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= 040122
         (388 letters)

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

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



>pdb|3CLM|A Chain A, Crystal Structure Of Transaldolase (Yp_208650.1) From
           Neisseria Gonorrhoeae Fa 1090 At 1.14 A Resolution
          Length = 352

 Score = 29.6 bits (65), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 14/58 (24%), Positives = 25/58 (43%)

Query: 194 DNKEPQKLKSEENLLVANQIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAF 251
           D   P +LK +  + +A      +++    P+   L   G ++VQ LW      N A+
Sbjct: 211 DATLPDRLKGKTAIALAKAAYQDWEQYFTAPEFAALEAQGANRVQLLWASTGVKNPAY 268


>pdb|1TJL|A Chain A, Crystal Structure Of Transcription Factor Dksa From E.
          Coli
 pdb|1TJL|B Chain B, Crystal Structure Of Transcription Factor Dksa From E.
          Coli
 pdb|1TJL|C Chain C, Crystal Structure Of Transcription Factor Dksa From E.
          Coli
 pdb|1TJL|D Chain D, Crystal Structure Of Transcription Factor Dksa From E.
          Coli
 pdb|1TJL|E Chain E, Crystal Structure Of Transcription Factor Dksa From E.
          Coli
 pdb|1TJL|F Chain F, Crystal Structure Of Transcription Factor Dksa From E.
          Coli
 pdb|1TJL|G Chain G, Crystal Structure Of Transcription Factor Dksa From E.
          Coli
 pdb|1TJL|H Chain H, Crystal Structure Of Transcription Factor Dksa From E.
          Coli
 pdb|1TJL|I Chain I, Crystal Structure Of Transcription Factor Dksa From E.
          Coli
 pdb|1TJL|J Chain J, Crystal Structure Of Transcription Factor Dksa From E.
          Coli
          Length = 151

 Score = 29.3 bits (64), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 13/28 (46%), Positives = 16/28 (57%)

Query: 43 YDEKIGFLDINRLQLSHFPRLQEIWHGQ 70
          Y EK G   +N  QL+HF R+ E W  Q
Sbjct: 23 YQEKPGEEYMNEAQLAHFRRILEAWRNQ 50


  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
   0.319    0.135    0.407 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,350,892
Number of Sequences: 62578
Number of extensions: 379086
Number of successful extensions: 774
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: 767
Number of HSP's gapped (non-prelim): 22
length of query: 388
length of database: 14,973,337
effective HSP length: 101
effective length of query: 287
effective length of database: 8,652,959
effective search space: 2483399233
effective search space used: 2483399233
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 52 (24.6 bits)