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= psy2476
(151 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1K8K|G Chain G, Crystal Structure Of Arp23 COMPLEX
pdb|1TYQ|G Chain G, Crystal Structure Of Arp23 COMPLEX WITH BOUND ATP AND
Calcium
pdb|1U2V|G Chain G, Crystal Structure Of Arp23 COMPLEX WITH BOUND ADP AND
Calcium
pdb|2P9I|G Chain G, Crystal Structure Of Bovine Arp23 COMPLEX CO-Crystallized
With Adp And Crosslinked With Gluteraldehyde
pdb|2P9K|G Chain G, Crystal Structure Of Bovine Arp23 COMPLEX CO-Crystallized
With Atp And Crosslinked With Glutaraldehyde
pdb|2P9L|G Chain G, Crystal Structure Of Bovine Arp23 COMPLEX
pdb|2P9N|G Chain G, Crystal Structure Of Bovine Arp23 COMPLEX CO-Crystallized
With Adp
pdb|2P9P|G Chain G, Crystal Structure Of Bovine Arp23 COMPLEX CO-Crystallized
With Adp
pdb|2P9S|G Chain G, Structure Of Bovine Arp23 COMPLEX CO-Crystallized With
AtpMG2+
pdb|2P9U|G Chain G, Crystal Structure Of Bovine Arp23 COMPLEX CO-Crystallized
With Amp-Pnp And Calcium
Length = 151
Score = 154 bits (389), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 80/151 (52%), Positives = 109/151 (72%), Gaps = 3/151 (1%)
Query: 1 MAKNTSSSA-FRKIDVDQYNEDNYKEEEQGEVPQLGAGVDESEILSLLNQGKHQDALKTV 59
M+KNT SSA FRK+DVD+Y+E+ + +E+ G Q AG DE E+ S L QG AL+
Sbjct: 1 MSKNTVSSARFRKVDVDEYDENKFVDEDDGGDGQ--AGPDEGEVDSCLRQGNMTAALQAA 58
Query: 60 LKNAPLGSKNQHVKDSALNLTLKVLLAIKSSQMDETVSNLDQDLLDTLMKYIYKGFEIPS 119
LKN P+ +K+Q VKD A ++ LKVL++ K++ +++ V +LD++ +D LMKYIYKGFE PS
Sbjct: 59 LKNPPINTKSQAVKDRAGSIVLKVLISFKANDIEKAVQSLDKNGVDLLMKYIYKGFESPS 118
Query: 120 EKSSSHLLTWHEKVFAIGGLGSIVRVLTDSK 150
+ SS+ LL WHEK A GG+GSIVRVLT K
Sbjct: 119 DNSSAVLLQWHEKALAAGGVGSIVRVLTARK 149
>pdb|3DXK|G Chain G, Structure Of Bos Taurus Arp23 COMPLEX WITH BOUND INHIBITOR
Ck0944636
pdb|3DXM|G Chain G, Structure Of Bos Taurus Arp23 COMPLEX WITH BOUND INHIBITOR
Ck0993548
pdb|3RSE|G Chain G, Structural And Biochemical Characterization Of Two Binding
Sites For Nucleation Promoting Factor Wasp-Vca On Arp23
COMPLEX
pdb|3UKR|G Chain G, Crystal Structure Of Bos Taurus Arp2/3 Complex With Bound
Inhibitor Ck-666
pdb|3UKU|G Chain G, Structure Of Arp2/3 Complex With Bound Inhibitor Ck-869
pdb|3ULE|G Chain G, Structure Of Bos Taurus Arp2/3 Complex With Bound
Inhibitor Ck-869 And Atp
Length = 151
Score = 153 bits (386), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 80/151 (52%), Positives = 108/151 (71%), Gaps = 3/151 (1%)
Query: 1 MAKNTSSSA-FRKIDVDQYNEDNYKEEEQGEVPQLGAGVDESEILSLLNQGKHQDALKTV 59
