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= 0579.0049.p
         (155 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SA0251 [KT] COG3279 Response regulator of the LytR/AlgR family         49   4e-06

>SA0251 [KT] COG3279 Response regulator of the LytR/AlgR family
          Length = 246

 Score = 48.5 bits (114), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 40/157 (25%), Positives = 74/157 (47%), Gaps = 22/157 (14%)

Query: 1   VESFDVMTFQYLIKPIAPQIFEEKVIKLCQYFQALEKKFMIIKSA-YEEVVLKYDDIIAI 59
           V++F++    Y++KP   +  E+ V K+    +A + K     SA   ++   +D  + +
Sbjct: 88  VQAFELNATDYILKPFGQKRIEQAVNKV----RATKAKDDNNASAIANDMSANFDQSLPV 143

Query: 60  EAAKSLTIKNKLNFI------------TLNQLYESKGILAEYALALKDNHFLQIHRSVII 107
           E    + +  + N I            T N  YE+   L  Y   L   +F++IHRS II
Sbjct: 144 EIDDKIHMLKQQNIIGIGTHNGITTIHTTNHKYETTEPLNRYEKRLNPTYFIRIHRSYII 203

Query: 108 NLLHVRKFSSG-----VVLMTGGMEFPIGRSKLKEVK 139
           N  H+++         +V++T G++  +GRS +K+ K
Sbjct: 204 NTKHIKEVQQWFNYTYMVILTNGVKMQVGRSFMKDFK 240


  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
   0.325    0.141    0.392 

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: 10,253,813
Number of extensions: 348230
Number of successful extensions: 902
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 908
Number of HSP's successfully gapped: 2
Length of query: 155
Length of database: 38,378,431
Length adjustment: 97
Effective length of query: 58
Effective length of database: 27,191,033
Effective search space: 1577079914
Effective search space used: 1577079914
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: 40 (21.6 bits)
S2: 111 (47.4 bits)