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= 0337.0018.p
         (51 letters)

Database: COG 
           115,334 sequences; 38,378,431 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

BH3075 [K] COG2771 DNA-binding HTH domain-containing proteins          86   1e-17
BH3628 [TK] COG2197 Response regulator containing a CheY-like re...    58   4e-09
BS_degU [TK] COG2197 Response regulator containing a CheY-like r...    56   1e-08
lin2659 [TK] COG2197 Response regulator containing a CheY-like r...    53   9e-08
BS_yhcZ [TK] COG2197 Response regulator containing a CheY-like r...    48   5e-06

>BH3075 [K] COG2771 DNA-binding HTH domain-containing proteins
          Length = 74

 Score = 86.3 bits (212), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 42/51 (82%), Positives = 47/51 (92%)

Query: 1  VQDKTTRDIAGLLFISEKTVRNHISNVMQKLNVKGRSQAVVELIKLGELKI 51
          VQDKTT++IA  LFISEKTVRNHISN MQKL VKGRSQAV+ELI+LGEL+I
Sbjct: 24 VQDKTTKEIAEQLFISEKTVRNHISNTMQKLGVKGRSQAVIELIRLGELEI 74


>BH3628 [TK] COG2197 Response regulator containing a CheY-like receiver
           domain and an HTH DNA-binding domain
          Length = 236

 Score = 57.8 bits (138), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 27/47 (57%), Positives = 37/47 (78%)

Query: 5   TTRDIAGLLFISEKTVRNHISNVMQKLNVKGRSQAVVELIKLGELKI 51
           + R I   L+ISEKTV+NH+SN++QK+NV  R+QAVVE IK G +K+
Sbjct: 189 SNRMIGEALYISEKTVKNHVSNILQKMNVNDRTQAVVESIKNGWVKV 235


>BS_degU [TK] COG2197 Response regulator containing a CheY-like receiver
           domain and an HTH DNA-binding domain
          Length = 229

 Score = 56.2 bits (134), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 27/48 (56%), Positives = 37/48 (77%)

Query: 4   KTTRDIAGLLFISEKTVRNHISNVMQKLNVKGRSQAVVELIKLGELKI 51
           K+ R I   LFISEKTV+NH+SN++QK+NV  R+QAVV  IK G +++
Sbjct: 181 KSNRGIGESLFISEKTVKNHVSNILQKMNVNDRTQAVVVAIKNGWVEM 228


>lin2659 [TK] COG2197 Response regulator containing a CheY-like receiver
           domain and an HTH DNA-binding domain
          Length = 228

 Score = 53.1 bits (126), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 26/48 (54%), Positives = 35/48 (72%)

Query: 4   KTTRDIAGLLFISEKTVRNHISNVMQKLNVKGRSQAVVELIKLGELKI 51
           K+ R I   LFISEKTV+NH+S+++QK+ V  R+QAVV  IK G + I
Sbjct: 180 KSNRGIGETLFISEKTVKNHVSSILQKMKVNDRTQAVVTAIKHGWVYI 227


>BS_yhcZ [TK] COG2197 Response regulator containing a CheY-like receiver
           domain and an HTH DNA-binding domain
          Length = 214

 Score = 47.8 bits (112), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 21/42 (50%), Positives = 31/42 (73%)

Query: 4   KTTRDIAGLLFISEKTVRNHISNVMQKLNVKGRSQAVVELIK 45
           K+ ++IA  LFISEKTV+ H+SN++ KL V  R+QA +  +K
Sbjct: 164 KSNKEIAAALFISEKTVKTHVSNLLAKLEVADRTQAALFAVK 205


  Database: COG
    Posted date:  Aug 3, 2010  9:58 AM
  Number of letters in database: 38,378,431
  Number of sequences in database:  115,334
  
Lambda     K      H
   0.318    0.134    0.343 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 115334
Number of Hits to DB: 3,021,386
Number of extensions: 79957
Number of successful extensions: 397
Number of sequences better than 1.0e-05: 6
Number of HSP's gapped: 397
Number of HSP's successfully gapped: 6
Length of query: 51
Length of database: 38,378,431
Length adjustment: 24
Effective length of query: 27
Effective length of database: 35,610,415
Effective search space: 961481205
Effective search space used: 961481205
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 109 (46.6 bits)