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= 022468
(296 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1K8K|D Chain D, Crystal Structure Of Arp23 COMPLEX
pdb|1TYQ|D Chain D, Crystal Structure Of Arp23 COMPLEX WITH BOUND ATP AND
Calcium
pdb|1U2V|D Chain D, Crystal Structure Of Arp23 COMPLEX WITH BOUND ADP AND
Calcium
pdb|2P9I|D Chain D, Crystal Structure Of Bovine Arp23 COMPLEX CO-Crystallized
With Adp And Crosslinked With Gluteraldehyde
pdb|2P9K|D Chain D, Crystal Structure Of Bovine Arp23 COMPLEX CO-Crystallized
With Atp And Crosslinked With Glutaraldehyde
pdb|2P9L|D Chain D, Crystal Structure Of Bovine Arp23 COMPLEX
pdb|2P9N|D Chain D, Crystal Structure Of Bovine Arp23 COMPLEX CO-Crystallized
With Adp
pdb|2P9P|D Chain D, Crystal Structure Of Bovine Arp23 COMPLEX CO-Crystallized
With Adp
pdb|2P9S|D Chain D, Structure Of Bovine Arp23 COMPLEX CO-Crystallized With
AtpMG2+
pdb|2P9U|D Chain D, Crystal Structure Of Bovine Arp23 COMPLEX CO-Crystallized
With Amp-Pnp And Calcium
pdb|3DXK|D Chain D, Structure Of Bos Taurus Arp23 COMPLEX WITH BOUND INHIBITOR
Ck0944636
pdb|3DXM|D Chain D, Structure Of Bos Taurus Arp23 COMPLEX WITH BOUND INHIBITOR
Ck0993548
pdb|3RSE|D Chain D, Structural And Biochemical Characterization Of Two Binding
Sites For Nucleation Promoting Factor Wasp-Vca On Arp23
COMPLEX
pdb|3UKR|D Chain D, Crystal Structure Of Bos Taurus Arp2/3 Complex With Bound
Inhibitor Ck-666
pdb|3UKU|D Chain D, Structure Of Arp2/3 Complex With Bound Inhibitor Ck-869
pdb|3ULE|D Chain D, Structure Of Bos Taurus Arp2/3 Complex With Bound
Inhibitor Ck-869 And Atp
Length = 300
Score = 84.0 bits (206), Expect = 9e-17, Method: Compositional matrix adjust.
Identities = 53/203 (26%), Positives = 95/203 (46%), Gaps = 8/203 (3%)
Query: 14 IVQPAKEGYQLTLRLNLSKIPCGKDSMKVISEISMVQATILSSQLKEMLWTVNSEDTFQG 73
+V P + GY ++L +L +P KDS ++ + M++ +S ++ E+ +G
Sbjct: 84 LVNP-ESGYNVSLLYDLENLPASKDS--IVHQAGMLKRNCFASVFEKYFQF--QEEGKEG 138
Query: 74 MCKPIKLVYHPRETFYVIKQPLKIAAVFPMRFKEHSDVIIATAFLQELTDVGSSKKWAKV 133
+ + + Y ET YV + ++ VF FK+ DV+I F+QE + G
Sbjct: 139 ENRAV-IHYRDDETMYVESKKDRVTVVFSTVFKDDDDVVIGKVFMQEFKE-GRRASHTAP 196
Query: 134 XXXXXXXXXXXELRGEPFEDLSTNGGFVTFDIYPRHIEGKRLDKTVWSLLNFYAYVKYHV 193
EL+ + + N G++TF ++PRH D T+ + F Y+ YH+
Sbjct: 197 QVLFSHREPPLELK-DTDAAVGDNIGYITFVLFPRHTNASARDNTINLIHTFRDYLHYHI 255
Query: 194 KCTKGFIQRRMRKRLESLVETLQ 216
KC+K +I RMR + ++ L
Sbjct: 256 KCSKAYIHTRMRAKTSDFLKVLN 278
>pdb|3DWL|D Chain D, Crystal Structure Of Fission Yeast Arp2/3 Complex Lacking
The Arp2 Subunit
pdb|3DWL|I Chain I, Crystal Structure Of Fission Yeast Arp2/3 Complex Lacking
The Arp2 Subunit
Length = 317
Score = 57.8 bits (138), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 51/245 (20%), Positives = 104/245 (42%), Gaps = 39/245 (15%)
Query: 2 EMVKAISLDVVE-----IVQPAKEGYQLTLRLNLSKIPCGKDSMKVIS-EISMVQATILS 55
E+V +LD+++ V + GY ++ ++L ++P + + ++ ISM++ +L+
Sbjct: 61 ELVNYGTLDLLKQIYGAYVHEPEMGYNFSILIDLQQLPATDEEKEQLAMSISMLKRNVLA 120
Query: 56 SQLK-----------------EMLWTVNSEDTFQGMCKPIKLVYHPRETFYVIKQPLKIA 98
+ E ++ + T Q + + + Y ET + + ++
Sbjct: 121 APFHRAFTKQAELADLARKDPENAPMLDKQATSQEL---MAIHYRDEETIVLWPEHDRVT 177
Query: 99 AVFPMRFKEHSDVIIATAFLQELTDVGSSKKWAKVXXXXXXXXXXXELRGEPFEDLSTNG 158
VF +F+E +D I FLQE D +++ + R P E G
Sbjct: 178 VVFSTKFREETDRIFGKVFLQEFVD---ARRRPAIQTAPQVLFS---YRDPPLEIRDIQG 231
Query: 159 -------GFVTFDIYPRHIEGKRLDKTVWSLLNFYAYVKYHVKCTKGFIQRRMRKRLESL 211
GFVTF ++ RH + + + + F + +H+K +K ++ +RMRKR+
Sbjct: 232 IQKGDDFGFVTFVLFERHFTPQNREDCISHIQVFRNTLHFHIKASKAYMHQRMRKRVADF 291
Query: 212 VETLQ 216
+ L
Sbjct: 292 QKVLN 296
>pdb|4HC4|A Chain A, Human Hmt1 Hnrnp Methyltransferase-Like Protein 6 (S.
Cerevisiae)
Length = 376
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 35/79 (44%), Gaps = 20/79 (25%)
Query: 183 LNFYAYVKYH----VKCTKGFIQRRMRKRLESLVETLQGPNL---------------GED 223
L F++ VK H + C +GF R + E +V+ L G ++ G +
Sbjct: 206 LGFWSQVKQHYGVDMSCLEGFATRCLMGHSEIVVQGLSGEDVLARPQRFAQLELSRAGLE 265
Query: 224 EQTEK-VQGNARCSCVGKS 241
++ E V G RCSC G +
Sbjct: 266 QELEAGVGGRFRCSCYGSA 284
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
0.322 0.136 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,653,908
Number of Sequences: 62578
Number of extensions: 270780
Number of successful extensions: 543
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 538
Number of HSP's gapped (non-prelim): 4
length of query: 296
length of database: 14,973,337
effective HSP length: 98
effective length of query: 198
effective length of database: 8,840,693
effective search space: 1750457214
effective search space used: 1750457214
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (24.3 bits)