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= 0207.0013.p
         (114 letters)

Database: pfamseq 
           9,421,015 sequences; 3,060,696,203 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

A7Z6M8.1 A7Z6M8_BACA2 SinR                                            136   7e-31
P06533.1 SINR_BACSU HTH-type transcriptional regulator sinR           136   7e-31
C2W5E3.1 C2W5E3_BACCE HTH-type transcriptional regulator sinR         135   2e-30
B4AN65.1 B4AN65_BACPU HTH-type transcriptional regulator SinR         134   3e-30
A8FF45.1 A8FF45_BACP2 Transcriptional regulator SinR                  134   4e-30

>A7Z6M8.1 A7Z6M8_BACA2 SinR
          Length = 113

 Score =  136 bits (342), Expect = 7e-31,   Method: Compositional matrix adjust.
 Identities = 64/110 (58%), Positives = 87/110 (79%)

Query: 5   MGSRIHHLRLEKGWSLSELADKADVAKSYLSNVERNIQSNPSIQFIEKIADALQVSIHSL 64
           +G RI   R EKG+SLSELA+KA VAKSYLS++ERN+Q+NPSIQF+EK++  L VS+H+L
Sbjct: 4   IGQRIKQYRKEKGYSLSELAEKAGVAKSYLSSIERNLQTNPSIQFLEKVSAVLDVSVHTL 63

Query: 65  LYGEPSDADESSLDGEWFRLVQEAMASGISKREFKEFLDYQKWRLEQKDQ 114
           L  +     +  LD EW +LV++AM SG+SK++F+EFLDYQKWR  QK++
Sbjct: 64  LDEKHETEYDGQLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKAQKEE 113


>P06533.1 SINR_BACSU HTH-type transcriptional regulator sinR
          Length = 111

 Score =  136 bits (342), Expect = 7e-31,   Method: Compositional matrix adjust.
 Identities = 64/110 (58%), Positives = 87/110 (79%)

Query: 5   MGSRIHHLRLEKGWSLSELADKADVAKSYLSNVERNIQSNPSIQFIEKIADALQVSIHSL 64
           +G RI   R EKG+SLSELA+KA VAKSYLS++ERN+Q+NPSIQF+EK++  L VS+H+L
Sbjct: 2   IGQRIKQYRKEKGYSLSELAEKAGVAKSYLSSIERNLQTNPSIQFLEKVSAVLDVSVHTL 61

Query: 65  LYGEPSDADESSLDGEWFRLVQEAMASGISKREFKEFLDYQKWRLEQKDQ 114
           L  +     +  LD EW +LV++AM SG+SK++F+EFLDYQKWR  QK++
Sbjct: 62  LDEKHETEYDGQLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQKEE 111


>C2W5E3.1 C2W5E3_BACCE HTH-type transcriptional regulator sinR
          Length = 107

 Score =  135 bits (339), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 64/108 (59%), Positives = 86/108 (79%), Gaps = 2/108 (1%)

Query: 5   MGSRIHHLRLEKGWSLSELADKADVAKSYLSNVERNIQSNPSIQFIEKIADALQVSIHSL 64
           +G RI  LRL++G SL+ELA+KA VAKSY+S++ERN+Q NPSIQF+EKIA+ LQ  + +L
Sbjct: 2   IGERIKRLRLQRGISLTELAEKAGVAKSYISSIERNLQKNPSIQFLEKIANVLQTPVDTL 61

Query: 65  LYGEPSDADESSLDGEWFRLVQEAMASGISKREFKEFLDYQKWRLEQK 112
           L+ EP  A ES LD EW  LV+EAM+SG+SK +F+EFL++ KW+  QK
Sbjct: 62  LHDEP--AAESQLDSEWTHLVKEAMSSGVSKEQFREFLEFTKWKQNQK 107


>B4AN65.1 B4AN65_BACPU HTH-type transcriptional regulator SinR
          Length = 113

 Score =  134 bits (337), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 62/110 (56%), Positives = 88/110 (80%)

Query: 5   MGSRIHHLRLEKGWSLSELADKADVAKSYLSNVERNIQSNPSIQFIEKIADALQVSIHSL 64
           +G RI   R EKG+SLSELA+KA VAKSYLS++ERN+Q+NPSIQF+EK++  L VS+H+L
Sbjct: 4   IGQRIKQYRNEKGYSLSELAEKAGVAKSYLSSIERNLQTNPSIQFLEKVSAVLDVSVHTL 63

Query: 65  LYGEPSDADESSLDGEWFRLVQEAMASGISKREFKEFLDYQKWRLEQKDQ 114
           L+ +     +  LD EW +LV++AM SG+SK++F+EFLDYQ WR +Q+++
Sbjct: 64  LHEKDETEYDGQLDSEWEKLVRDAMTSGVSKKQFREFLDYQIWRKKQEEE 113


>A8FF45.1 A8FF45_BACP2 Transcriptional regulator SinR
          Length = 111

 Score =  134 bits (336), Expect = 4e-30,   Method: Compositional matrix adjust.
 Identities = 62/110 (56%), Positives = 88/110 (80%)

Query: 5   MGSRIHHLRLEKGWSLSELADKADVAKSYLSNVERNIQSNPSIQFIEKIADALQVSIHSL 64
           +G RI   R EKG+SLSELA+KA VAKSYLS++ERN+Q+NPSIQF+EK++  L VS+H+L
Sbjct: 2   IGQRIKQYRNEKGYSLSELAEKAGVAKSYLSSIERNLQTNPSIQFLEKVSAVLDVSVHTL 61

Query: 65  LYGEPSDADESSLDGEWFRLVQEAMASGISKREFKEFLDYQKWRLEQKDQ 114
           L+ +     +  LD EW +LV++AM SG+SK++F+EFLDYQ WR +Q+++
Sbjct: 62  LHEKDETEYDGQLDSEWEKLVRDAMTSGVSKKQFREFLDYQIWRKKQEEE 111


  Database: pfamseq
    Posted date:  Aug 5, 2010  3:22 PM
  Number of letters in database: 3,060,696,203
  Number of sequences in database:  9,421,015
  
Lambda     K      H
   0.313    0.130    0.372 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 9421015
Number of Hits to DB: 630,956,746
Number of extensions: 20524845
Number of successful extensions: 58891
Number of sequences better than 1.0e-05: 111
Number of HSP's gapped: 59809
Number of HSP's successfully gapped: 111
Length of query: 114
Length of database: 3,060,696,203
Length adjustment: 81
Effective length of query: 33
Effective length of database: 2,297,593,988
Effective search space: 75820601604
Effective search space used: 75820601604
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 125 (52.8 bits)