nagR [2018-09-27 14:16:44]

transcriptional regulator (GntR family)

locus: BSU35030

pI: 6.77

mw: 27.36 kDa

protein length: 243 aa

gene length: 729 bp

function: regulator of the nagA-nagB-nagR operon

product: transcriptional regulator (GntR family)

essential: no

synonyms: yvoA

Genomic Context

categories

• [category|SW 2|Metabolism] → [category|SW 2.2|Carbon metabolism] → [category|SW 2.2.2|Utilization of specific carbon sources] → [category|SW 2.2.2.17|Utilization of amino sugars]
• [category|SW 2|Metabolism] → [category|SW 2.3|Amino acid/ nitrogen metabolism] → [category|SW 2.3.3|Utilization of nitrogen sources other than amino acids] → [category|SW 2.3.3.3|Utilization of amino sugars]
• [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: 3,597,289 → 3,598,020

The protein

Catalyzed reaction/ biological activity

• transcription repression of ''[gene|7D5A8084FDDA962CCF028FC3735E68C4F2E77084|nagP]'' and of the putative ''[gene|8F4D075C9B9EF995E361F9BA5E8B52F42059C422|nagA]-[gene|0C8D7EAC2656E989E45B5B7E42FAA6D258956B56|nagB]-[gene|6D36D6360FE1CBFF5F64B2A6D1406405D6C6F7D5|nagR]'' operon in the absence of N-acetylglycosamine [Pubmed|24673833,20047956,21602348], weak repression of ''[gene|F2DE9BFE16D7B0DAE92DB58F9B1EDFBB7557ED16|yflG]'' [Pubmed|16207374]

Protein family

• [SW|GntR family] of transcription factors

Kinetic information

• K(D) for N-acetylglucosamine-6-phosphate: 1 mM [Pubmed|20047956]

Effectors of protein activity

• N-acetylglucosamine-6-phosphate and glucosamine-6-phosphate act as the molecular inducers [Pubmed|25564531,21602348,20047956]

Structure

• [PDB|2WV0] [Pubmed|20047956]
• [PDB|4U0V] (complex with glucosamine-6-phosphate) [Pubmed|25564531]
• [PDB|4U0W] (complex with N-acetylglucosamine-6-phosphate) [Pubmed|25564531]
• [PDB|4WWC] (complex with palindromic operator DNA) [Pubmed|25564531]

Expression and Regulation

Operons

• genes: [gene|8F4D075C9B9EF995E361F9BA5E8B52F42059C422|nagA]-[gene|0C8D7EAC2656E989E45B5B7E42FAA6D258956B56|nagB]-[gene|6D36D6360FE1CBFF5F64B2A6D1406405D6C6F7D5|nagR]
  description: [Pubmed|21602348]

  sigma factors

  • [protein|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA]: sigma factor, [Pubmed|23667565], in [regulon|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA regulon]

  regulatory mechanism

  • [protein|6D36D6360FE1CBFF5F64B2A6D1406405D6C6F7D5|NagR]: repression, [Pubmed|24673833,21602348], in [regulon|6D36D6360FE1CBFF5F64B2A6D1406405D6C6F7D5|NagR regulon]
  • [protein|E39AFEB7B7F28969A35C4B51CC6E7819F71C79D9|CcpA]: repression, [Pubmed|12850135], in [regulon|E39AFEB7B7F28969A35C4B51CC6E7819F71C79D9|CcpA regulon]

  regulation

  • induced in the presence of N-acetylglucosamine ([protein|search|NagR]) [Pubmed|24673833,21602348,14343123]

Biological materials

Mutant

• MGNA-A335 (yvoA::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/335 NBRP B. subtilis, Japan]
• BKE35030 (Δ[gene|6D36D6360FE1CBFF5F64B2A6D1406405D6C6F7D5|nagR]::erm trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKE35030 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATAAGTCAGCATGTTCCTT, downstream forward: _UP4_TCATAAAAAAAGCCTCCAAC
• BKK35030 (Δ[gene|6D36D6360FE1CBFF5F64B2A6D1406405D6C6F7D5|nagR]::kan trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKK35030 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATAAGTCAGCATGTTCCTT, downstream forward: _UP4_TCATAAAAAAAGCCTCCAAC

References

Reviews

• 26159076

Original publications

• 19342794,20047956,16207374,21602348,23667565,24673833,25564531