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= 0232.0021.p
         (87 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_390781.1| ytcD [Bacillus subtilis] >gi|6226499|sp|O34533|...   142   2e-33
ref|NP_834727.1| Transcriptional regulator, MarR family [Bacillu...   115   4e-25
ref|NP_653530.1| DUF24, Protein of unknown function DUF24 [Bacil...   114   5e-25
ref|NP_981501.1| conserved hypothetical protein [Bacillus cereus...   113   1e-24
ref|NP_833139.1| Transcriptional regulator, MarR family [Bacillu...   111   4e-24

>ref|NP_390781.1| ytcD [Bacillus subtilis]
 sp|O34533|YTCD_BACSU Hypothetical protein ytcD
 pir||B69989 hypothetical protein ytcD - Bacillus subtilis
 gb|AAC00354.1| YtcD [Bacillus subtilis]
 emb|CAB14863.1| ytcD [Bacillus subtilis subsp. subtilis str. 168]
          Length = 126

 Score =  142 bits (359), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 65/85 (76%), Positives = 75/85 (88%)

Query: 2   RTSDLKRHMPNITQKMLTQQLRELEQDGIVNRISYNQVPPKVEYELSDYGRTLQSILDSL 61
           RTS+LKR MPNITQKMLTQQLRELE DG++NRI YNQVPPKVEYELS+YGR+L+ ILD L
Sbjct: 35  RTSELKRLMPNITQKMLTQQLRELEADGVINRIVYNQVPPKVEYELSEYGRSLEGILDML 94

Query: 62  CAWGEQHIIKQYGDKFAVLEDNVLN 86
           CAWG  HI + YGD F+VLE++VLN
Sbjct: 95  CAWGANHINRVYGDTFSVLEESVLN 119


>ref|NP_834727.1| Transcriptional regulator, MarR family [Bacillus cereus ATCC 14579]
 gb|AAP11928.1| Transcriptional regulator, MarR family [Bacillus cereus ATCC 14579]
          Length = 114

 Score =  115 bits (287), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 53/80 (66%), Positives = 63/80 (78%)

Query: 2   RTSDLKRHMPNITQKMLTQQLRELEQDGIVNRISYNQVPPKVEYELSDYGRTLQSILDSL 61
           RTS+LKR MP ITQKMLTQQLRELE DG++ R  YNQVPPKVEY L+DYG +L+SILDSL
Sbjct: 33  RTSELKRSMPGITQKMLTQQLRELEDDGVIQRKVYNQVPPKVEYSLTDYGWSLESILDSL 92

Query: 62  CAWGEQHIIKQYGDKFAVLE 81
           C+WGE H+ K+      + E
Sbjct: 93  CSWGECHLEKEGNTSMLIAE 112


>ref|NP_653530.1| DUF24, Protein of unknown function DUF24 [Bacillus anthracis A2012]
 ref|NP_847487.1| conserved hypothetical protein [Bacillus anthracis str. Ames]
 gb|AAP28973.1| conserved hypothetical protein [Bacillus anthracis str. Ames]
          Length = 114

 Score =  114 bits (286), Expect = 5e-25,   Method: Compositional matrix adjust.
 Identities = 53/80 (66%), Positives = 63/80 (78%)

Query: 2   RTSDLKRHMPNITQKMLTQQLRELEQDGIVNRISYNQVPPKVEYELSDYGRTLQSILDSL 61
           RTS+LKR MP ITQKMLTQQLRELE DG++ R  YNQVPPKVEY L+DYG +L+SILDSL
Sbjct: 33  RTSELKRSMPGITQKMLTQQLRELEDDGVIQRKVYNQVPPKVEYSLTDYGWSLESILDSL 92

Query: 62  CAWGEQHIIKQYGDKFAVLE 81
           C+WGE H+ K+      + E
Sbjct: 93  CSWGECHLEKEGKTSMLIAE 112


>ref|NP_981501.1| conserved hypothetical protein [Bacillus cereus ATCC 10987]
 gb|AAS44109.1| conserved hypothetical protein [Bacillus cereus ATCC 10987]
          Length = 114

 Score =  113 bits (283), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 53/81 (65%), Positives = 62/81 (76%)

Query: 2   RTSDLKRHMPNITQKMLTQQLRELEQDGIVNRISYNQVPPKVEYELSDYGRTLQSILDSL 61
           RTS+LKR MP ITQKMLTQQLRELE DG++ R  YNQVPPKVEY L+DYG +L+SILDSL
Sbjct: 33  RTSELKRLMPGITQKMLTQQLRELEDDGVIQRKVYNQVPPKVEYSLTDYGWSLESILDSL 92

Query: 62  CAWGEQHIIKQYGDKFAVLED 82
           C WGE H+ K+      + E 
Sbjct: 93  CTWGECHLEKEGKTSMLIAES 113


>ref|NP_833139.1| Transcriptional regulator, MarR family [Bacillus cereus ATCC 14579]
 gb|AAP10340.1| Transcriptional regulator, MarR family [Bacillus cereus ATCC 14579]
          Length = 115

 Score =  111 bits (278), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 51/81 (62%), Positives = 62/81 (76%)

Query: 2   RTSDLKRHMPNITQKMLTQQLRELEQDGIVNRISYNQVPPKVEYELSDYGRTLQSILDSL 61
           RTS+LKR MP ITQKMLTQQLRELE+DG++ R  Y+QVPPKVEY L+DYG +L +ILDSL
Sbjct: 33  RTSELKRLMPGITQKMLTQQLRELEEDGVIQRKVYDQVPPKVEYSLTDYGSSLGAILDSL 92

Query: 62  CAWGEQHIIKQYGDKFAVLED 82
           C+WGE H+ K       +  D
Sbjct: 93  CSWGEVHLEKTGNTSMLITAD 113


  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
   0.318    0.135    0.388 

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: 123,528,686
Number of extensions: 4062825
Number of successful extensions: 12812
Number of sequences better than 1.0e-05: 222
Number of HSP's gapped: 12825
Number of HSP's successfully gapped: 222
Length of query: 87
Length of database: 757,237,578
Length adjustment: 56
Effective length of query: 31
Effective length of database: 605,192,034
Effective search space: 18760953054
Effective search space used: 18760953054
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 (21.7 bits)
S2: 120 (50.8 bits)