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= psy3925
(210 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3JUI|A Chain A, Crystal Structure Of The C-terminal Domain Of Human
Translation Initiation Factor Eif2b Epsilon Subunit
Length = 182
Score = 37.4 bits (85), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 22/88 (25%), Positives = 50/88 (56%), Gaps = 3/88 (3%)
Query: 115 LKQFTPLFGAFTDTAPRAELALMLKVQEFCYENMNLMRVFQKIILLFYKTDVISEEVILK 174
LK ++P+F + A L + +++F E+ L K++ FY+ ++++ E IL
Sbjct: 86 LKAWSPVFRNYIKRAAD-HLEALAAIEDFFLEHEALGISXAKVLXAFYQLEILAGETILS 144
Query: 175 WYKEGHSI-KG-KIMFLEQMKKFVEWLQ 200
W+ + + KG ++ +Q+++F++WL+
Sbjct: 145 WFSQRDTTDKGQQLRKNQQLQRFIQWLK 172
>pdb|2FTY|A Chain A, Crystal Structure Of Dihydropyrimidinase From
Saccharomyces Kluyveri
pdb|2FTY|B Chain B, Crystal Structure Of Dihydropyrimidinase From
Saccharomyces Kluyveri
pdb|2FTY|C Chain C, Crystal Structure Of Dihydropyrimidinase From
Saccharomyces Kluyveri
pdb|2FTY|D Chain D, Crystal Structure Of Dihydropyrimidinase From
Saccharomyces Kluyveri
pdb|2FVK|A Chain A, Crystal Structure Of Dihydropyrimidinase From
Saccharomyces Kluyveri In Complex With The Substrate
Dihydrouracil
pdb|2FVK|B Chain B, Crystal Structure Of Dihydropyrimidinase From
Saccharomyces Kluyveri In Complex With The Substrate
Dihydrouracil
pdb|2FVK|C Chain C, Crystal Structure Of Dihydropyrimidinase From
Saccharomyces Kluyveri In Complex With The Substrate
Dihydrouracil
pdb|2FVK|D Chain D, Crystal Structure Of Dihydropyrimidinase From
Saccharomyces Kluyveri In Complex With The Substrate
Dihydrouracil
pdb|2FVM|A Chain A, Crystal Structure Of Dihydropyrimidinase From
Saccharomyces Kluyveri In Complex With The Reaction
Product N-carbamyl-beta-alanine
pdb|2FVM|B Chain B, Crystal Structure Of Dihydropyrimidinase From
Saccharomyces Kluyveri In Complex With The Reaction
Product N-carbamyl-beta-alanine
pdb|2FVM|C Chain C, Crystal Structure Of Dihydropyrimidinase From
Saccharomyces Kluyveri In Complex With The Reaction
Product N-carbamyl-beta-alanine
pdb|2FVM|D Chain D, Crystal Structure Of Dihydropyrimidinase From
Saccharomyces Kluyveri In Complex With The Reaction
Product N-carbamyl-beta-alanine
Length = 559
Score = 36.6 bits (83), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 25/101 (24%), Positives = 43/101 (42%), Gaps = 8/101 (7%)
Query: 31 IKLMRRYKYLEKMFDEEMKKVLVFIKGFNETERIKLARMTALWITNGSVPPTVLQVLINI 90
+ L+ Y YL MK V E + A++ ++ GS+ P V + I
Sbjct: 400 MPLLYDYGYLRGNLTSMMKLV--------EIQCTNPAKVYGMYPQKGSILPGVSDADLVI 451
Query: 91 WSTVMAQVEWNKKEELVAEQALKHLKQFTPLFGAFTDTAPR 131
W ++ E+N K +L+ + ++H +TP G PR
Sbjct: 452 WYPDDSKKEYNSKPKLITNKLMEHNCDYTPFEGIEIKNWPR 492
>pdb|3D3M|A Chain A, The Crystal Structure Of The C-Terminal Region Of Death
Associated Protein 5(Dap5)
pdb|3D3M|B Chain B, The Crystal Structure Of The C-Terminal Region Of Death
Associated Protein 5(Dap5)
Length = 168
Score = 35.0 bits (79), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 26/101 (25%), Positives = 48/101 (47%), Gaps = 3/101 (2%)
Query: 103 KEELVAEQALKHLKQFTPLFGAFTDTAPRAELALMLKVQEFCYENMNLMRVFQKIILLFY 162
KE+L E+ L L F P+ F +++ + +Q CY + + + + FY
Sbjct: 70 KEQLEQEKQL--LLSFKPVMQKFLHDHVDLQVSALYALQVHCYNSNFPKGMLLRFFVHFY 127
Query: 163 KTDVISEEVILKWYKE-GHSIKGKIMFLEQMKKFVEWLQSA 202
++I EE L W ++ GK L Q+ +++ WL++A
Sbjct: 128 DMEIIEEEAFLAWKEDITQEFPGKGKALFQVNQWLTWLETA 168
>pdb|3L6A|A Chain A, Crystal Structure Of The C-Terminal Region Of Human P97
Length = 364
Score = 34.3 bits (77), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 26/101 (25%), Positives = 48/101 (47%), Gaps = 3/101 (2%)
Query: 103 KEELVAEQALKHLKQFTPLFGAFTDTAPRAELALMLKVQEFCYENMNLMRVFQKIILLFY 162
KE+L E+ L L F P+ F +++ + +Q CY + + + + FY
Sbjct: 266 KEQLEQEKQL--LLSFKPVMQKFLHDHVDLQVSALYALQVHCYNSNFPKGMLLRFFVHFY 323
Query: 163 KTDVISEEVILKWYKE-GHSIKGKIMFLEQMKKFVEWLQSA 202
++I EE L W ++ GK L Q+ +++ WL++A
Sbjct: 324 DMEIIEEEAFLAWKEDITQEFPGKGKALFQVNQWLTWLETA 364
>pdb|2FUL|A Chain A, Crystal Structure Of The C-Terminal Domain Of S.
