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= 0282.0006.p
         (57 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|NP_621806.1| transcription regulator AbrB [Thermoanaerobacte...    57   1e-07
ref|NP_348563.1| Transcription regulator AbrB [Clostridium aceto...    54   9e-07
ref|NP_561197.1| probable transcriptional regulator [Clostridium...    54   1e-06
ref|NP_350229.1| Transition state regulatory protein AbrB [Clost...    54   1e-06
ref|NP_346951.1| Regulators of stationary/sporulation gene expre...    52   3e-06

>ref|NP_621806.1| transcription regulator AbrB [Thermoanaerobacter tengcongensis]
 gb|AAM23410.1| transcription regulator AbrB [Thermoanaerobacter tengcongensis]
          Length = 84

 Score = 57.0 bits (136), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 23/50 (46%), Positives = 34/50 (68%)

Query: 3  EGDPVEILVQGDHIILERYRPKCVFCGSMEGVSEYKDRYICADCLTEMTQ 52
          E D +EI V G+ I+L++Y P C+FCG+ E V  YK + IC +CL E+ +
Sbjct: 31 ERDALEIYVDGEQIVLKKYEPACIFCGNAENVINYKGKNICKNCLEELKK 80


>ref|NP_348563.1| Transcription regulator AbrB [Clostridium acetobutylicum]
 pir||D97139 transcription regulator AbrB [imported] - Clostridium
          acetobutylicum
 gb|AAK79903.1| Transcription regulator AbrB [Clostridium acetobutylicum]
          Length = 79

 Score = 54.3 bits (129), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 23/52 (44%), Positives = 32/52 (61%)

Query: 1  MNEGDPVEILVQGDHIILERYRPKCVFCGSMEGVSEYKDRYICADCLTEMTQ 52
          + E D +EI V G+ I+L++Y P CVFCG    V  YK + IC  CL E+ +
Sbjct: 28 IAEKDALEIYVDGEQIVLKKYNPACVFCGEASDVINYKGKKICKKCLKELRR 79


>ref|NP_561197.1| probable transcriptional regulator [Clostridium perfringens]
 dbj|BAB79987.1| probable transcriptional regulator [Clostridium perfringens str.
          13]
          Length = 79

 Score = 53.9 bits (128), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 23/52 (44%), Positives = 32/52 (61%)

Query: 1  MNEGDPVEILVQGDHIILERYRPKCVFCGSMEGVSEYKDRYICADCLTEMTQ 52
          + E D +EI V G+ IIL++Y P C+FCG    V  YK + IC  CL E+ +
Sbjct: 28 IAEKDALEIYVDGEQIILKKYEPACIFCGDARDVVNYKGKNICQKCLDELKK 79


>ref|NP_350229.1| Transition state regulatory protein AbrB [Clostridium
          acetobutylicum]
 pir||F97347 transition state regulatory protein AbrB [imported] - Clostridium
          acetobutylicum
 gb|AAK81569.1| Transition state regulatory protein AbrB [Clostridium
          acetobutylicum]
          Length = 81

 Score = 53.9 bits (128), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 22/52 (42%), Positives = 33/52 (63%)

Query: 1  MNEGDPVEILVQGDHIILERYRPKCVFCGSMEGVSEYKDRYICADCLTEMTQ 52
          + E D +EI V G+ IIL++Y+P C+FCG    V  YK + IC  CL ++ +
Sbjct: 28 IAEKDALEIYVDGEQIILKKYQPACIFCGDARDVINYKGKNICQSCLNQLKE 79


>ref|NP_346951.1| Regulators of stationary/sporulation gene expression, abrB
          B.subtilis ortholog [Clostridium acetobutylicum]
 pir||H96937 regulators of stationary/sporulation gene expression, abrB B.
          subtilis ortholog [imported] - Clostridium
          acetobutylicum
 gb|AAK78291.1| Regulators of stationary/sporulation gene expression, abrB
          B.subtilis ortholog [Clostridium acetobutylicum]
          Length = 81

 Score = 52.4 bits (124), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 22/52 (42%), Positives = 32/52 (61%)

Query: 1  MNEGDPVEILVQGDHIILERYRPKCVFCGSMEGVSEYKDRYICADCLTEMTQ 52
          + E D +EI V G+ IIL++Y P C+FCG    V  Y+ + IC  CL E+ +
Sbjct: 28 IAEKDALEIYVDGEQIILKKYEPACIFCGDASDVINYRGKNICKHCLEELKE 79


  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
   0.324    0.140    0.439 

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: 83,284,247
Number of extensions: 2341759
Number of successful extensions: 4546
Number of sequences better than 1.0e-05: 6
Number of HSP's gapped: 4546
Number of HSP's successfully gapped: 6
Length of query: 57
Length of database: 757,237,578
Length adjustment: 29
Effective length of query: 28
Effective length of database: 678,499,707
Effective search space: 18997991796
Effective search space used: 18997991796
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 120 (50.8 bits)