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= 025538
         (251 letters)

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

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



>pdb|2VKD|A Chain A, Crystal Structure Of The Catalytic Domain Of Lethal Toxin
           From Clostridium Sordellii In Complex With Udp-glc And
           Manganese Ion
 pdb|2VKD|B Chain B, Crystal Structure Of The Catalytic Domain Of Lethal Toxin
           From Clostridium Sordellii In Complex With Udp-glc And
           Manganese Ion
 pdb|2VKD|C Chain C, Crystal Structure Of The Catalytic Domain Of Lethal Toxin
           From Clostridium Sordellii In Complex With Udp-glc And
           Manganese Ion
 pdb|2VKH|A Chain A, Crystal Structure Of The Catalytic Domain Of Lethal Toxin
           From Clostridium Sordellii In Complex With Udp-glc And
           Calcium Ion
 pdb|2VKH|B Chain B, Crystal Structure Of The Catalytic Domain Of Lethal Toxin
           From Clostridium Sordellii In Complex With Udp-glc And
           Calcium Ion
 pdb|2VKH|C Chain C, Crystal Structure Of The Catalytic Domain Of Lethal Toxin
           From Clostridium Sordellii In Complex With Udp-glc And
           Calcium Ion
 pdb|2VL8|A Chain A, Crystal Structure Of The Catalytic Domain Of Lethal Toxin
           From Clostridium Sordellii In Complex With Udp,
           Castanospermine And Calcium Ion
 pdb|2VL8|B Chain B, Crystal Structure Of The Catalytic Domain Of Lethal Toxin
           From Clostridium Sordellii In Complex With Udp,
           Castanospermine And Calcium Ion
 pdb|2VL8|C Chain C, Crystal Structure Of The Catalytic Domain Of Lethal Toxin
           From Clostridium Sordellii In Complex With Udp,
           Castanospermine And Calcium Ion
          Length = 546

 Score = 27.3 bits (59), Expect = 8.8,   Method: Compositional matrix adjust.
 Identities = 10/23 (43%), Positives = 17/23 (73%)

Query: 42  TDYRVKVMLDRNVYLVDTVRERI 64
           +DY VKV  D N +L++T+++ I
Sbjct: 123 SDYTVKVFYDSNAFLINTLKKTI 145


  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
   0.322    0.138    0.457 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,369,687
Number of Sequences: 62578
Number of extensions: 356723
Number of successful extensions: 751
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: 750
Number of HSP's gapped (non-prelim): 4
length of query: 251
length of database: 14,973,337
effective HSP length: 96
effective length of query: 155
effective length of database: 8,965,849
effective search space: 1389706595
effective search space used: 1389706595
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 50 (23.9 bits)