Cerevisiae Eif5
pdb|2FUL|B Chain B, Crystal Structure Of The C-Terminal Domain Of S.
Cerevisiae Eif5
pdb|2FUL|C Chain C, Crystal Structure Of The C-Terminal Domain Of S.
Cerevisiae Eif5
pdb|2FUL|D Chain D, Crystal Structure Of The C-Terminal Domain Of S.
Cerevisiae Eif5
pdb|2FUL|E Chain E, Crystal Structure Of The C-Terminal Domain Of S.
Cerevisiae Eif5
pdb|2FUL|F Chain F, Crystal Structure Of The C-Terminal Domain Of S.
Cerevisiae Eif5
Length = 177
Score = 32.3 bits (72), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 34/119 (28%), Positives = 57/119 (47%), Gaps = 19/119 (15%)
Query: 92 STVMAQVEWNKKEELVAEQALKHLKQFTPLFGAFTDTAPRAELALMLKVQEF-CYENMNL 150
V+AQ ++ E++V E A +H FT + P E M ++ F E+ +L
Sbjct: 53 GCVLAQCLFD--EDIVNEIA-EHNAFFTKIL-----VTPEYEKNFMGGIERFLGLEHKDL 104
Query: 151 MRVFQKIILLFYKTDVISEEVILKWYKEGHSIKGKIMFLEQMKK-------FVEWLQSA 202
+ + KI++ Y D+ISEE I+++ G K + E KK F+ WL++A
Sbjct: 105 IPLLPKILVQLYNNDIISEEEIMRF---GTKSSKKFVPKEVSKKVRRAAKPFITWLETA 160
>pdb|4IOY|X Chain X, Structure Of The Spt16 Middle Domain Reveals Functional
Features Of The Histone Chaperone Fact
Length = 285
Score = 31.6 bits (70), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 28/98 (28%), Positives = 50/98 (51%), Gaps = 14/98 (14%)
Query: 9 TTACIFEAQEDMQSLKNFEQVFIKLMRRYKYLEKMFDEEMKKVLVFI-KGFNET-ERIKL 66
TT C+ + E + N E+V I ++ R ++ K FD +VF+ K FN+ I
Sbjct: 175 TTDCLVQLIEPPFLVINLEEVEICILERVQFGLKNFD------MVFVYKDFNKPVTHINT 228
Query: 67 ARMTAL-----WITNGSVPPTVLQVLINIWSTVMAQVE 99
+ +L W+T+ +P TV + +N W+T+M ++
Sbjct: 229 VPIESLDFLKQWLTDMDIPYTVSTINLN-WATIMKSLQ 265
>pdb|1PAQ|A Chain A, Crystal Structure Of The Catalytic Fragment Of Eukaryotic
Initiation Factor 2b Epsilon
Length = 189
Score = 31.6 bits (70), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 39/68 (57%), Gaps = 8/68 (11%)
Query: 139 KVQEFCYENMNLMRVFQKIILLFYKTDVISEEVILKWYKEGHSIKGKIMFLEQMK---KF 195
K+ E ++ +L+ +F ++ L Y D+I E+VI KW+ ++ + E K K+
Sbjct: 119 KIVEQSFDKPDLI-LFSALVSL-YDNDIIEEDVIYKWWD---NVSTDPRYDEVKKLTVKW 173
Query: 196 VEWLQSAE 203
VEWLQ+A+
Sbjct: 174 VEWLQNAD 181
>pdb|3S4L|A Chain A, The Crispr-Associated Cas3 Hd Domain Protein Mj0384 From
Methanocaldococcus Jannaschii
Length = 244
Score = 30.0 bits (66), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 24/44 (54%)
Query: 84 LQVLINIWSTVMAQVEWNKKEELVAEQALKHLKQFTPLFGAFTD 127
L V+++ +M Q+ KK+EL AE L LK+F + F D
Sbjct: 118 LTVMLHHEPIIMGQIRNLKKKELTAEVVLDKLKKFDGMIEDFED 161
>pdb|2KXP|A Chain A, Solution Nmr Structure Of V-1 Bound To Capping Protein
(Cp)
Length = 275
Score = 30.0 bits (66), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 21/34 (61%)
Query: 125 FTDTAPRAELALMLKVQEFCYENMNLMRVFQKII 158
FT T P A++A +LK+Q YE+ N+ V K I
Sbjct: 173 FTITPPTAQVAAVLKIQVHYYEDGNVQLVSHKDI 206
>pdb|1IZN|A Chain A, Crystal Structure Of Actin Filament Capping Protein Capz
pdb|1IZN|C Chain C, Crystal Structure Of Actin Filament Capping Protein Capz
pdb|3LK2|A Chain A, Crystal Structure Of Capz Bound To The Uncapping Motif
From Carmil
pdb|3LK3|A Chain A, Crystal Structure Of Capz Bound To The Cpi And Csi
Uncapping Motifs From Carmil
