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= 026922
         (231 letters)

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

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



>pdb|3KP9|A Chain A, Structure Of A Bacterial Homolog Of Vitamin K Epoxide
           Reductase
          Length = 291

 Score = 38.5 bits (88), Expect = 0.003,   Method: Compositional matrix adjust.
 Identities = 37/122 (30%), Positives = 50/122 (40%), Gaps = 19/122 (15%)

Query: 69  IGGVGFLETTYLSYLKLTNSD-AFCPIGGASCGDVLNSDYAVVFGVP------LPFIGMF 121
           + G+G L T YL+Y KLT    AFC  G      VL+S +A   G+P      L F+G+ 
Sbjct: 26  LAGLGSLLTAYLTYTKLTEQPAAFC-TGDGGSDLVLSSRWAEFLGIPTAAVGLLGFLGVL 84

Query: 122 AYXXXXXXXXXXXRKSFPIGINESYGRLILLGSSTSMAAASAYFLYILSTNFSGATCSYC 181
           A            R  +P           L G  ++M A   Y LY++        C YC
Sbjct: 85  ALAVLPDGLPLVKRWRWP----------ALFGLVSAMTAFEMYMLYLMVAVLR-QFCMYC 133

Query: 182 LT 183
            T
Sbjct: 134 TT 135


  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
   0.328    0.141    0.451 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,412,749
Number of Sequences: 62578
Number of extensions: 122641
Number of successful extensions: 232
Number of sequences better than 100.0: 1
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 231
Number of HSP's gapped (non-prelim): 1
length of query: 231
length of database: 14,973,337
effective HSP length: 96
effective length of query: 135
effective length of database: 8,965,849
effective search space: 1210389615
effective search space used: 1210389615
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 50 (23.9 bits)