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= 0267.0017.p
         (84 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...   130   1e-29
ref|ZP_00098851.1| COG2002: Regulators of stationary/sporulation...   127   8e-29
ref|NP_561197.1| probable transcriptional regulator [Clostridium...   122   4e-27
ref|NP_350229.1| Transition state regulatory protein AbrB [Clost...   121   6e-27
ref|NP_346951.1| Regulators of stationary/sporulation gene expre...   119   2e-26

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

 Score =  130 bits (326), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 63/83 (75%), Positives = 73/83 (87%), Gaps = 1/83 (1%)

Query: 1  MMKSTGIVRKVDELGRVVIPIELRRTLGIGEKDALEIYVDGERIMLKKYEPACIFCGNAE 60
          M+KSTGIVRKVDELGRVVIPIELRRTL I E+DALEIYVDGE+I+LKKYEPACIFCGNAE
Sbjct: 1  MLKSTGIVRKVDELGRVVIPIELRRTLNIAERDALEIYVDGEQIVLKKYEPACIFCGNAE 60

Query: 61 NVTYFKGKIVCHDCISAI-PTPV 82
          NV  +KGK +C +C+  +  TP+
Sbjct: 61 NVINYKGKNICKNCLEELKKTPL 83


>ref|ZP_00098851.1| COG2002: Regulators of stationary/sporulation gene expression
          [Desulfitobacterium hafniense]
          Length = 90

 Score =  127 bits (319), Expect = 8e-29,   Method: Compositional matrix adjust.
 Identities = 60/78 (76%), Positives = 69/78 (88%)

Query: 1  MMKSTGIVRKVDELGRVVIPIELRRTLGIGEKDALEIYVDGERIMLKKYEPACIFCGNAE 60
          MMKSTGIVRKVDELGRVV+PIELRRTLGI EKDALEIYVD E+I+LKKYEPAC+FC NA 
Sbjct: 1  MMKSTGIVRKVDELGRVVLPIELRRTLGIDEKDALEIYVDQEKIILKKYEPACVFCNNAT 60

Query: 61 NVTYFKGKIVCHDCISAI 78
          +V  F+GK VC +C +A+
Sbjct: 61 DVQIFRGKNVCRECATAM 78


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

 Score =  122 bits (305), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 56/77 (72%), Positives = 67/77 (87%)

Query: 2  MKSTGIVRKVDELGRVVIPIELRRTLGIGEKDALEIYVDGERIMLKKYEPACIFCGNAEN 61
          MKSTG+VR+VDELGR+VIPIELRRTL I EKDALEIYVDGE+I+LKKYEPACIFCG+A +
Sbjct: 1  MKSTGVVRRVDELGRIVIPIELRRTLDIAEKDALEIYVDGEQIILKKYEPACIFCGDARD 60

Query: 62 VTYFKGKIVCHDCISAI 78
          V  +KGK +C  C+  +
Sbjct: 61 VVNYKGKNICQKCLDEL 77


>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 =  121 bits (303), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 55/77 (71%), Positives = 68/77 (88%)

Query: 2  MKSTGIVRKVDELGRVVIPIELRRTLGIGEKDALEIYVDGERIMLKKYEPACIFCGNAEN 61
          MKSTG+VR+VDELGR+VIPIELRRTL I EKDALEIYVDGE+I+LKKY+PACIFCG+A +
Sbjct: 1  MKSTGVVRRVDELGRIVIPIELRRTLEIAEKDALEIYVDGEQIILKKYQPACIFCGDARD 60

Query: 62 VTYFKGKIVCHDCISAI 78
          V  +KGK +C  C++ +
Sbjct: 61 VINYKGKNICQSCLNQL 77


>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 =  119 bits (299), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 55/77 (71%), Positives = 67/77 (87%)

Query: 2  MKSTGIVRKVDELGRVVIPIELRRTLGIGEKDALEIYVDGERIMLKKYEPACIFCGNAEN 61
          MKSTG+VR+VDELGR+VIPIELRRTL I EKDALEIYVDGE+I+LKKYEPACIFCG+A +
Sbjct: 1  MKSTGVVRRVDELGRIVIPIELRRTLNIAEKDALEIYVDGEQIILKKYEPACIFCGDASD 60

Query: 62 VTYFKGKIVCHDCISAI 78
          V  ++GK +C  C+  +
Sbjct: 61 VINYRGKNICKHCLEEL 77


  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
   0.323    0.142    0.429 

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: 125,051,521
Number of extensions: 4412920
Number of successful extensions: 8660
Number of sequences better than 1.0e-05: 47
Number of HSP's gapped: 8660
Number of HSP's successfully gapped: 47
Length of query: 84
Length of database: 757,237,578
Length adjustment: 53
Effective length of query: 31
Effective length of database: 613,337,331
Effective search space: 19013457261
Effective search space used: 19013457261
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 120 (50.8 bits)