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= 042877
         (94 letters)

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

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



>pdb|3HU5|A Chain A, Crystal Structure Of Isochorismatase Family Protein From
           Desulfovibrio Vulgaris Subsp. Vulgaris Str.
           Hildenborough
 pdb|3HU5|B Chain B, Crystal Structure Of Isochorismatase Family Protein From
           Desulfovibrio Vulgaris Subsp. Vulgaris Str.
           Hildenborough
          Length = 204

 Score = 26.2 bits (56), Expect = 5.4,   Method: Compositional matrix adjust.
 Identities = 7/20 (35%), Positives = 16/20 (80%)

Query: 31  IMKRKGAETLQIAGSSLPDC 50
           +++R+G +TL ++G+  P+C
Sbjct: 120 LLRRRGVDTLLVSGTQYPNC 139


  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    0.131    0.444 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,716,528
Number of Sequences: 62578
Number of extensions: 90499
Number of successful extensions: 301
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 300
Number of HSP's gapped (non-prelim): 6
length of query: 94
length of database: 14,973,337
effective HSP length: 61
effective length of query: 33
effective length of database: 11,156,079
effective search space: 368150607
effective search space used: 368150607
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 45 (21.9 bits)