BLASTP 2.2.18 [Mar-02-2008]


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= 0454.0001.p
         (220 letters)

Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF 
           2,715,099 sequences; 757,237,578 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

ref|ZP_00061952.1| COG1396: Predicted transcriptional regulators...    70   4e-11
ref|NP_657233.1| HTH_3, Helix-turn-helix [Bacillus anthracis A20...    65   1e-09
ref|NP_720853.1| putative transcriptional regulator [Streptococc...    65   1e-09
ref|ZP_00036952.1| COG1396: Predicted transcriptional regulators...    65   1e-09
ref|ZP_00097244.1| COG1396: Predicted transcriptional regulators...    64   2e-09

>ref|ZP_00061952.1| COG1396: Predicted transcriptional regulators [Clostridium
           thermocellum ATCC 27405]
          Length = 377

 Score = 69.7 bits (169), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 35/86 (40%), Positives = 53/86 (61%), Gaps = 7/86 (8%)

Query: 28  QIRIGENLRKLRIKNELTQEKLAEVFGVSPQAISRWENNSAYPDVTMLPSLANYYNTSID 87
           +I I   + K+R +  LTQE +A   GVS  ++S+WE   +YPD+T LP LA  +N SID
Sbjct: 6   EINIARTIVKMRREKGLTQEDIANYIGVSKASVSKWETGQSYPDITFLPQLATLFNISID 65

Query: 88  ELIGM------DDIRNVE-KINSTFS 106
           EL+G       +DIR +  K+++ F+
Sbjct: 66  ELMGYEPQMSKEDIRKLYVKLSADFA 91


>ref|NP_657233.1| HTH_3, Helix-turn-helix [Bacillus anthracis A2012]
 ref|NP_845659.1| DNA-binding protein [Bacillus anthracis str. Ames]
 gb|AAP27145.1| DNA-binding protein [Bacillus anthracis str. Ames]
          Length = 374

 Score = 65.1 bits (157), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 33/86 (38%), Positives = 53/86 (61%), Gaps = 7/86 (8%)

Query: 28  QIRIGENLRKLRIKNELTQEKLAEVFGVSPQAISRWENNSAYPDVTMLPSLANYYNTSID 87
           +I I + +   R +  +TQE+LA   G++  ++S+WE   +YPD+T LP LA+Y+N SID
Sbjct: 3   EINIHKIIADKRKEKGITQEELAAYIGITKASVSKWETGQSYPDITFLPLLASYFNISID 62

Query: 88  ELIG------MDDIRNV-EKINSTFS 106
           ELI        +DI+N+  ++   FS
Sbjct: 63  ELISYKPQMEQEDIKNLYHRLAEAFS 88


>ref|NP_720853.1| putative transcriptional regulator [Streptococcus mutans UA159]
 gb|AAN58159.1| putative transcriptional regulator [Streptococcus mutans UA159]
          Length = 135

 Score = 64.7 bits (156), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 35/94 (37%), Positives = 55/94 (58%), Gaps = 1/94 (1%)

Query: 29  IRIGENLRKLRIKNELTQEKLAEVFGVSPQAISRWENNSAYPDVTMLPSLANYYNTSIDE 88
           + IGE L+  R ++ LTQE +A++  VS Q IS WEN  +YPD+  L  L++ Y  S+D 
Sbjct: 1   MNIGEKLKTARQQSHLTQEAVADLILVSRQTISNWENEKSYPDIVNLIKLSDLYQISLDT 60

Query: 89  LIGMDDIRNVEKINSTFSIVHEYENILPFELEEL 122
           L+  DD + +E ++ T + V   + +  F L  L
Sbjct: 61  LLK-DDGKMIEHLDKTTNAVKSNQKLQTFLLSYL 93


>ref|ZP_00036952.1| COG1396: Predicted transcriptional regulators [Enterococcus
          faecium]
          Length = 153

 Score = 64.7 bits (156), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 27/67 (40%), Positives = 44/67 (65%)

Query: 31 IGENLRKLRIKNELTQEKLAEVFGVSPQAISRWENNSAYPDVTMLPSLANYYNTSIDELI 90
          +G  LR+LR+K   TQE +A  F V+ Q IS+WENN   PD+  L  +  +Y+T+I+ ++
Sbjct: 4  LGSKLRELRVKKGYTQEYVARKFNVTRQTISKWENNKTTPDIETLKKICEFYSTNINSIL 63

Query: 91 GMDDIRN 97
            D+++N
Sbjct: 64 NEDNLKN 70


>ref|ZP_00097244.1| COG1396: Predicted transcriptional regulators [Desulfitobacterium
          hafniense]
          Length = 361

 Score = 64.3 bits (155), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 27/64 (42%), Positives = 43/64 (67%)

Query: 27 MQIRIGENLRKLRIKNELTQEKLAEVFGVSPQAISRWENNSAYPDVTMLPSLANYYNTSI 86
          M++ +G+ +   R +   TQE+LA+  GVS  A+S+WE  + YPD+T+LP +A   NT++
Sbjct: 1  MELDMGKVITAKRKEKSWTQEQLAQAVGVSTPAVSKWETGATYPDITLLPPIARALNTTV 60

Query: 87 DELI 90
          DEL 
Sbjct: 61 DELF 64


  Database: All non-redundant GenBank CDS
  translations+PDB+SwissProt+PIR+PRF
    Posted date:  Mar 24, 2004  1:53 AM
  Number of letters in database: 757,237,578
  Number of sequences in database:  2,715,099
  
Lambda     K      H
   0.315    0.131    0.357 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 2715099
Number of Hits to DB: 262,600,278
Number of extensions: 10911778
Number of successful extensions: 30751
Number of sequences better than 1.0e-05: 48
Number of HSP's gapped: 30771
Number of HSP's successfully gapped: 48
Length of query: 220
Length of database: 757,237,578
Length adjustment: 121
Effective length of query: 99
Effective length of database: 428,710,599
Effective search space: 42442349301
Effective search space used: 42442349301
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 123 (52.0 bits)