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= 031501
         (158 letters)

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

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



>pdb|4GW9|A Chain A, Structure Of A Bacteriophytochrome And Light-Stimulated
           Protomer Swapping With A Gene Repressor
 pdb|4GW9|B Chain B, Structure Of A Bacteriophytochrome And Light-Stimulated
           Protomer Swapping With A Gene Repressor
 pdb|4GW9|C Chain C, Structure Of A Bacteriophytochrome And Light-Stimulated
           Protomer Swapping With A Gene Repressor
 pdb|4GW9|D Chain D, Structure Of A Bacteriophytochrome And Light-Stimulated
           Protomer Swapping With A Gene Repressor
          Length = 655

 Score = 28.5 bits (62), Expect = 1.8,   Method: Composition-based stats.
 Identities = 15/31 (48%), Positives = 17/31 (54%), Gaps = 3/31 (9%)

Query: 131 PTAVSHRI---SKRRKGIPHRAPMGGLLIEF 158
           P AV  RI   S    G+ HR P GGL+IE 
Sbjct: 111 PVAVRCRIGNPSTEYDGLXHRPPEGGLIIEL 141


  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
   0.320    0.135    0.399 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,176,162
Number of Sequences: 62578
Number of extensions: 139476
Number of successful extensions: 293
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: 293
Number of HSP's gapped (non-prelim): 1
length of query: 158
length of database: 14,973,337
effective HSP length: 91
effective length of query: 67
effective length of database: 9,278,739
effective search space: 621675513
effective search space used: 621675513
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 47 (22.7 bits)