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= 047336
         (290 letters)

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

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



>pdb|3PLT|A Chain A, Crystal Structure Of Lsp1 From Saccharomyces Cerevisiae
 pdb|3PLT|B Chain B, Crystal Structure Of Lsp1 From Saccharomyces Cerevisiae
 pdb|3PLT|C Chain C, Crystal Structure Of Lsp1 From Saccharomyces Cerevisiae
          Length = 234

 Score = 33.1 bits (74), Expect = 0.18,   Method: Compositional matrix adjust.
 Identities = 17/70 (24%), Positives = 35/70 (50%)

Query: 66  DDPDFGTIMDEINCFTYESGKVIDTLINSITQQKSQSRYNKDICDALQGLQSRITEIKQR 125
           +D D   + D++    YE G++ D  I+   Q +   +  ++I  ++Q  + R  +I   
Sbjct: 60  NDDDVSDVTDKLGVLIYELGELQDQFIDKYDQYRVTLKSIRNIEASVQPSRDRKEKITDE 119

Query: 126 VQQLKHTDPK 135
           +  LK+ DP+
Sbjct: 120 IAHLKYKDPQ 129


>pdb|2VOA|A Chain A, Structure Of An Ap Endonuclease From Archaeoglobus
          Fulgidus
 pdb|2VOA|B Chain B, Structure Of An Ap Endonuclease From Archaeoglobus
          Fulgidus
          Length = 257

 Score = 28.9 bits (63), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 12/43 (27%), Positives = 24/43 (55%)

Query: 31 IHNLNAEVEIVTSWLREFEDDISCLLFHKIAEEEIDDPDFGTI 73
          ++++ + + IV  WL+E + DI C+   K+   +  + DF  I
Sbjct: 9  VNSIRSRLHIVIPWLKENKPDILCMQETKVENRKFPEADFHRI 51


  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
   0.319    0.134    0.396 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,064,966
Number of Sequences: 62578
Number of extensions: 297652
Number of successful extensions: 641
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 638
Number of HSP's gapped (non-prelim): 4
length of query: 290
length of database: 14,973,337
effective HSP length: 98
effective length of query: 192
effective length of database: 8,840,693
effective search space: 1697413056
effective search space used: 1697413056
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: 51 (24.3 bits)