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= 0284.0021.p
         (83 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

B1DAW2.1 B1DAW2_9BACL Two component transcriptional regulator, A...    89   2e-16
B3KF09.1 B3KF09_9BACI Helix-turn-helix-domain containing protein...    83   6e-15
B3KF23.1 B3KF23_9BACI Helix-turn-helix-domain containing protein...    77   7e-13
C0Z4C7.1 C0Z4C7_BREBN Probable two-component response regulator        59   1e-07

>B1DAW2.1 B1DAW2_9BACL Two component transcriptional regulator, AraC family
          Length = 252

 Score = 88.6 bits (218), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 40/52 (76%), Positives = 47/52 (90%)

Query: 32  LLRRMEKAKLLLETTEMKIYEIADAVGYMELDWFYKKFKEYTGTSANEYRKQ 83
           L +RMEK+KLLL+ T+M+IYEIA+ VGY E+DWFYKKFKEYTG SANEYRKQ
Sbjct: 195 LQQRMEKSKLLLKKTDMRIYEIANEVGYTEIDWFYKKFKEYTGASANEYRKQ 246


>B3KF09.1 B3KF09_9BACI Helix-turn-helix-domain containing protein AraC type
          Length = 229

 Score = 83.2 bits (204), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 36/51 (70%), Positives = 45/51 (88%)

Query: 32  LLRRMEKAKLLLETTEMKIYEIADAVGYMELDWFYKKFKEYTGTSANEYRK 82
           L++RME+AK+LLE T++K+YEIA  VGY E+DWFYK+FK YTG SANEYRK
Sbjct: 175 LIQRMERAKILLEQTDLKVYEIAYEVGYTEIDWFYKRFKSYTGVSANEYRK 225


>B3KF23.1 B3KF23_9BACI Helix-turn-helix-domain containing protein AraC type
          Length = 257

 Score = 76.6 bits (187), Expect = 7e-13,   Method: Composition-based stats.
 Identities = 36/51 (70%), Positives = 40/51 (78%)

Query: 32  LLRRMEKAKLLLETTEMKIYEIADAVGYMELDWFYKKFKEYTGTSANEYRK 82
           L +RMEKAK LL  T MKIYEIAD VGY ++DWFYKKFK Y G SAN +RK
Sbjct: 193 LQQRMEKAKFLLVHTNMKIYEIADMVGYNDMDWFYKKFKSYAGVSANMFRK 243


>C0Z4C7.1 C0Z4C7_BREBN Probable two-component response regulator
          Length = 534

 Score = 58.9 bits (141), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 28/49 (57%), Positives = 37/49 (75%)

Query: 35  RMEKAKLLLETTEMKIYEIADAVGYMELDWFYKKFKEYTGTSANEYRKQ 83
           RMEKAK LL TT++K +EIA+ VGY + ++F   F++YTG SA EYR Q
Sbjct: 481 RMEKAKELLRTTDLKSFEIAEKVGYTDPNYFSFSFRKYTGMSAKEYRSQ 529


  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    0.129    0.374 

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: 467,814,472
Number of extensions: 13641464
Number of successful extensions: 42450
Number of sequences better than 1.0e-05: 66
Number of HSP's gapped: 42572
Number of HSP's successfully gapped: 66
Length of query: 83
Length of database: 3,060,696,203
Length adjustment: 53
Effective length of query: 30
Effective length of database: 2,561,382,408
Effective search space: 76841472240
Effective search space used: 76841472240
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: 126 (53.1 bits)