cggR [2019-07-12 07:43:13]

repressor of the glycolytic [gene|EB6512177418B1601C6641FB2DEE99C2CD10E671|gapA] operon, [SW|DeoR family]

locus: BSU33950

pI: 5.68

mw: 37.23 kDa

protein length: 340 aa

gene length: 1023 bp

function: transcriptional regulator

product: central glycolytic genes regulator

essential: no

synonyms: yvbQ

Genomic Context

categories

• [category|SW 2|Metabolism] → [category|SW 2.2|Carbon metabolism] → [category|SW 2.2.1|Carbon core metabolism] → [category|SW 2.2.1.1|Glycolysis]
• [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]
• [category|SW 3|Information processing] → [category|SW 3.4|Regulation of gene expression] → [category|SW 3.4.5|Regulators of core metabolism]

Gene

Coordinates: 3,482,752 3,483,774

Phenotypes of a mutant

• suppresses the growth defect of [gene|7150BABA5086D5E2EB8102E4901A216F43576282|glmR] mutants on gluconeogenic substrates [Pubmed|16272399]

The protein

Catalyzed reaction/ biological activity

• transcription repression of the glycolytic ''[gene|EB6512177418B1601C6641FB2DEE99C2CD10E671|gapA]'' operon

Protein family

• sorC transcriptional regulatory family (according to Swiss-Prot)

[SW|Domains]

• DNA binding domain (H-T-H motif) (3756)

Effectors of protein activity

• fructose 1.6-bisphosphate [Pubmed|29923648,12622823] and dihydroxyacetone phosphate, glucose-6-phosphate and fructose-6-phosphate [Pubmed|18554327] act as inducer and result in release of [protein|ADA6F2EDC7B18FDFFA47CC8C55BCDDE1B6821160|CggR] from the DNA

Structure

• [PDB|3BXH] (in complex with fructose-6-phosphate) [pubmed|18554327]
• [PDB|2OKG] (effector binding domain) [pubmed|18554327]

[SW|Localization]

• cytoplasma [Pubmed|20572937]

Expression and Regulation

Operons

• genes: [gene|ADA6F2EDC7B18FDFFA47CC8C55BCDDE1B6821160|cggR]-[gene|EB6512177418B1601C6641FB2DEE99C2CD10E671|gapA]-[gene|ECF0F2E906BF94F509817752827CA189AFBE53FE|pgk]-[gene|0B5E910DC94463E34ABD393E3A8F20191E4A38B2|tpi]-[gene|C86FB523451AC172A20801829B717E5A5F914211|pgm]-[gene|67651D5D3122A89F57F9E7D49074C82A8990A277|eno]
  description: [Pubmed|11489127]

  sigma factors

  • [protein|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA]: sigma factor, [Pubmed|11489127], in [regulon|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA regulon]

  regulatory mechanism

  • [protein|ADA6F2EDC7B18FDFFA47CC8C55BCDDE1B6821160|CggR]: repression, [Pubmed|11489127], in [regulon|ADA6F2EDC7B18FDFFA47CC8C55BCDDE1B6821160|CggR regulon]

  regulation

  • expression induced by glycolytic intermediates ([protein|ADA6F2EDC7B18FDFFA47CC8C55BCDDE1B6821160|CggR]) [protein|ADA6F2EDC7B18FDFFA47CC8C55BCDDE1B6821160|CggR] [Pubmed|11489127]
  • the mRNA is processed between [gene|ADA6F2EDC7B18FDFFA47CC8C55BCDDE1B6821160|cggR] and [gene|EB6512177418B1601C6641FB2DEE99C2CD10E671|gapA] by [protein|872CCB5A49C9000BD95E4B0472556D5F60F7D7A4|RNase Y], this requires the [protein|EE52DFA35B935E551871D079A9BE877DB2001A3B|YmcA]-[protein|6C9A092F38739A3759793EF8B496569CD02C2E3F|YlbF]-[protein|EBD15C174A03B7FCDFFE4C5DB5D86E93F1B9CAC4|YaaT] complex [Pubmed|29794222]

• genes: [gene|ADA6F2EDC7B18FDFFA47CC8C55BCDDE1B6821160|cggR]-[gene|EB6512177418B1601C6641FB2DEE99C2CD10E671|gapA]
  description: [Pubmed|11489127]

  sigma factors

  • [protein|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA]: sigma factor, [pubmed|11489127], in [regulon|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA regulon]

  regulatory mechanism

  • [protein|ADA6F2EDC7B18FDFFA47CC8C55BCDDE1B6821160|CggR]: repression, [pubmed|11489127], in [regulon|ADA6F2EDC7B18FDFFA47CC8C55BCDDE1B6821160|CggR regulon]

  regulation

  • expression induced by glucose (10 fold) ([protein|ADA6F2EDC7B18FDFFA47CC8C55BCDDE1B6821160|CggR]) [Pubmed|12850135,12622823]
  • the mRNA is processed between [gene|ADA6F2EDC7B18FDFFA47CC8C55BCDDE1B6821160|cggR] and [gene|EB6512177418B1601C6641FB2DEE99C2CD10E671|gapA] by [protein|872CCB5A49C9000BD95E4B0472556D5F60F7D7A4|RNase Y], this requires the [protein|EE52DFA35B935E551871D079A9BE877DB2001A3B|YmcA]-[protein|6C9A092F38739A3759793EF8B496569CD02C2E3F|YlbF]-[protein|EBD15C174A03B7FCDFFE4C5DB5D86E93F1B9CAC4|YaaT] complex [Pubmed|29794222]

additional information

• the mRNA is cleaved by [protein|BAB297D18F94FFA67B8D12A684AB4D1BCDFB4981|RNase III] [PubMed|26883633]

Biological materials

Mutant

• MGNA-A463 (yvbQ::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/463 NBRP B. subtilis, Japan]
• GP311 (in frame deletion), available in [SW|Jörg Stülke]'s lab
• SM-NB7 (cggR-spc), available in [SW|Anne Galinier]'s and [SW|Boris Görke]'s labs
• BKE33950 ([gene|ADA6F2EDC7B18FDFFA47CC8C55BCDDE1B6821160|cggR]::erm trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKE33950 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATGACTCAAACGTTCCTTC, downstream forward: _UP4_TAATCCCTCAATATAAATAT
• BKK33950 ([gene|ADA6F2EDC7B18FDFFA47CC8C55BCDDE1B6821160|cggR]::kan trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKK33950 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATGACTCAAACGTTCCTTC, downstream forward: _UP4_TAATCCCTCAATATAAATAT

Expression vectors

• pGP705 (N-terminal His-tag, in [SW|pWH844]), available in [SW|Jörg Stülke]'s lab

lacZ fusion

• pGP504 (in [SW|pAC7]), pGP509 (in [SW|pAC6]), available in [SW|Jörg Stülke]'s lab

Antibody

• available in [SW|Jörg Stülke]'s lab

labs

• [SW|Stephane Aymerich], Microbiology and Molecular Genetics, INRA Paris-Grignon, France

References

Reviews

• 20408793

Original Publications

• 20462860,22190493,23280112,21815947,19193632,12850135,12622823,18186488,10799476,11489127,12123463,12634343,18052209,17293407,20361740,20444087,18554327,25099370,26883633,16272399,29923648,30082753