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= 031254
         (163 letters)

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

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



>pdb|3LNL|A Chain A, Crystal Structure Of Staphylococcus Aureus Protein Sa1388
 pdb|3LNL|B Chain B, Crystal Structure Of Staphylococcus Aureus Protein Sa1388
          Length = 370

 Score = 26.2 bits (56), Expect = 9.5,   Method: Compositional matrix adjust.
 Identities = 15/62 (24%), Positives = 32/62 (51%), Gaps = 1/62 (1%)

Query: 101 GMVEQEQEKNKIAVSFECETLKAEKVAEDHIKQYMPKLAGLDAVVNIGKMRISGLDIEAE 160
           G +++ ++ +++ + F  +  +  + AE  IKQY P    +   + I +  + GL + AE
Sbjct: 189 GQIDKIEDVDEVKIEFMIDAYQKSR-AEQLIKQYHPYETPVFDFIEIKQTSLYGLGVMAE 247

Query: 161 ED 162
            D
Sbjct: 248 VD 249


>pdb|2NYD|A Chain A, Crystal Structure Of Staphylococcus Aureus Hypothetical
           Protein Sa1388
 pdb|2NYD|B Chain B, Crystal Structure Of Staphylococcus Aureus Hypothetical
           Protein Sa1388
          Length = 370

 Score = 26.2 bits (56), Expect = 9.7,   Method: Compositional matrix adjust.
 Identities = 15/62 (24%), Positives = 32/62 (51%), Gaps = 1/62 (1%)

Query: 101 GMVEQEQEKNKIAVSFECETLKAEKVAEDHIKQYMPKLAGLDAVVNIGKMRISGLDIEAE 160
           G +++ ++ +++ + F  +  +  + AE  IKQY P    +   + I +  + GL + AE
Sbjct: 189 GQIDKIEDVDEVKIEFMIDAYQKSR-AEQLIKQYHPYETPVFDFIEIKQTSLYGLGVMAE 247

Query: 161 ED 162
            D
Sbjct: 248 VD 249


  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
   0.317    0.135    0.399 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,567,909
Number of Sequences: 62578
Number of extensions: 173431
Number of successful extensions: 475
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: 475
Number of HSP's gapped (non-prelim): 2
length of query: 163
length of database: 14,973,337
effective HSP length: 91
effective length of query: 72
effective length of database: 9,278,739
effective search space: 668069208
effective search space used: 668069208
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 47 (22.7 bits)