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= 001821
         (1009 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 = 2e-07,   Method: Composition-based stats.
 Identities = 34/101 (33%), Positives = 48/101 (47%), Gaps = 2/101 (1%)

Query: 114 FFCKTLTASDTSTHGGFSVPRRAAEKIFPPLDYSMQPPAQEIVARDLHDTTWTFRHIYRG 173
            F K +T SD        +P+  AEK FP    ++      +   D++   W FR+ Y  
Sbjct: 13  LFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYWN 72

Query: 174 QPKRHLLTTGWSVFVSTKRLFAGDSVLFIRD--EKSQLLLG 212
             + ++LT GWS FV  K L AGD V F R   +  QL +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
   0.316    0.131    0.393 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,001,796
Number of Sequences: 62578
Number of extensions: 816580
Number of successful extensions: 1685
Number of sequences better than 100.0: 1
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1683
Number of HSP's gapped (non-prelim): 1
length of query: 1009
length of database: 14,973,337
effective HSP length: 108
effective length of query: 901
effective length of database: 8,214,913
effective search space: 7401636613
effective search space used: 7401636613
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)