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= 046583
         (400 letters)

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

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



>pdb|3S1S|A Chain A, Characterization And Crystal Structure Of The Type Iig
           Restriction Endonuclease Bpusi
          Length = 878

 Score = 31.2 bits (69), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 21/79 (26%), Positives = 38/79 (48%), Gaps = 4/79 (5%)

Query: 224 LDLNVAQRYTTITRTIAEMFQRRYLAGWEWVYDKITPTARQQIIHNVFQSDGWNVDVPSN 283
           + +N A  Y + T  + ++ + R      W   +    A  + I  V +  G NV+VP+ 
Sbjct: 165 ISVNDAGTYKSSTANLVDILENRKDNSTSW--HQALVVAGYEYIRGVLR--GQNVEVPTR 220

Query: 284 NAVSFVSRHGFVFEVNREL 302
           +A+ F SR G + E  R++
Sbjct: 221 DAIYFKSRPGRLLEEGRKI 239


  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    0.136    0.448 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,578,766
Number of Sequences: 62578
Number of extensions: 519689
Number of successful extensions: 879
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: 879
Number of HSP's gapped (non-prelim): 1
length of query: 400
length of database: 14,973,337
effective HSP length: 101
effective length of query: 299
effective length of database: 8,652,959
effective search space: 2587234741
effective search space used: 2587234741
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: 52 (24.6 bits)