVEKKEYLQEQLEQLQREFN 87
>pdb|3UT5|E Chain E, Tubulin-colchicine-ustiloxin: Stathmin-like Domain Complex
pdb|4EB6|E Chain E, Tubulin-vinblastine: Stathmin-like Complex
Length = 142
Score = 29.6 bits (65), Expect = 4.5, Method: Composition-based stats.
Identities = 24/104 (23%), Positives = 48/104 (46%), Gaps = 5/104 (4%)
Query: 283 RDSKRDE-RKKLADEEAMRKIKQLEDQTHQLQKQVATHKQEEEALLNEMEVTGQAFEDMQ 341
RD +E +KKL E RK ++ E H +K+ + E E + +E + +
Sbjct: 40 RDPSLEEIQKKLEAAEERRKYQEAELLKHLAEKR----EHEREVIQKAIEENNNFIKMAK 95
Query: 342 EQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDTLREQ 385
E+ ++ ++ +E +A+ M ER++ H + L+E+
Sbjct: 96 EKLAQKMESNKENREAHLAAMLERLQEKDKHAEEVRKNKELKEE 139
>pdb|3RYC|E Chain E, Tubulin: Rb3 Stathmin-Like Domain Complex
pdb|3RYF|E Chain E, Gtp-Tubulin: Rb3 Stathmin-Like Domain Complex
pdb|3RYH|E Chain E, Gmpcpp-Tubulin: Rb3 Stathmin-Like Domain Complex
pdb|3RYI|E Chain E, Gdp-Tubulin: Rb3 Stathmin-Like Domain Complex
Length = 143
Score = 29.6 bits (65), Expect = 4.5, Method: Composition-based stats.
Identities = 24/104 (23%), Positives = 48/104 (46%), Gaps = 5/104 (4%)
Query: 283 RDSKRDE-RKKLADEEAMRKIKQLEDQTHQLQKQVATHKQEEEALLNEMEVTGQAFEDMQ 341
RD +E +KKL E RK ++ E H +K+ + E E + +E + +
Sbjct: 41 RDPSLEEIQKKLEAAEERRKYQEAELLKHLAEKR----EHEREVIQKAIEENNNFIKMAK 96
Query: 342 EQNSRLLQQLREKDDANFKLMTERIKSNQLHKLAREEKDTLREQ 385
E+ ++ ++ +E +A+ M ER++ H + L+E+
Sbjct: 97 EKLAQKMESNKENREAHLAAMLERLQEKDKHAEEVRKNKELKEE 140
>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 = 28.9 bits (63), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 5/78 (6%)
Query: 369 NQLHKLAREEKDTLREQVQALSLQIEAMHTAIRKLEEKERFLQTVLTNAEKELHLRNQAM 428
NQ+ L E++D L E+ L++ ++ + R E + + LQ L +EL ++N+
Sbjct: 1902 NQVVLLINEKRDQLEEEQLHLNIGLKKL----RDTEAQVKDLQVSLAQKNRELDVKNEQA 1957
Query: 429 DLNKRKAIESAQSAADLK 446
+ K K + Q AA++K
Sbjct: 1958 N-QKLKQMVQDQQAAEIK 1974
>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 = 28.9 bits (63), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 5/78 (6%)
Query: 369 NQLHKLAREEKDTLREQVQALSLQIEAMHTAIRKLEEKERFLQTVLTNAEKELHLRNQAM 428
NQ+ L E++D L E+ L++ ++ + R E + + LQ L +EL ++N+
Sbjct: 1902 NQVVLLINEKRDQLEEEQLHLNIGLKKL----RDTEAQVKDLQVSLAQKNRELDVKNEQA 1957
Query: 429 DLNKRKAIESAQSAADLK 446
+ K K + Q AA++K
Sbjct: 1958 N-QKLKQMVQDQQAAEIK 1974
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
0.324 0.134 0.389
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,323,970
Number of Sequences: 62578
Number of extensions: 436662
Number of successful extensions: 2050
Number of sequences better than 100.0: 58
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 42
Number of HSP's that attempted gapping in prelim test: 1988
Number of HSP's gapped (non-prelim): 87
length of query: 517
length of database: 14,973,337
effective HSP length: 103
effective length of query: 414
effective length of database: 8,527,803
effective search space: 3530510442
effective search space used: 3530510442
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 54 (25.4 bits)