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= 029378
         (194 letters)

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

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



>pdb|1FXW|F Chain F, Crystal Structure Of The Recombinant Alpha1ALPHA2
           Catalytic Heterodimer Of Bovine Brain
           Platelet-Activating Factor Acetylhydrolase Ib.
 pdb|1VYH|A Chain A, Paf-Ah Holoenzyme: Lis1ALFA2
 pdb|1VYH|B Chain B, Paf-Ah Holoenzyme: Lis1ALFA2
 pdb|1VYH|E Chain E, Paf-Ah Holoenzyme: Lis1ALFA2
 pdb|1VYH|F Chain F, Paf-Ah Holoenzyme: Lis1ALFA2
 pdb|1VYH|I Chain I, Paf-Ah Holoenzyme: Lis1ALFA2
 pdb|1VYH|J Chain J, Paf-Ah Holoenzyme: Lis1ALFA2
 pdb|1VYH|M Chain M, Paf-Ah Holoenzyme: Lis1ALFA2
 pdb|1VYH|N Chain N, Paf-Ah Holoenzyme: Lis1ALFA2
 pdb|1VYH|Q Chain Q, Paf-Ah Holoenzyme: Lis1ALFA2
 pdb|1VYH|R Chain R, Paf-Ah Holoenzyme: Lis1ALFA2
          Length = 229

 Score = 29.3 bits (64), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 15/42 (35%), Positives = 18/42 (42%), Gaps = 9/42 (21%)

Query: 3   GIGGDTASAASPVSQWGHDAWRLYQYYLDKTTPHAVYRWIGT 44
           GIGGDT           H  WRL    L+   P  +  W+GT
Sbjct: 72  GIGGDTTR---------HVLWRLKNGELENIKPKVIVVWVGT 104


  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
   0.332    0.146    0.501 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,797,449
Number of Sequences: 62578
Number of extensions: 158806
Number of successful extensions: 326
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 325
Number of HSP's gapped (non-prelim): 8
length of query: 194
length of database: 14,973,337
effective HSP length: 94
effective length of query: 100
effective length of database: 9,091,005
effective search space: 909100500
effective search space used: 909100500
T: 11
A: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 49 (23.5 bits)