M+KNT SSA FRK+DV +Y+E+ + +EE G Q AG DE E+ S L QG AL+
Sbjct: 1 MSKNTVSSARFRKVDVGEYDENKFVDEEDGGDGQ--AGPDEGEVDSCLRQGNMTAALQAA 58
Query: 60 LKNAPLGSKNQHVKDSALNLTLKVLLAIKSSQMDETVSNLDQDLLDTLMKYIYKGFEIPS 119
LKN P+ +K+Q VKD A ++ LKVL++ K++ +++ V +LD++ +D LMKYIYKGFE PS
Sbjct: 59 LKNPPINTKSQAVKDRAGSIVLKVLISFKANDIEKAVQSLDKNGVDLLMKYIYKGFESPS 118
Query: 120 EKSSSHLLTWHEKVFAIGGLGSIVRVLTDSK 150
+ SS+ LL WHEK A GG+GSIVRVLT K
Sbjct: 119 DNSSAVLLQWHEKALAAGGVGSIVRVLTARK 149
>pdb|3DWL|G Chain G, Crystal Structure Of Fission Yeast Arp2/3 Complex Lacking
The Arp2 Subunit
pdb|3DWL|L Chain L, Crystal Structure Of Fission Yeast Arp2/3 Complex Lacking
The Arp2 Subunit
Length = 152
Score = 79.0 bits (193), Expect = 9e-16, Method: Compositional matrix adjust.
Identities = 48/144 (33%), Positives = 72/144 (50%), Gaps = 7/144 (4%)
Query: 10 FRKIDVDQYNEDNYKEEEQGEV-----PQLGAGVDE--SEILSLLNQGKHQDALKTVLKN 62
FR +DVD E E++ + Q+ A V + + S + G LKT+L
Sbjct: 3 FRTLDVDSITEPVLTEQDIFPIRNETAEQVQAAVSQLIPQARSAIQTGNALQGLKTLLSY 62
Query: 63 APLGSKNQHVKDSALNLTLKVLLAIKSSQMDETVSNLDQDLLDTLMKYIYKGFEIPSEKS 122
P G+ Q V+ LN + VL I+++ + V + +D ++ +IY+G P +
Sbjct: 63 VPYGNDVQEVRTQYLNAFVDVLSNIRAADIPAFVKECSTEEIDNIVNFIYRGLANPQAYN 122
Query: 123 SSHLLTWHEKVFAIGGLGSIVRVL 146
SS LL WHEKV I G+G IVRVL
Sbjct: 123 SSVLLNWHEKVVEISGIGCIVRVL 146
>pdb|3QOY|A Chain A, Crystal Structure Of Ribosomal Protein L1 From Aquifex
Aeolicus
Length = 242
Score = 28.1 bits (61), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 20/27 (74%)
Query: 55 ALKTVLKNAPLGSKNQHVKDSALNLTL 81
A+ V++ P G+K Q++K+ A++LT+
Sbjct: 196 AIDAVVRAKPPGAKGQYIKNMAVSLTM 222
>pdb|4GQ2|M Chain M, S. Pombe Nup120-Nup37 Complex
Length = 950
Score = 27.3 bits (59), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 30/63 (47%), Gaps = 5/63 (7%)
Query: 32 PQLGAGVDESEI-LSLLNQGKHQDALKTVLKNAPLGSKNQHVKDSALNLTLKVLLAIKSS 90
P L A + SEI +S N G K +L QH+ DS+ +LK L++++
Sbjct: 173 PDLMAAISTSEICVSFFNGG----LTKIILNPKDASHYEQHIDDSSYLFSLKKYLSLQAF 228
Query: 91 QMD 93
+ D
Sbjct: 229 KAD 231
>pdb|4FHM|B Chain B, Nup37-Nup120(Aa1-961) Complex From Schizosaccharomyces
Pombe
Length = 964
Score = 27.3 bits (59), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 30/63 (47%), Gaps = 5/63 (7%)
Query: 32 PQLGAGVDESEI-LSLLNQGKHQDALKTVLKNAPLGSKNQHVKDSALNLTLKVLLAIKSS 90
P L A + SEI +S N G K +L QH+ DS+ +LK L++++
Sbjct: 175 PDLMAAISTSEICVSFFNGG----LTKIILNPKDASHYEQHIDDSSYLFSLKKYLSLQAF 230
Query: 91 QMD 93
+ D
Sbjct: 231 KAD 233
>pdb|4FHN|B Chain B, Nup37-Nup120 Full-Length Complex From Schizosaccharomyces
