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= psy10876
         (319 letters)

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

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



>pdb|2GL5|A Chain A, Crystal Structure Of Putative Dehydratase From Salmonella
           Thyphimurium
 pdb|2GL5|B Chain B, Crystal Structure Of Putative Dehydratase From Salmonella
           Thyphimurium
          Length = 410

 Score = 30.0 bits (66), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 19/67 (28%), Positives = 27/67 (40%), Gaps = 13/67 (19%)

Query: 252 FDTEFQSRGCNNSYLIVHKQNM---------HQLYNNLMLSNQARLCFHEYKERNSYEYN 302
           +DT  Q   C      V   +M         H+ + N M ++   LC H+Y+  N Y   
Sbjct: 319 YDTTVQVHVCGGPVSTVAALHMETAIPNFIIHEHHTNAMKASIRELCTHDYQPENGY--- 375

Query: 303 WKVAPSQ 309
             VAP Q
Sbjct: 376 -YVAPEQ 381


>pdb|4E6M|A Chain A, Crystal Structure Of Putative Dehydratase Protein From
           Salmonella Enterica Subsp. Enterica Serovar Typhimurium
           (Salmonella Typhimurium)
 pdb|4E6M|B Chain B, Crystal Structure Of Putative Dehydratase Protein From
           Salmonella Enterica Subsp. Enterica Serovar Typhimurium
           (Salmonella Typhimurium)
 pdb|4E6M|C Chain C, Crystal Structure Of Putative Dehydratase Protein From
           Salmonella Enterica Subsp. Enterica Serovar Typhimurium
           (Salmonella Typhimurium)
 pdb|4E6M|D Chain D, Crystal Structure Of Putative Dehydratase Protein From
           Salmonella Enterica Subsp. Enterica Serovar Typhimurium
           (Salmonella Typhimurium)
 pdb|4E6M|E Chain E, Crystal Structure Of Putative Dehydratase Protein From
           Salmonella Enterica Subsp. Enterica Serovar Typhimurium
           (Salmonella Typhimurium)
 pdb|4E6M|F Chain F, Crystal Structure Of Putative Dehydratase Protein From
           Salmonella Enterica Subsp. Enterica Serovar Typhimurium
           (Salmonella Typhimurium)
 pdb|4E6M|G Chain G, Crystal Structure Of Putative Dehydratase Protein From
           Salmonella Enterica Subsp. Enterica Serovar Typhimurium
           (Salmonella Typhimurium)
 pdb|4E6M|H Chain H, Crystal Structure Of Putative Dehydratase Protein From
           Salmonella Enterica Subsp. Enterica Serovar Typhimurium
           (Salmonella Typhimurium)
          Length = 423

 Score = 30.0 bits (66), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 19/67 (28%), Positives = 27/67 (40%), Gaps = 13/67 (19%)

Query: 252 FDTEFQSRGCNNSYLIVHKQNM---------HQLYNNLMLSNQARLCFHEYKERNSYEYN 302
           +DT  Q   C      V   +M         H+ + N M ++   LC H+Y+  N Y   
Sbjct: 340 YDTTVQVHVCGGPVSTVAALHMETAIPNFIIHEHHTNAMKASIRELCTHDYQPENGY--- 396

Query: 303 WKVAPSQ 309
             VAP Q
Sbjct: 397 -YVAPEQ 402


>pdb|1QCW|A Chain A, Flavocytochrome B2, Arg289lys Mutant
 pdb|1QCW|B Chain B, Flavocytochrome B2, Arg289lys Mutant
          Length = 410

 Score = 28.9 bits (63), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 18/40 (45%), Positives = 23/40 (57%), Gaps = 8/40 (20%)

Query: 68  KNIRDTWIKNIEKYQVKYLF------SIGNKENVVDVKLK 101
           + I D  +KN+EK  VK LF      S+G KE   D+KLK
Sbjct: 158 RKITDDLVKNVEKLGVKALFVTVDAPSLGQKEK--DMKLK 195


  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
   0.325    0.140    0.435 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,680,290
Number of Sequences: 62578
Number of extensions: 407353
Number of successful extensions: 1094
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 1091
Number of HSP's gapped (non-prelim): 18
length of query: 319
length of database: 14,973,337
effective HSP length: 99
effective length of query: 220
effective length of database: 8,778,115
effective search space: 1931185300
effective search space used: 1931185300
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (24.3 bits)