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= 005775
         (677 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



>pdb|2KEY|A Chain A, Solution Nmr Structure Of A Domain From A Putative Phage
           Integrase Protein Bf2284 From Bacteroides Fragilis,
           Northeast Structural Genomics Consortium Target Bfr257c
          Length = 112

 Score = 30.4 bits (67), Expect = 3.7,   Method: Composition-based stats.
 Identities = 30/114 (26%), Positives = 48/114 (42%), Gaps = 33/114 (28%)

Query: 398 YMPFSSRMLEYALYVRNSHNRTNLRQYLKEYAESIAAKYRYWNRTGGADHFLVACHDWAP 457
           YM   SR LE   +    H+++ +R++ KEY E +                    H+   
Sbjct: 17  YMKTYSRRLEIGTF---RHHKSCMRKF-KEYCEGLQF------------------HELTE 54

Query: 458 YETRHHMEHCIKALCNADVTAGFKLGRDVSLPETYVRSA-------RNPLRDLG 504
              R ++ +  K LCNAD TA     R++S  + YV +A        +P +D G
Sbjct: 55  DFLRDYLIYMKKTLCNADSTA----QRNLSTIKIYVSAAIKKGYMENDPFKDFG 104


>pdb|2VF1|A Chain A, X-Ray Crystallographic Structure Of The Picobirnavirus
           Capsid
 pdb|2VF1|B Chain B, X-Ray Crystallographic Structure Of The Picobirnavirus
           Capsid
          Length = 525

 Score = 30.0 bits (66), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 20/57 (35%), Positives = 29/57 (50%), Gaps = 6/57 (10%)

Query: 291 SSRAMRPRWSSVRDKEVLAAKTEIEKASVSVSDQ------ELHAPLFRNVSMFKRSY 341
           +S  M P++S V +   L A  E +KASV+ S++         A L RNV  FK  +
Sbjct: 361 NSHIMEPQYSDVLEWTRLMATIEFDKASVTSSEKVTFKVTSCGAELIRNVLYFKNVW 417


  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
   0.318    0.135    0.402 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,415,706
Number of Sequences: 62578
Number of extensions: 863229
Number of successful extensions: 1990
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 20
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1969
Number of HSP's gapped (non-prelim): 24
length of query: 677
length of database: 14,973,337
effective HSP length: 105
effective length of query: 572
effective length of database: 8,402,647
effective search space: 4806314084
effective search space used: 4806314084
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.8 bits)