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= 0541.0043.p
         (78 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

lin0809 [KG] COG1940 Transcriptional regulator/sugar kinase            74   5e-14
CAC1523 [KG] COG1940 Transcriptional regulator/sugar kinase            68   3e-12
BS_ydhR [KG] COG1940 Transcriptional regulator/sugar kinase            56   1e-08

>lin0809 [KG] COG1940 Transcriptional regulator/sugar kinase
          Length = 290

 Score = 73.9 bits (180), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 36/57 (63%), Positives = 44/57 (77%), Gaps = 4/57 (7%)

Query: 1   MNYVLILSPQKIVMGGGVMKQSQLFPLIHAKLQELLGGYVQHPALNEAVGSYIVPPQ 57
           MNY LILSP++IV+GGGVMKQ QLFPL+  KL+ L+  YVQ P L+E    YIVPP+
Sbjct: 217 MNYTLILSPERIVLGGGVMKQRQLFPLVRQKLKALVNNYVQLPDLDE----YIVPPK 269


>CAC1523 [KG] COG1940 Transcriptional regulator/sugar kinase
          Length = 288

 Score = 68.2 bits (165), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 33/56 (58%), Positives = 39/56 (69%), Gaps = 4/56 (7%)

Query: 1   MNYVLILSPQKIVMGGGVMKQSQLFPLIHAKLQELLGGYVQHPALNEAVGSYIVPP 56
           M Y L LSP++IV+GGGVMKQ QLFPLI   L++L+  YV  P L E    YIVPP
Sbjct: 215 MTYTLTLSPERIVLGGGVMKQLQLFPLIRKHLEKLMANYVAMPNLEE----YIVPP 266


>BS_ydhR [KG] COG1940 Transcriptional regulator/sugar kinase
          Length = 299

 Score = 56.2 bits (134), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 23/55 (41%), Positives = 40/55 (72%)

Query: 3   YVLILSPQKIVMGGGVMKQSQLFPLIHAKLQELLGGYVQHPALNEAVGSYIVPPQ 57
           Y+LIL+P+KI++GGGVM+Q Q+F  I+  + +++  Y+    L++ +  YIVPP+
Sbjct: 216 YILILAPKKIILGGGVMQQKQVFSYIYQYVPKIMNSYLDFSELSDDISDYIVPPR 270


  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
   0.320    0.140    0.406 

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: 4,360,892
Number of extensions: 146737
Number of successful extensions: 215
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 215
Number of HSP's successfully gapped: 3
Length of query: 78
Length of database: 38,378,431
Length adjustment: 49
Effective length of query: 29
Effective length of database: 32,727,065
Effective search space: 949084885
Effective search space used: 949084885
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: 109 (46.6 bits)