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= 040128
(232 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1TMO|A Chain A, Trimethylamine N-Oxide Reductase From Shewanella Massilia
Length = 829
Score = 28.5 bits (62), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 14/25 (56%), Positives = 16/25 (64%), Gaps = 1/25 (4%)
Query: 45 CCLWTCLFVRRLPYQGKVPKISKTD 69
C +TCL V YQGKVPK+S D
Sbjct: 799 CSAYTCL-VEFEKYQGKVPKVSSFD 822
>pdb|2GWO|A Chain A, Crystal Structure Of Tmdp
pdb|2GWO|B Chain B, Crystal Structure Of Tmdp
pdb|2GWO|C Chain C, Crystal Structure Of Tmdp
pdb|2GWO|D Chain D, Crystal Structure Of Tmdp
Length = 198
Score = 26.9 bits (58), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 21/42 (50%), Gaps = 1/42 (2%)
Query: 104 YLAEVWKEYSKGDSRYAARDAGVVAVEGITAVLEGPASLLSV 145
++ EVW GD+ YAARD + GIT V+ A V
Sbjct: 45 HIDEVWPSLFLGDA-YAARDKSKLIQLGITHVVNAAAGKFQV 85
>pdb|2PQ5|A Chain A, Crystal Structure Of Dual Specificity Protein Phosphatase
13 (Dusp13)
pdb|2PQ5|B Chain B, Crystal Structure Of Dual Specificity Protein Phosphatase
13 (Dusp13)
pdb|2PQ5|C Chain C, Crystal Structure Of Dual Specificity Protein Phosphatase
13 (Dusp13)
pdb|2PQ5|D Chain D, Crystal Structure Of Dual Specificity Protein Phosphatase
13 (Dusp13)
Length = 205
Score = 26.9 bits (58), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 21/42 (50%), Gaps = 1/42 (2%)
Query: 104 YLAEVWKEYSKGDSRYAARDAGVVAVEGITAVLEGPASLLSV 145
++ EVW GD+ YAARD + GIT V+ A V
Sbjct: 45 HIDEVWPSLFLGDA-YAARDKSKLIQLGITHVVNAAAGKFQV 85
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
0.323 0.136 0.434
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,184,878
Number of Sequences: 62578
Number of extensions: 297034
Number of successful extensions: 889
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 888
Number of HSP's gapped (non-prelim): 13
length of query: 232
length of database: 14,973,337
effective HSP length: 96
effective length of query: 136
effective length of database: 8,965,849
effective search space: 1219355464
effective search space used: 1219355464
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: 50 (23.9 bits)