pdb|3LK4|A Chain A, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|D Chain D, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|G Chain G, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|J Chain J, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|M Chain M, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|P Chain P, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|S Chain S, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|V Chain V, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|Y Chain Y, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|1 Chain 1, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|4 Chain 4, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|7 Chain 7, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|2KZ7|A Chain A, Solution Structure Of The Carmil Cah3aB DOMAIN BOUND TO
CAPPING Protein (Cp)
pdb|3AA0|A Chain A, Crystal Structure Of Actin Capping Protein In Complex With
The Cp- Binding Motif Derived From Carmil
pdb|3AA1|A Chain A, Crystal Structure Of Actin Capping Protein In Complex With
The Cp- Binding Motif Derived From Ckip-1
pdb|3AA6|A Chain A, Crystal Structure Of Actin Capping Protein In Complex With
The Cp- Binding Motif Derived From Cd2ap
pdb|3AA7|A Chain A, Crystal Structure Of Actin Capping Protein
pdb|3AAA|A Chain A, Crystal Structure Of Actin Capping Protein In Complex With
V-1
pdb|3AAE|A Chain A, Crystal Structure Of Actin Capping Protein In Complex With
Carmil Fragment
pdb|3AAE|C Chain C, Crystal Structure Of Actin Capping Protein In Complex With
Carmil Fragment
pdb|3AAE|E Chain E, Crystal Structure Of Actin Capping Protein In Complex With
Carmil Fragment
pdb|3AAE|G Chain G, Crystal Structure Of Actin Capping Protein In Complex With
Carmil Fragment
pdb|3AAE|I Chain I, Crystal Structure Of Actin Capping Protein In Complex With
Carmil Fragment
Length = 286
Score = 30.0 bits (66), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 21/34 (61%)
Query: 125 FTDTAPRAELALMLKVQEFCYENMNLMRVFQKII 158
FT T P A++A +LK+Q YE+ N+ V K I
Sbjct: 179 FTITPPTAQVAAVLKIQVHYYEDGNVQLVSHKDI 212
>pdb|1DQ3|A Chain A, Crystal Structure Of An Archaeal Intein-Encoded Homing
Endonuclease Pi-Pfui
Length = 454
Score = 28.9 bits (63), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 27/134 (20%), Positives = 57/134 (42%), Gaps = 18/134 (13%)
Query: 7 VQTTACIFEAQEDMQSLKNFEQVFIKLMRRYKYLEKMFDEEMKK-------VLVFIKGFN 59
+ A I E + L E+++ RYK+L + +DEE + V +++K F+
Sbjct: 2 IDGKAKIIFENEGEEHLTTMEEMY----ERYKHLGEFYDEEYNRWGIDVSNVPIYVKSFD 57
Query: 60 -ETERIKLARMTALWITNGSVPPTVLQVLINIWSTVMAQVEWNK-----KEELVAEQALK 113
E++R+ ++ +W T +++ N + ++ W+ + + E+
Sbjct: 58 PESKRVVKGKVNVIWKYELGKDVTKYEIITNKGTKILTS-PWHPFFVLTPDFKIVEKRAD 116
Query: 114 HLKQFTPLFGAFTD 127
LK+ L G D
Sbjct: 117 ELKEGDILIGGMPD 130
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 0.134 0.387
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,603,486
Number of Sequences: 62578
Number of extensions: 201450
Number of successful extensions: 493
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 481
Number of HSP's gapped (non-prelim): 13
length of query: 210
length of database: 14,973,337
effective HSP length: 95
effective length of query: 115
effective length of database: 9,028,427
effective search space: 1038269105
effective search space used: 1038269105
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 49 (23.5 bits)