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= psy3027
         (300 letters)

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

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



>pdb|1BI9|A Chain A, Retinal Dehydrogenase Type Two With Nad Bound
 pdb|1BI9|B Chain B, Retinal Dehydrogenase Type Two With Nad Bound
 pdb|1BI9|C Chain C, Retinal Dehydrogenase Type Two With Nad Bound
 pdb|1BI9|D Chain D, Retinal Dehydrogenase Type Two With Nad Bound
          Length = 499

 Score = 27.3 bits (59), Expect = 9.4,   Method: Compositional matrix adjust.
 Identities = 15/41 (36%), Positives = 20/41 (48%), Gaps = 4/41 (9%)

Query: 172 LDSLASLSGRKPMLMAIYKKIDKASDTLEYFAHRQWVWTDH 212
           L ++ SL+G KP L A Y  +     TL Y+A     W D 
Sbjct: 101 LATMESLNGGKPFLQAFYIDLQGVIKTLRYYAG----WADK 137


  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
   0.325    0.141    0.461 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,427,636
Number of Sequences: 62578
Number of extensions: 401645
Number of successful extensions: 894
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 893
Number of HSP's gapped (non-prelim): 4
length of query: 300
length of database: 14,973,337
effective HSP length: 98
effective length of query: 202
effective length of database: 8,840,693
effective search space: 1785819986
effective search space used: 1785819986
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (24.3 bits)