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= 0598.0016.p
         (92 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

A8FGF2.1 A8FGF2_BACP2 Transcriptional regulator                       103   5e-21
B4ANQ7.1 B4ANQ7_BACPU Transcriptional regulator                       103   5e-21
B3KFU0.1 B3KFU0_9BACI Helix-turn-helix-domain containing protein...   103   6e-21
Q9KFJ6.1 Q9KFJ6_BACHD Transcriptional regulator (AraC/XylS family)    101   2e-20
O32071.1 YTDP_BACSU Uncharacterized HTH-type transcriptional reg...   101   3e-20

>A8FGF2.1 A8FGF2_BACP2 Transcriptional regulator
          Length = 770

 Score =  103 bits (257), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 45/78 (57%), Positives = 65/78 (83%)

Query: 10  ESQNKNISERMMEIIHKEYDVELTLDVCASRLNYHPNYLKTVFRKEAGVNFSEYVSNYRL 69
           ESQ KNISE+++ IIH+E+D +LTLD  A+RL+Y+PNYL ++FRKE  ++FSEY+S+YR 
Sbjct: 660 ESQYKNISEKIIHIIHQEFDSDLTLDEIATRLHYNPNYLSSIFRKEMDISFSEYLSSYRH 719

Query: 70  GIAKRWLLETDMKISDIA 87
            +AK WL+ETDM + +I+
Sbjct: 720 HVAKNWLVETDMSVKEIS 737


>B4ANQ7.1 B4ANQ7_BACPU Transcriptional regulator
          Length = 774

 Score =  103 bits (257), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 45/78 (57%), Positives = 65/78 (83%)

Query: 10  ESQNKNISERMMEIIHKEYDVELTLDVCASRLNYHPNYLKTVFRKEAGVNFSEYVSNYRL 69
           ESQ KNISE+++ IIH+E+D +LTLD  A+RL+Y+PNYL ++FRKE  ++FSEY+S+YR 
Sbjct: 656 ESQYKNISEKIIHIIHQEFDSDLTLDEIATRLHYNPNYLSSIFRKEMDISFSEYLSSYRH 715

Query: 70  GIAKRWLLETDMKISDIA 87
            +AK WL+ETDM + +I+
Sbjct: 716 HVAKNWLVETDMSVKEIS 733


>B3KFU0.1 B3KFU0_9BACI Helix-turn-helix-domain containing protein AraC type
          Length = 770

 Score =  103 bits (256), Expect = 6e-21,   Method: Compositional matrix adjust.
 Identities = 46/87 (52%), Positives = 68/87 (78%)

Query: 1   MASAFHEKLESQNKNISERMMEIIHKEYDVELTLDVCASRLNYHPNYLKTVFRKEAGVNF 60
           M S F ++ +SQ +N+SE+M+E+I KE+D  +TL+ CASRL+Y+  YL +VF+KE  ++F
Sbjct: 650 MVSVFRDRQDSQYQNLSEQMIEMIRKEFDRNITLEECASRLHYNNFYLSSVFKKETNMSF 709

Query: 61  SEYVSNYRLGIAKRWLLETDMKISDIA 87
           SEY+S YR  ++K+WL+ETDM I DIA
Sbjct: 710 SEYLSQYRFKMSKKWLVETDMPIKDIA 736


>Q9KFJ6.1 Q9KFJ6_BACHD Transcriptional regulator (AraC/XylS family)
          Length = 769

 Score =  101 bits (252), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 44/81 (54%), Positives = 66/81 (81%)

Query: 7   EKLESQNKNISERMMEIIHKEYDVELTLDVCASRLNYHPNYLKTVFRKEAGVNFSEYVSN 66
           E+++SQ + IS++++ II  E+D+ELTL+  A RL+Y+PNYL ++FRKE  ++FSEY+S+
Sbjct: 657 ERMDSQYRTISDQIIHIIQNEFDMELTLESIAERLHYNPNYLSSIFRKETNISFSEYLSS 716

Query: 67  YRLGIAKRWLLETDMKISDIA 87
           YRL +AK+WLLET M I +IA
Sbjct: 717 YRLAMAKKWLLETSMPIREIA 737


>O32071.1 YTDP_BACSU Uncharacterized HTH-type transcriptional regulator ytdP
          Length = 772

 Score =  101 bits (251), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 46/87 (52%), Positives = 65/87 (74%)

Query: 1   MASAFHEKLESQNKNISERMMEIIHKEYDVELTLDVCASRLNYHPNYLKTVFRKEAGVNF 60
           M    + + ++Q KNIS+ ++ IIH E++ ELTLD  A RL+Y+PNYL ++F+KE G++F
Sbjct: 653 MTDKVNARADAQYKNISDNIIHIIHHEFESELTLDEIARRLHYNPNYLSSIFKKEMGISF 712

Query: 61  SEYVSNYRLGIAKRWLLETDMKISDIA 87
           SEYVS+YR  +AK WL ETDM + DIA
Sbjct: 713 SEYVSSYRHHMAKSWLAETDMAVKDIA 739


  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
   0.320    0.134    0.383 

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: 500,109,148
Number of extensions: 16287616
Number of successful extensions: 55207
Number of sequences better than 1.0e-05: 113
Number of HSP's gapped: 55252
Number of HSP's successfully gapped: 113
Length of query: 92
Length of database: 3,060,696,203
Length adjustment: 61
Effective length of query: 31
Effective length of database: 2,486,014,288
Effective search space: 77066442928
Effective search space used: 77066442928
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 126 (53.1 bits)