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= 013166
         (448 letters)

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

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



>pdb|3L5Z|A Chain A, Crystal Structure Of Transcriptional Regulator, Gntr
           Family From Bacillus Cereus
 pdb|3L5Z|B Chain B, Crystal Structure Of Transcriptional Regulator, Gntr
           Family From Bacillus Cereus
          Length = 156

 Score = 30.4 bits (67), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 15/49 (30%), Positives = 23/49 (46%)

Query: 101 VIPSSTAPVDSDEYRAYLKTKLDLACAAVALRTAPVKPEDKSSLIENQT 149
           VIP   A V  +   +Y++ KL L      +R   ++P+DK     N T
Sbjct: 62  VIPGVEASVLEESIYSYIQNKLGLKVGTSVVRVKGIRPDDKEKQFXNLT 110


>pdb|2Q2E|A Chain A, Crystal Structure Of The Topoisomerase Vi Holoenzyme From
           Methanosarcina Mazei
          Length = 369

 Score = 29.3 bits (64), Expect = 4.2,   Method: Compositional matrix adjust.
 Identities = 22/86 (25%), Positives = 40/86 (46%), Gaps = 9/86 (10%)

Query: 356 NQFFHQAIPSISTPTPNHQSLDSSFPSNIQLPTVGNPQSDRGGKNMTETSPL---QHAVG 412
           NQF  + +PS+S P+    +L+ S  S++ +   G+ +S+R  K +     L    +A  
Sbjct: 29  NQFEEEVVPSVSLPSRTKANLEYSDESDVWV--YGDRESERSAKTVKGAFQLLKTTYATD 86

Query: 413 L---EHVPQGVGHRVSPPGAV-PGWD 434
               EH+ +  G  +     +  GWD
Sbjct: 87  FLINEHLARNRGSTLRELYYISEGWD 112


  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
   0.310    0.127    0.361 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,370,871
Number of Sequences: 62578
Number of extensions: 384846
Number of successful extensions: 704
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 702
Number of HSP's gapped (non-prelim): 3
length of query: 448
length of database: 14,973,337
effective HSP length: 102
effective length of query: 346
effective length of database: 8,590,381
effective search space: 2972271826
effective search space used: 2972271826
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 53 (25.0 bits)