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= 019464
         (340 letters)

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

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



>pdb|2QK7|A Chain A, A Covalent S-f Heterodimer Of Staphylococcal
           Gamma-hemolysin
          Length = 288

 Score = 30.8 bits (68), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 22/76 (28%), Positives = 31/76 (40%), Gaps = 7/76 (9%)

Query: 175 PGYESGYGSKPEFESGYGRKPEYESGYGSKPEFESGYGRKPEYESGYGSKPHESGYGRKP 234
           P  +SG+   P F +       +E G G K EFE  YGR  +    Y ++ H     RK 
Sbjct: 207 PLIQSGFN--PSFITTLS----HEKGKGDKSEFEITYGRNMDATYAYVTR-HRLAVDRKH 259

Query: 235 DYESGYGSKPEYESGY 250
           D         +YE  +
Sbjct: 260 DAFKNRNVTVKYEVNW 275


>pdb|1DEQ|A Chain A, The Crystal Structure Of Modified Bovine Fibrinogen (At ~4
           Angstrom Resolution)
 pdb|1DEQ|D Chain D, The Crystal Structure Of Modified Bovine Fibrinogen (At ~4
           Angstrom Resolution)
 pdb|1DEQ|N Chain N, The Crystal Structure Of Modified Bovine Fibrinogen (At ~4
           Angstrom Resolution)
 pdb|1DEQ|Q Chain Q, The Crystal Structure Of Modified Bovine Fibrinogen (At ~4
           Angstrom Resolution)
          Length = 390

 Score = 30.0 bits (66), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 24/60 (40%), Positives = 34/60 (56%), Gaps = 7/60 (11%)

Query: 54  PGRPQPQPAYGFQPGMGRPEPYGSGRPESEYASGYAKRPDSQEYGSGYGK-RPESEEYGS 112
           PGRP+P  A  + PG  RPEP  +G   +  +   + RPDS    SG+G  RP S ++G+
Sbjct: 335 PGRPEPGSAGTWNPG--RPEPGSAGTWNTGSSGSSSFRPDS----SGHGNIRPSSPDWGT 388


  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
   0.306    0.133    0.400 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,101,138
Number of Sequences: 62578
Number of extensions: 765356
Number of successful extensions: 610
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 594
Number of HSP's gapped (non-prelim): 21
length of query: 340
length of database: 14,973,337
effective HSP length: 99
effective length of query: 241
effective length of database: 8,778,115
effective search space: 2115525715
effective search space used: 2115525715
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (21.9 bits)
S2: 52 (24.6 bits)