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= 0250.0011.p
         (99 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

A9KM61.1 A9KM61_CLOPH Two component transcriptional regulator, w...   105   1e-21
B6FX80.1 B6FX80_9CLOT Putative uncharacterized protein                 91   3e-17
Q97M29.1 Q97M29_CLOAB Response regulator (CheY-like domain and H...    86   1e-15
A0P2E3.1 A0P2E3_9RHOB Two-component response regulator                 83   9e-15
A7GB96.1 A7GB96_CLOBL DNA-binding response regulator                   82   1e-14

>A9KM61.1 A9KM61_CLOPH Two component transcriptional regulator, winged helix
           family
          Length = 224

 Score =  105 bits (262), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 52/71 (73%), Positives = 57/71 (80%)

Query: 1   LILLDINLGQTSGFELCKRLRKTMKAPILFISARSSDDDILIALNIGGDDYTHKPYTLSV 60
           LILLDINL + SGF LCK +R+    PI FISAR SDDDIL+ALNIGGDDY  KPY LSV
Sbjct: 49  LILLDINLQEDSGFLLCKEIREFSDIPIFFISARQSDDDILMALNIGGDDYIKKPYALSV 108

Query: 61  LLAKVRAVLKR 71
           LLAKV+ VLKR
Sbjct: 109 LLAKVKVVLKR 119


>B6FX80.1 B6FX80_9CLOT Putative uncharacterized protein
          Length = 247

 Score = 91.3 bits (225), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 42/90 (46%), Positives = 66/90 (73%), Gaps = 2/90 (2%)

Query: 1   LILLDINLGQTSGFELCKRLRKTMKAPILFISARSSDDDILIALNIGGDDYTHKPYTLSV 60
           LIL+DINL    GF+ C  +R+ +K PI+FIS+R SD DI++++N+GGDDY  KP+++ +
Sbjct: 68  LILMDINLPYKDGFQWCNEIRRFLKVPIIFISSRDSDMDIIMSINMGGDDYIVKPFSIQL 127

Query: 61  LLAKVRAVLKRYGGQYTVEAP-EILEFGKV 89
           L+AKV+AV +R    Y + A  EI++ G++
Sbjct: 128 LIAKVQAVFRR-AYSYNITADREIIKVGEI 156


>Q97M29.1 Q97M29_CLOAB Response regulator (CheY-like domain and HTH domain)
          Length = 228

 Score = 85.5 bits (210), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 39/84 (46%), Positives = 59/84 (70%)

Query: 1   LILLDINLGQTSGFELCKRLRKTMKAPILFISARSSDDDILIALNIGGDDYTHKPYTLSV 60
           L+LLD+NL    GF LC+  R+  KAPI+F+SARSS+ + +  L +G DDY  KP++  +
Sbjct: 48  LVLLDVNLPYYDGFNLCRIFRRKSKAPIIFMSARSSEIEQIRGLEMGADDYITKPFSFEL 107

Query: 61  LLAKVRAVLKRYGGQYTVEAPEIL 84
           LLAKV+A ++R  G+Y+ +  E+L
Sbjct: 108 LLAKVQASIRRTYGEYSEDNSEVL 131


>A0P2E3.1 A0P2E3_9RHOB Two-component response regulator
          Length = 240

 Score = 82.8 bits (203), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 41/92 (44%), Positives = 59/92 (64%), Gaps = 3/92 (3%)

Query: 1   LILLDINLGQTSGFELCKRLRKTMKAPILFISARSSDDDILIALNIGGDDYTHKPYTLSV 60
           LI+LDI L +  G ++C+ LR+T + PILF+SAR  + D ++ L +G DDY  KP++   
Sbjct: 50  LIVLDIGLPEMDGLDVCRHLRRTSEVPILFLSARDDEIDRIVGLELGADDYVTKPFSPRE 109

Query: 61  LLAKVRAVLKRYGGQYTVEAPE---ILEFGKV 89
           L+A+V A+LKRYGG    +  E    L FG V
Sbjct: 110 LIARVGAILKRYGGLTAAQTDEDLPALRFGAV 141


>A7GB96.1 A7GB96_CLOBL DNA-binding response regulator
          Length = 232

 Score = 82.4 bits (202), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 33/71 (46%), Positives = 56/71 (78%)

Query: 1   LILLDINLGQTSGFELCKRLRKTMKAPILFISARSSDDDILIALNIGGDDYTHKPYTLSV 60
           L++LD++L   SG++LCK++RKT K PI+F++A   + DI++ L+IGGDDY  KP+ L+V
Sbjct: 48  LVILDVSLPDGSGYDLCKKIRKTSKVPIMFLTAADEETDIIMGLDIGGDDYITKPFKLAV 107

Query: 61  LLAKVRAVLKR 71
            ++++ A+L+R
Sbjct: 108 FMSRINALLRR 118


  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
   0.324    0.142    0.412 

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: 551,204,075
Number of extensions: 18531470
Number of successful extensions: 89226
Number of sequences better than 1.0e-05: 12866
Number of HSP's gapped: 89591
Number of HSP's successfully gapped: 12868
Length of query: 99
Length of database: 3,060,696,203
Length adjustment: 68
Effective length of query: 31
Effective length of database: 2,420,067,183
Effective search space: 75022082673
Effective search space used: 75022082673
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: 125 (52.8 bits)