ycbG

transcription regulator of the glucarate/galactarate utilization operon ([SW|GntR family])

locus: BSU_02500

pI: 5.99

mw: 26.43 kDa

protein length: 233 aa

gene length: 702 bp

function: regulation of glucarate/galactarate utilization

product: transcription regulator ([SW|GntR family])

essential: no

synonyms

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 2.2.2.14|Utilization of glucarate/galactarate]
• [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: 273,237 273,938

The protein

Protein family

• [SW|GntR family] of transcription factors

[SW|Domains]

• [SW|HTH gntR-type domain] (aa 16–84) (according to UniProt)

Structure

• [PDB|2DI3] (from Corynebacterium glutamicum, corresponds to aa 20 ... 178, 32.7% identity) [pubmed|18988622]

Expression and Regulation

Operons

• genes: [gene|3542BC20C11985B3CFAA4F930E8D794700ADFD2E|ycbC]-[gene|5B66ADB81AB141982F187B1C5E3A9346AA064DE2|ycbD]-[gene|9C4932DA4DEF99263E57871A99684E3DAD93E1EC|ycbE]-[gene|372F2A420309DB0193AEF36A740EBA26410F97F2|ycbF]-[gene|1A65880F68898002EE8774F34EDC47F0243B7273|ycbG]-[gene|BA556E144975921DFDD598B0A7480C65176F0F14|ycbH]-[gene|349C99C258331962455100E2662DA2272E946C8A|ycbJ]
  description: [Pubmed|12044674]

  regulatory mechanism

  • [protein|1A65880F68898002EE8774F34EDC47F0243B7273|YcbG]: repression, [Pubmed|12044674], in [regulon|1A65880F68898002EE8774F34EDC47F0243B7273|YcbG regulon]
  • [protein|E5110D9C36E8C55AFD1419987B14A53232165F20|AbrB]: repression, [Pubmed|18840696], in [regulon|E5110D9C36E8C55AFD1419987B14A53232165F20|AbrB regulon]

  regulation

  • induced by D-glucarate/galactarate ([protein|search|YcbG]) [Pubmed|12044674]

Biological materials

Mutant

• MGNA-C030 (ycbG::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/2028 NBRP B. subtilis, Japan]
• BKE02500 ([gene|1A65880F68898002EE8774F34EDC47F0243B7273|ycbG]::erm trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKE02500 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CACGAACAACTCTCCCTTCA, downstream forward: _UP4_TAATGGTGAGCAACCGCAGT
• BKK02500 ([gene|1A65880F68898002EE8774F34EDC47F0243B7273|ycbG]::kan trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKK02500 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CACGAACAACTCTCCCTTCA, downstream forward: _UP4_TAATGGTGAGCAACCGCAGT

References

• 12044674,23504016,18988622