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= 013585
         (440 letters)

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

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



>pdb|2LDU|A Chain A, Solution Nmr Structure Of Heat Shock Factor Protein 1 Dna
           Binding Domain From Homo Sapiens, Northeast Structural
           Genomics Consortium Target Hr3023c
          Length = 125

 Score = 28.5 bits (62), Expect = 8.4,   Method: Compositional matrix adjust.
 Identities = 18/42 (42%), Positives = 23/42 (54%), Gaps = 11/42 (26%)

Query: 23  GFRKV---------DPDR--WEFANEGFLRGQKHLLRSISRR 53
           GFRKV          P+R   EF +  FLRGQ+ LL +I R+
Sbjct: 79  GFRKVVHIEQGGLVKPERDDTEFQHPCFLRGQEQLLENIKRK 120


  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
   0.312    0.128    0.352 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,123,882
Number of Sequences: 62578
Number of extensions: 329202
Number of successful extensions: 476
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 475
Number of HSP's gapped (non-prelim): 2
length of query: 440
length of database: 14,973,337
effective HSP length: 102
effective length of query: 338
effective length of database: 8,590,381
effective search space: 2903548778
effective search space used: 2903548778
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (25.0 bits)