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= 005927
         (669 letters)

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

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



>pdb|4A7W|A Chain A, Crystal Structure Of Uridylate Kinase From Helicobacter
           Pylori
 pdb|4A7W|B Chain B, Crystal Structure Of Uridylate Kinase From Helicobacter
           Pylori
 pdb|4A7X|A Chain A, Crystal Structure Of Uridylate Kinase From Helicobacter
           Pylori
 pdb|4A7X|B Chain B, Crystal Structure Of Uridylate Kinase From Helicobacter
           Pylori
 pdb|4A7X|C Chain C, Crystal Structure Of Uridylate Kinase From Helicobacter
           Pylori
 pdb|4A7X|D Chain D, Crystal Structure Of Uridylate Kinase From Helicobacter
           Pylori
 pdb|4A7X|E Chain E, Crystal Structure Of Uridylate Kinase From Helicobacter
           Pylori
 pdb|4A7X|F Chain F, Crystal Structure Of Uridylate Kinase From Helicobacter
           Pylori
          Length = 240

 Score = 28.9 bits (63), Expect = 8.6,   Method: Compositional matrix adjust.
 Identities = 19/46 (41%), Positives = 24/46 (52%), Gaps = 7/46 (15%)

Query: 8   KEALEGIGNDGELKVGTEVKSDAEAYNLCNNYAFRKGFS-LRKGHV 52
           +EALE IG D      T V+S  E   +C +Y +RK    L KG V
Sbjct: 91  QEALEHIGLD------TRVQSAIEIKEICESYIYRKAIRHLEKGRV 130


  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    0.136    0.416 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,391,666
Number of Sequences: 62578
Number of extensions: 791973
Number of successful extensions: 1403
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1402
Number of HSP's gapped (non-prelim): 4
length of query: 669
length of database: 14,973,337
effective HSP length: 105
effective length of query: 564
effective length of database: 8,402,647
effective search space: 4739092908
effective search space used: 4739092908
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: 55 (25.8 bits)