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= 002827
         (876 letters)

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

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



>pdb|2XMZ|A Chain A, Structure Of Menh From S. Aureus
          Length = 269

 Score = 29.6 bits (65), Expect = 7.4,   Method: Compositional matrix adjust.
 Identities = 24/90 (26%), Positives = 42/90 (46%), Gaps = 24/90 (26%)

Query: 135 DASIFHSS-NQYTRRLDWFAVDLEG---EHSAMDGQILEEHAEYVVYAIHRILDQYRESQ 190
           D+  +H+   ++T       +DL G   + S+MD      + +Y+   + RILD+Y++  
Sbjct: 28  DSRTYHNHIEKFTDNYHVITIDLPGHGEDQSSMDETW---NFDYITTLLDRILDKYKD-- 82

Query: 191 DAREREGAATSGSLPKSVILVGHSVGGFVA 220
                          KS+ L G+S+GG VA
Sbjct: 83  ---------------KSITLFGYSMGGRVA 97


  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
   0.321    0.134    0.408 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 24,716,634
Number of Sequences: 62578
Number of extensions: 975795
Number of successful extensions: 1820
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1819
Number of HSP's gapped (non-prelim): 2
length of query: 876
length of database: 14,973,337
effective HSP length: 107
effective length of query: 769
effective length of database: 8,277,491
effective search space: 6365390579
effective search space used: 6365390579
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 56 (26.2 bits)