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* Bacterial regulatory proteins, gntR family signature *
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The many bacterial transcription regulation proteins which bind DNA  through a
'helix-turn-helix' motif can  be  classified into subfamilies  on the basis of
sequence similarities. One of these subfamilies groups together [1,2,3]:

 - fadR  from  Escherichia  coli,  a  multifunctional  regulator of fatty acid
   metabolism.
 - gntR from Bacillus subtilis, the transcriptional repressor of the gluconate
   operon.
 - hutC, Klebsiella aerogenes and Pseudomonas putida transcriptional repressor
   of the histidine utilization (hut) operon.
 - korA from Streptomyces  lividans plasmid  pIJ101, a  regulator protein that
   controls plasmid transfer.
 - lctR  from  Escherichia  coli,  a  putative  regulator   of  the  L-lactate
   dehydrogenase operon.
 - phdR from Escherichia coli,  the transcriptional  repressor of the pyruvate
   dehydrogenase complex.
 - phnF from Escherichia coli, a putative transcriptional regulator of the phn
   locus which  encodes  proteins  involved  in  alkylphosphonate  uptake  and
   cleavage of the carbon-phosphorus bond.
 - Escherichia coli protein P30,  a possible  transcriptional regulator of the
   succinyl-CoA-synthetase operon.
 - yidP, an Escherichia coli hypothetical protein.
 - yihL, an Escherichia coli hypothetical protein.

The 'helix-turn-helix' DNA-binding motif of these proteins  is  located in the
N-terminal part of the sequences.  The pattern we use to detect these proteins
spans the complete helix-turn-helix motif.

-Consensus pattern: E-x(2)-[LIVM]-x(3)-[LIVMF]-x-[LIVMF]-[NSTK]-R-x(2)-[LIVM]-
                    x(3)-[LIVM]-x(2)-L
-Sequences known to belong to this class detected by the pattern: ALL,  except
 for korA.
-Other sequence(s) detected in SWISS-PROT: Turnip   Yellow  Mosaic  virus  RNA
 replicase polyprotein.
-Last update: June 1994 / Text revised.

[ 1] Buck D., Guest J.R.
     Biochem. J. 260:737-747(1989).
[ 2] Haydon D.J., Guest J.R.
     FEMS Microbiol. Lett. 79:291-296(1991).
[ 3] Reizer A., Deutscher J., Saier M.H. Jr., Reizer J.
     Mol. Microbiol. 5:1081-1089(1991).