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= 036281
(371 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3A9R|A Chain A, X-Ray Structures Of Bacillus Pallidus D-Arabinose
Isomerasecomplex With (4r)-2-Methylpentane-2,4-Diol
pdb|3A9R|B Chain B, X-Ray Structures Of Bacillus Pallidus D-Arabinose
Isomerasecomplex With (4r)-2-Methylpentane-2,4-Diol
pdb|3A9R|C Chain C, X-Ray Structures Of Bacillus Pallidus D-Arabinose
Isomerasecomplex With (4r)-2-Methylpentane-2,4-Diol
pdb|3A9S|A Chain A, X-Ray Structure Of Bacillus Pallidus D-Arabinose Isomerase
Complex With Glycerol
pdb|3A9S|B Chain B, X-Ray Structure Of Bacillus Pallidus D-Arabinose Isomerase
Complex With Glycerol
pdb|3A9S|C Chain C, X-Ray Structure Of Bacillus Pallidus D-Arabinose Isomerase
Complex With Glycerol
pdb|3A9T|A Chain A, X-Ray Structure Of Bacillus Pallidus D-Arabinose Isomerase
Complex With L-Fucitol
pdb|3A9T|B Chain B, X-Ray Structure Of Bacillus Pallidus D-Arabinose Isomerase
Complex With L-Fucitol
pdb|3A9T|C Chain C, X-Ray Structure Of Bacillus Pallidus D-Arabinose Isomerase
Complex With L-Fucitol
Length = 595
Score = 29.6 bits (65), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 39/194 (20%), Positives = 75/194 (38%), Gaps = 24/194 (12%)
Query: 164 TGDFKLVLILTL--WNDQRDSFHDFSHVAVYNFSTNSWRDLKGFEMRFDYMVDRIYNVYL 221
GDF ++ + WN +R A Y F+T + +L G M F Y++ ++
Sbjct: 316 NGDFMETILNSSFDWNGKR---------APYIFATEN-DNLNGISMLFGYLLTNTAQIFA 365
Query: 222 NGYCYWVVCRPDYSKAILAFSM----SNEVFQEIKGPSVPQTTTYYQS-----VKTPWML 272
+ YW P+ K + +++ +N + I + T Q+ V P+
Sbjct: 366 DVRTYW---SPEAVKRVTGYTLEGRAANGIIHLINSGAAALDGTGEQTKDGKPVIKPYYE 422
Query: 273 GTYDDCLSLLYSDKFAHSFELWIMKGGFWIKHLTFGPFIETYQPLGFWRKDEFLLESSDK 332
T +D L + +F + + GG+ LT G T L + +L+ ++
Sbjct: 423 LTDEDIKKCLEATQFRPASTEYFRGGGYSTDFLTKGGMPVTISRLNIVKGLGPVLQIAEG 482
Query: 333 RVILYDSRYHEMRD 346
+ H++ D
Sbjct: 483 YTVDLPEEVHDVLD 496
>pdb|4II2|A Chain A, Crystal Structure Of Ubiquitin Activating Enzyme 1 (uba1)
In Complex With The Ub E2 Ubc4, Ubiquitin, And Atp/mg
pdb|4II3|A Chain A, Crystal Structure Of S. Pombe Ubiquitin Activating Enzyme
1 (uba1) In Complex With Ubiquitin And Atp/mg
pdb|4II3|C Chain C, Crystal Structure Of S. Pombe Ubiquitin Activating Enzyme
1 (uba1) In Complex With Ubiquitin And Atp/mg
Length = 1001
Score = 28.9 bits (63), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 34/141 (24%), Positives = 56/141 (39%), Gaps = 20/141 (14%)
Query: 4 EIRVKTLGDLSDDMMIETLSRLPVKSLMRFKCVCISWCDLVKD---PNFIYKHLKRDDNM 60
++ V L +L+ + + + L + L FKCV ++ L K +F +K+
Sbjct: 83 KVTVSKLAELNQYVPVSVVDELSTEYLKNFKCVVVTETSLTKQLEINDFTHKN------- 135
Query: 61 RLMVYCTYKNPDDRDPFDDLITYFSVFPDRTLTDLHFQDLEPIMRGIHIGPYDGIFCLLK 120
+ Y D R F + F T TD + EP+ I DG+ +L+
Sbjct: 136 ----HIAYIAADSRGLFGSIFCDFGENFICTDTDGN----EPLTGMIASITDDGVVTMLE 187
Query: 121 S--HTLINLWNVSLNEYRGLP 139
H L N V E +G+P
Sbjct: 188 ETRHGLENGDFVKFTEVKGMP 208
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
0.327 0.143 0.469
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,193,971
Number of Sequences: 62578
Number of extensions: 552070
Number of successful extensions: 1262
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1261
Number of HSP's gapped (non-prelim): 3
length of query: 371
length of database: 14,973,337
effective HSP length: 100
effective length of query: 271
effective length of database: 8,715,537
effective search space: 2361910527
effective search space used: 2361910527
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 52 (24.6 bits)