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= 009713
         (528 letters)

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

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



>pdb|3SKS|A Chain A, Crystal Structure Of A Putative Oligoendopeptidase F From
           Bacillus Anthracis Str. Ames
          Length = 567

 Score = 32.0 bits (71), Expect = 0.90,   Method: Compositional matrix adjust.
 Identities = 29/127 (22%), Positives = 45/127 (35%), Gaps = 19/127 (14%)

Query: 297 EEVMGKLEVVLDGFESVEVVPSLFVFMGNFCSHPCNLSFHSFSSLRLQFGKLGQMI---- 352
           EE+  K  V L+ F++ + V                   HS + +R  FG +G +     
Sbjct: 17  EELKEKFTVALEKFDNAKTVEEQ------------KQVIHSINEIRNDFGTMGNLCYIRH 64

Query: 353 ---AAHPRLKEHSRFLFIPGPDDAGPSTVLPRCALPKYLTEELQKYIPNAIFSSNPCRIK 409
                    KE   F     P   G  T      +     EEL+ Y    +F+   C +K
Sbjct: 65  SVDTTDAFYKEEQDFFDEFSPVVQGYGTKYYNALIHSPFREELEAYYGKQLFALAECDLK 124

Query: 410 FYTQEIV 416
            Y+ E+V
Sbjct: 125 TYSDEVV 131


  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    0.139    0.415 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,517,913
Number of Sequences: 62578
Number of extensions: 578472
Number of successful extensions: 1020
Number of sequences better than 100.0: 1
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1020
Number of HSP's gapped (non-prelim): 1
length of query: 528
length of database: 14,973,337
effective HSP length: 103
effective length of query: 425
effective length of database: 8,527,803
effective search space: 3624316275
effective search space used: 3624316275
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 54 (25.4 bits)