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= 0340.0033.p
         (185 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

slr0895 [K] COG1309 Transcriptional regulator                         116   2e-26
BMEI0891 [K] COG1309 Transcriptional regulator                         70   2e-12
STM1122 [K] COG1309 Transcriptional regulator                          54   1e-07

>slr0895 [K] COG1309 Transcriptional regulator
          Length = 187

 Score =  116 bits (291), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 66/170 (38%), Positives = 96/170 (56%), Gaps = 2/170 (1%)

Query: 15  IILAAIEVMRELGGEQLTLELVAKRAGVSKGGLLYHFPGKEALVNGVVEALTNSFEADLE 74
           ++ AA +V+   G + LTL+ VA  AGVSKGGLL++FP KEAL+ G+V+   + F   L 
Sbjct: 17  LLTAANQVIVSQGVDALTLDAVASEAGVSKGGLLHYFPTKEALIAGMVQQALDRFVETLH 76

Query: 75  KRIVADPI--SSGRWSRAYIESTFDEAGVGNDVGTVLASALFLNPESLNGIRHAYAEWQR 132
           + +  DP   + G W RAYI ++  +     ++   L +A F NPE L  +RH + E   
Sbjct: 77  QELANDPAPDTPGHWVRAYIRASALDDQENYELHFNLLAANFTNPELLAPMRHFWQECHG 136

Query: 133 NIENDGLDPVQTTLARLAADGLWFAEMFGLAPPGKELKQRVLEALLQLTK 182
            I   GLDP   T+ RLA DGLW   + G AP    L+ +V+   L+L +
Sbjct: 137 QIMASGLDPAVATVIRLAMDGLWLTHLHGFAPLEDPLRSQVIATALKLAQ 186


>BMEI0891 [K] COG1309 Transcriptional regulator
          Length = 188

 Score = 70.1 bits (170), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 49/143 (34%), Positives = 76/143 (53%), Gaps = 7/143 (4%)

Query: 15  IILAAIEVMRELGGEQLTLELVAKRAGVSKGGLLYHFPGKEALVNGVVEALTNSFEADLE 74
           I+ AA E+ +E+G   ++L+ VA RAG+SKGGLLY FP K  L+  +VE      E   +
Sbjct: 13  ILRAATELAQEVGPAHISLDAVAARAGLSKGGLLYSFPTKAKLLEAMVEKYMQEHE---Q 69

Query: 75  KRIVADPISSG---RWSRAYIESTFDEAGVGNDVGTVLASALFLNPESLNGIRHAYAEWQ 131
              V + + SG   R +RA+++    +A        VLA AL  NP+ +  +RH +    
Sbjct: 70  AMAVQETLQSGERNRVARAFLDVYRIQADKEPPACGVLA-ALAENPDFMVPVRHYHRALL 128

Query: 132 RNIENDGLDPVQTTLARLAADGL 154
             + +D +DP    +A LA  G+
Sbjct: 129 DRMVSDAVDPDTALIAYLAIAGM 151


>STM1122 [K] COG1309 Transcriptional regulator
          Length = 212

 Score = 54.3 bits (129), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 34/82 (41%), Positives = 47/82 (57%), Gaps = 8/82 (9%)

Query: 1  MSKDGEEKI--------PKRMLIILAAIEVMRELGGEQLTLELVAKRAGVSKGGLLYHFP 52
          MS+  E+KI         KR LI+ AA+ V  + G     LE VA+RAGVSK  LLY++P
Sbjct: 1  MSQRTEKKIGKRSQATGAKRQLILTAALAVFSQYGIHGARLEQVAERAGVSKTNLLYYYP 60

Query: 53 GKEALVNGVVEALTNSFEADLE 74
           KEAL   V+  + + + A L+
Sbjct: 61 SKEALYVAVMRQILDVWLAPLK 82


  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
   0.316    0.135    0.384 

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: 13,772,363
Number of extensions: 560356
Number of successful extensions: 1260
Number of sequences better than 1.0e-05: 4
Number of HSP's gapped: 1263
Number of HSP's successfully gapped: 4
Length of query: 185
Length of database: 38,378,431
Length adjustment: 100
Effective length of query: 85
Effective length of database: 26,845,031
Effective search space: 2281827635
Effective search space used: 2281827635
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 (21.6 bits)
S2: 112 (47.8 bits)