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= 001969
         (989 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 = 58.9 bits (141), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 36/101 (35%), Positives = 50/101 (49%), Gaps = 2/101 (1%)

Query: 131 FFCKTLTASDTSTHGGFSVPRRAAEKIFPPLDFSMQPPAQELMARDLHDNIWTFRHIYRG 190
            F K +T SD        +P+  AEK FP    ++      L   D++  +W FR+ Y  
Sbjct: 13  LFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYWN 72

Query: 191 QPKRHLLTTGWSLFVSGKRLFAGDSVLFIRD--EKQQLLLG 229
             + ++LT GWS FV  K L AGD V F R   + QQL +G
Sbjct: 73  SSQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQDQQLYIG 113


  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
   0.315    0.131    0.387 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 24,968,039
Number of Sequences: 62578
Number of extensions: 953349
Number of successful extensions: 1806
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: 1803
Number of HSP's gapped (non-prelim): 3
length of query: 989
length of database: 14,973,337
effective HSP length: 108
effective length of query: 881
effective length of database: 8,214,913
effective search space: 7237338353
effective search space used: 7237338353
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: 56 (26.2 bits)