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= 0504.0050.p
         (180 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Z2808 [KG] COG1349 Transcriptional regulators of sugar metabolism     108   5e-24
ECs2479 [KG] COG1349 Transcriptional regulators of sugar metabolism   108   5e-24
BS_ydjF [KT] COG1842 Phage shock protein A (IM30), suppresses si...   107   8e-24
BS_yulB [KG] COG1349 Transcriptional regulators of sugar metabolism    86   4e-17
srlR [KG] COG1349 Transcriptional regulators of sugar metabolism       83   2e-16

>Z2808 [KG] COG1349 Transcriptional regulators of sugar metabolism
          Length = 252

 Score =  108 bits (270), Expect = 5e-24,   Method: Compositional matrix adjust.
 Identities = 60/119 (50%), Positives = 82/119 (68%), Gaps = 1/119 (0%)

Query: 1   VHQDKRVLVSDLSRMFEVTEETIRRDLEKLEKDGILSRTYGGAMLNRHT-NEDLPFVTRN 59
           V  DK+V VS+LS +F+VTEETIRRDLEKLE +G L+RTYGGA+LN     E++ F  R 
Sbjct: 14  VANDKKVTVSNLSGIFQVTEETIRRDLEKLEDEGFLTRTYGGAVLNTAMLTENIHFYKRA 73

Query: 60  ALNTDMKRNIALKALDLINDGDTLMVDPSSTAFEFLKLLGNKNNLTVITNSINILHEFA 118
           +   + K+ IA KAL  I++  T+  D SST  E LKLL ++++LT++TNS   +H  A
Sbjct: 74  SSFYEEKQLIARKALPFIDNKTTMAADSSSTVMELLKLLQDRSDLTLLTNSAEAIHVLA 132


>ECs2479 [KG] COG1349 Transcriptional regulators of sugar metabolism
          Length = 252

 Score =  108 bits (270), Expect = 5e-24,   Method: Compositional matrix adjust.
 Identities = 60/119 (50%), Positives = 82/119 (68%), Gaps = 1/119 (0%)

Query: 1   VHQDKRVLVSDLSRMFEVTEETIRRDLEKLEKDGILSRTYGGAMLNRHT-NEDLPFVTRN 59
           V  DK+V VS+LS +F+VTEETIRRDLEKLE +G L+RTYGGA+LN     E++ F  R 
Sbjct: 14  VANDKKVTVSNLSGIFQVTEETIRRDLEKLEDEGFLTRTYGGAVLNTAMLTENIHFYKRA 73

Query: 60  ALNTDMKRNIALKALDLINDGDTLMVDPSSTAFEFLKLLGNKNNLTVITNSINILHEFA 118
           +   + K+ IA KAL  I++  T+  D SST  E LKLL ++++LT++TNS   +H  A
Sbjct: 74  SSFYEEKQLIARKALPFIDNKTTMAADSSSTVMELLKLLQDRSDLTLLTNSAEAIHVLA 132


>BS_ydjF [KT] COG1842 Phage shock protein A (IM30), suppresses
           sigma54-dependent transcription
          Length = 217

 Score =  107 bits (268), Expect = 8e-24,   Method: Compositional matrix adjust.
 Identities = 10/119 (8%), Positives = 23/119 (19%), Gaps = 1/119 (0%)

Query: 1   VHQDKRVLVSDLSRMFEVTEETIRRDLEKLEKDGILSRTYGGAMLNRHT-NEDLPFVTRN 59
             +   V         +       R+L       +           + T       V  +
Sbjct: 14  EVKHPLVKHKLGLMREQDISTKRFRELASEVGSLLTYEATADLETEKVTIEGWNGPVEID 73

Query: 60  ALNTDMKRNIALKALDLINDGDTLMVDPSSTAFEFLKLLGNKNNLTVITNSINILHEFA 118
            +       + +    L      L   PS+           +    V      + +   
Sbjct: 74  QIKGKKITVVPILRAGLGMMDGVLENVPSARISVVGMYRNEETLEPVPYFQKLVSNIDE 132


>BS_yulB [KG] COG1349 Transcriptional regulators of sugar metabolism
          Length = 258

 Score = 85.5 bits (210), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 49/112 (43%), Positives = 71/112 (63%), Gaps = 1/112 (0%)

Query: 7   VLVSDLSRMFEVTEETIRRDLEKLEKDGILSRTYGGAMLNRHTNEDLPFVTRNALNTDMK 66
           + VS+LS +F VTEETIRRDLEKLEK+  LSR++GGA+  +    ++ F  R   N   K
Sbjct: 20  IRVSELSDIFSVTEETIRRDLEKLEKEHKLSRSHGGAVSIQQKESEIHFSEREITNVIEK 79

Query: 67  RNIALKALDLINDGDTLMVDPSSTAFEFLKLLGNKNNLTVITNSINILHEFA 118
           + IA +A   +  GD +++D S+TA+   K+L +   LTVITNS+    E +
Sbjct: 80  KAIAHEAAKYVKSGDRIILDASTTAWYMAKILPD-IELTVITNSMKAAIELS 130


>srlR [KG] COG1349 Transcriptional regulators of sugar metabolism
          Length = 257

 Score = 82.8 bits (203), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 44/114 (38%), Positives = 71/114 (62%), Gaps = 1/114 (0%)

Query: 1   VHQDKRVLVSDLSRMFEVTEETIRRDLEKLEKDGILSRTYGGAMLNRHTNEDLPFVTRNA 60
           + +  +  V +L++ F+ T  TIR+DL  LE  G + RTYGG +LN+  + D P   +  
Sbjct: 14  LQKQGKCSVEELAQYFDTTGTTIRKDLVILEHAGTVIRTYGGVVLNKEES-DPPIDHKTL 72

Query: 61  LNTDMKRNIALKALDLINDGDTLMVDPSSTAFEFLKLLGNKNNLTVITNSINIL 114
           +NT  K  IA  A+  I+DGD++++D  ST  + + LL   NN+TV+TNS++I+
Sbjct: 73  INTHKKELIAEAAVSFIHDGDSIILDAGSTVLQMVPLLSRFNNITVMTNSLHIV 126


  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
   0.317    0.131    0.379 

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: 10,834,774
Number of extensions: 376115
Number of successful extensions: 1452
Number of sequences better than 1.0e-05: 102
Number of HSP's gapped: 1399
Number of HSP's successfully gapped: 102
Length of query: 180
Length of database: 38,378,431
Length adjustment: 100
Effective length of query: 80
Effective length of database: 26,845,031
Effective search space: 2147602480
Effective search space used: 2147602480
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: 112 (47.8 bits)