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= 038867
         (721 letters)

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

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



>pdb|1WID|A Chain A, Solution Structure Of The B3 Dna-Binding Domain Of Rav1
          Length = 130

 Score = 55.1 bits (131), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 34/91 (37%), Positives = 49/91 (53%), Gaps = 9/91 (9%)

Query: 574 LLQKVLKQSDVGNLGRIVLPKKEAETHLPELEAR---DGISIAMEDIGTSRVWNMRYSFR 630
           L +K +  SDVG L R+V+PK  AE H P   +     G+ +  ED+   +VW  RYS  
Sbjct: 13  LFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDV-NGKVWRFRYS-- 69

Query: 631 FWPNNKSRMYLL-ENTGDFVKANGLQEGDFI 660
           +W  N S+ Y+L +    FVK   L+ GD +
Sbjct: 70  YW--NSSQSYVLTKGWSRFVKEKNLRAGDVV 98


  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
   0.316    0.131    0.394 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,689,755
Number of Sequences: 62578
Number of extensions: 641640
Number of successful extensions: 1233
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1231
Number of HSP's gapped (non-prelim): 2
length of query: 721
length of database: 14,973,337
effective HSP length: 106
effective length of query: 615
effective length of database: 8,340,069
effective search space: 5129142435
effective search space used: 5129142435
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 55 (25.8 bits)