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= 014763
         (419 letters)

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

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



>pdb|3EEA|A Chain A, The Crystal Structure Of The Gaf DomainHD DOMAIN PROTEIN
           From Geobacter Sulfurreducens
 pdb|3EEA|B Chain B, The Crystal Structure Of The Gaf DomainHD DOMAIN PROTEIN
           From Geobacter Sulfurreducens
          Length = 162

 Score = 34.7 bits (78), Expect = 0.11,   Method: Compositional matrix adjust.
 Identities = 17/55 (30%), Positives = 26/55 (47%)

Query: 234 PHQDEGVSCKFFLQMLKMAMVYNASPALISELEKRVGMMLEDANANDLLIPNYKN 288
           P +  G+   F     +M +  +  P L S L KR  +ML D  ++DLL P  + 
Sbjct: 48  PARSTGLPASFLPVFREMPLAPDKIPLLKSMLRKRQHLMLTDPGSSDLLTPKLRK 102


>pdb|3K17|A Chain A, Crystal Structure Of A Lin0012 Protein From Listeria
           Innocua
 pdb|3K17|B Chain B, Crystal Structure Of A Lin0012 Protein From Listeria
           Innocua
 pdb|3K17|C Chain C, Crystal Structure Of A Lin0012 Protein From Listeria
           Innocua
 pdb|3K17|D Chain D, Crystal Structure Of A Lin0012 Protein From Listeria
           Innocua
          Length = 365

 Score = 31.6 bits (70), Expect = 0.88,   Method: Compositional matrix adjust.
 Identities = 12/37 (32%), Positives = 25/37 (67%)

Query: 252 AMVYNASPALISELEKRVGMMLEDANANDLLIPNYKN 288
           A+V +   A+++ + + + + LED+  N+L IP+Y+N
Sbjct: 22  AVVESGHTAILTAVNRYITLTLEDSERNELWIPHYEN 58


>pdb|1W1W|A Chain A, Sc Smc1hd:scc1-c Complex, Atpgs
 pdb|1W1W|B Chain B, Sc Smc1hd:scc1-c Complex, Atpgs
 pdb|1W1W|C Chain C, Sc Smc1hd:scc1-c Complex, Atpgs
 pdb|1W1W|D Chain D, Sc Smc1hd:scc1-c Complex, Atpgs
          Length = 430

 Score = 28.5 bits (62), Expect = 7.6,   Method: Compositional matrix adjust.
 Identities = 12/38 (31%), Positives = 23/38 (60%)

Query: 184 PGMDVELEGLRGYGYGKHELQFSILNAGKEEVSVGQKE 221
           PG++V  +G RG  Y + E +F ++N   E++   +K+
Sbjct: 216 PGLEVLFQGPRGSRYDEAEGRFEVINNETEQLKAEEKK 253


>pdb|2VT2|A Chain A, Structure And Functional Properties Of The Bacillus
           Subtilis Transcriptional Repressor Rex
 pdb|2VT2|B Chain B, Structure And Functional Properties Of The Bacillus
           Subtilis Transcriptional Repressor Rex
 pdb|2VT3|A Chain A, Structure And Functional Properties Of The Bacillus
           Subtilis Transcriptional Repressor Rex
 pdb|2VT3|B Chain B, Structure And Functional Properties Of The Bacillus
           Subtilis Transcriptional Repressor Rex
          Length = 215

 Score = 28.1 bits (61), Expect = 8.8,   Method: Compositional matrix adjust.
 Identities = 13/29 (44%), Positives = 18/29 (62%), Gaps = 2/29 (6%)

Query: 292 AKLNSPEHNTMHNIDVVQRIMD--YFLMH 318
           A+LN PEH  +H+ID+   +    YFL H
Sbjct: 179 ARLNVPEHIRIHHIDLAVELQSLVYFLKH 207


  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
   0.320    0.136    0.405 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,077,918
Number of Sequences: 62578
Number of extensions: 492418
Number of successful extensions: 1080
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1075
Number of HSP's gapped (non-prelim): 7
length of query: 419
length of database: 14,973,337
effective HSP length: 101
effective length of query: 318
effective length of database: 8,652,959
effective search space: 2751640962
effective search space used: 2751640962
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: 53 (25.0 bits)