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rocR [2018-05-24 12:14:48]
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rocR [2018-05-24 12:14:48]

transcriptional activator of arginine utilization operons
locus
BSU40350
pI
6.08
mw
52.01 kDa
protein length
461 aa Sequence Blast
gene length
1383 bp Sequence Blast
function
transcriptional activator of arginine utilization operons
product
transcriptional activator
essential
no
synonyms
Outlinks
KEGGBsubCycSubtiListUniProtExpression Browser

Genomic Context

      

categories

  • [category|SW 2|Metabolism] → [category|SW 2.3|Amino acid/ nitrogen metabolism] → [category|SW 2.3.2|Utilization of amino acids] → [category|SW 2.3.2.4|Utilization of arginine/ ornithine]
  • [category|SW 3|Information processing] → [category|SW 3.4|Regulation of gene expression] → [category|SW 3.4.2|Transcription factors and their control] → [category|SW 3.4.2.5|Transcription factors/ other]

    • Gene

    Coordinates
    4,145,747 → 4,147,132

    The protein

    Catalyzed reaction/ biological activity

  • transcription activation at [protein|1118A21CC581B0470EC6E7C178F2523CDCA70F93|SigL]-dependent promoters of [gene|69838717DC6BB27864D88C282BF5BC7CC558BFD7|rocABC], [gene|617FE9E40E8822D58B0446128585CB6CA05A50C6|rocDEF], and [gene|56CBEBCFEF5CFB4A0175498338C7AF2F45EAA3E3|rocG]

    • Protein family

  • [protein|1118A21CC581B0470EC6E7C178F2523CDCA70F93| Sigma-54] interacting transcription activator
  • [SW|Transcription factors activating transcription at SigL-dependent promoters]

    • [SW|Domains]

  • [protein|1118A21CC581B0470EC6E7C178F2523CDCA70F93| Sigma-54] factor interaction domain (143–372)
  • 2x nucleotid-binding domain (171–178),(233–242)
  • HTH motif (434–453)
  • [SW|PAS domain]

    • [SW|Cofactors]

  • ornithine or citrulline are required for RocR-dependent transcription activation [http://www.ncbi.nlm.nih.gov/sites/entrez/9194709 PubMed]

    • Structure

  • [PDB|1OJL] (corresponds to aa 143 ... 454, 41% identity)

    • additional information

  • information on binding sites can be found in the [http://www.prodoric2.de/detail.php?acc=MX000062 PRODORIC2 database]

    • Expression and Regulation

    Operons

    genes
    [gene|BEE6F16D6A5BBC7FED9E8EB5FA6A94BBF932BBDA|rocR]
    description
    [pubmed|22383849]

    sigma factors

  • [protein|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA]: sigma factor, [PubMed|7540694], in [regulon|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA regulon]

    • regulatory mechanism

  • [protein|BEE6F16D6A5BBC7FED9E8EB5FA6A94BBF932BBDA|RocR]: autorepression, [Pubmed|2548995], in [regulon|BEE6F16D6A5BBC7FED9E8EB5FA6A94BBF932BBDA|RocR regulon]
  • [protein|D267AF38B0CF107042326E9B8F3DD3C9C85840E4|LexA]: autorepression, in [regulon|D267AF38B0CF107042326E9B8F3DD3C9C85840E4|LexA regulon]

    • regulation

  • autoregulation by [protein|BEE6F16D6A5BBC7FED9E8EB5FA6A94BBF932BBDA|RocR] [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids= 7540694 PubMed]
    • view in new tab

    Biological materials

    Mutant

  • GP2312 (Δ[gene|BEE6F16D6A5BBC7FED9E8EB5FA6A94BBF932BBDA|rocR]::''tet'', available in [SW|Jörg Stülke]'s lab)
  • QB5533 (aphA3), from [SW|Michel Debarbouille], available in [SW|Jörg Stülke]'s lab
  • 1A911 ( ''rocR''::''kan''), [Pubmed|16585774], available at [http://pasture.asc.ohio-state.edu/BGSC/getdetail.cfm?bgscid=1A911&Search=1A911 BGSC]
  • BKE40350 (Δ[gene|BEE6F16D6A5BBC7FED9E8EB5FA6A94BBF932BBDA|rocR]::''erm'', available in the BGSC, in [SW|Fabian Commichau]'s, and in [SW|Jörg Stülke]'s lab) [pubmed|28189581]
  • BKE40350 (Δ[gene|BEE6F16D6A5BBC7FED9E8EB5FA6A94BBF932BBDA|rocR]::erm trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKE40350 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CACTGTATGAACCTCCCTCA, downstream forward: _UP4_CAATATCGGCTGAAGAAATT
  • BKK40350 (Δ[gene|BEE6F16D6A5BBC7FED9E8EB5FA6A94BBF932BBDA|rocR]::kan trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKK40350 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CACTGTATGAACCTCCCTCA, downstream forward: _UP4_CAATATCGGCTGAAGAAATT

    • Labs working on this gene/protein

  • [SW|Michel Debarbouille], Pasteur Institute, Paris, France [http://www.pasteur.fr/ip/easysite/go/03b-00000m-0ob/recherche/departements-scientifiques/microbiologie/unites-et-groupes/unite-de-biologie-des-bacteries-pathogenes-a-gram-positif/les-membres-de-l-equipe Homepage]

    • References

  • 12634342,8113162,9194709,21965396,23869754,21906631