Pombe
pdb|4FHN|D Chain D, Nup37-Nup120 Full-Length Complex From Schizosaccharomyces
Pombe
Length = 1139
Score = 26.9 bits (58), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 30/63 (47%), Gaps = 5/63 (7%)
Query: 32 PQLGAGVDESEI-LSLLNQGKHQDALKTVLKNAPLGSKNQHVKDSALNLTLKVLLAIKSS 90
P L A + SEI +S N G K +L QH+ DS+ +LK L++++
Sbjct: 175 PDLMAAISTSEICVSFFNGG----LTKIILNPKDASHYEQHIDDSSYLFSLKKYLSLQAF 230
Query: 91 QMD 93
+ D
Sbjct: 231 KAD 233
>pdb|2F2U|A Chain A, Crystal Structure Of The Rho-Kinase Kinase Domain
pdb|2F2U|B Chain B, Crystal Structure Of The Rho-Kinase Kinase Domain
pdb|2H9V|A Chain A, Structural Basis For Induced-Fit Binding Of Rho-Kinase To
The Inhibitor Y27632
Length = 402
Score = 26.6 bits (57), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 16 DQYNEDNYKEEEQGEVPQLGAGVDESEI 43
DQ+N DN +E VP+L + +D S
Sbjct: 342 DQWNWDNIRETAAPVVPELSSDIDSSNF 369
>pdb|4A0C|A Chain A, Structure Of The Cand1-Cul4b-Rbx1 Complex
pdb|4A0C|B Chain B, Structure Of The Cand1-Cul4b-Rbx1 Complex
Length = 1253
Score = 26.2 bits (56), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 34/61 (55%), Gaps = 3/61 (4%)
Query: 52 HQDALKTVLKNAPLGSKNQHVKDSALNLTLKVLLAIKSSQMDETVSNLDQDLLDTLMKYI 111
H + +LKN +G + ++D LN+ L+ S+ ++ +L +DLLDT++ ++
Sbjct: 1019 HPQPIDPLLKNC-IGDFLKTLEDPDLNVRRVALVTFNSAAHNK--PSLIRDLLDTVLPHL 1075
Query: 112 Y 112
Y
Sbjct: 1076 Y 1076
>pdb|1U6G|C Chain C, Crystal Structure Of The Cand1-Cul1-Roc1 Complex
Length = 1230
Score = 25.8 bits (55), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 34/61 (55%), Gaps = 3/61 (4%)
Query: 52 HQDALKTVLKNAPLGSKNQHVKDSALNLTLKVLLAIKSSQMDETVSNLDQDLLDTLMKYI 111
H + +LKN +G + ++D LN+ L+ S+ ++ +L +DLLDT++ ++
Sbjct: 996 HPQPIDPLLKNC-IGDFLKTLEDPDLNVRRVALVTFNSAAHNK--PSLIRDLLDTVLPHL 1052
Query: 112 Y 112
Y
Sbjct: 1053 Y 1053
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
0.310 0.128 0.344
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,173,851
Number of Sequences: 62578
Number of extensions: 162933
Number of successful extensions: 340
Number of sequences better than 100.0: 46
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 38
Number of HSP's that attempted gapping in prelim test: 328
Number of HSP's gapped (non-prelim): 48
length of query: 151
length of database: 14,973,337
effective HSP length: 90
effective length of query: 61
effective length of database: 9,341,317
effective search space: 569820337
effective search space used: 569820337
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 47 (22.7 bits)