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yvcK [2018-04-11 10:12:02]
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yvcK [2018-04-11 10:12:02]

essential for growth under gluconeogenetic conditions, control of cell shape, required for correct localization of [protein|A8EEC896B279CFDDE9C3A6F146A04EC822E33A4F|PBP1]
locus
BSU34760
pI
5.41
mw
34.53 kDa
protein length
317 aa Sequence Blast
gene length
951 bp Sequence Blast
function
localization of [protein|A8EEC896B279CFDDE9C3A6F146A04EC822E33A4F|PBP1]
product
UDP-sugar binding cell shape determinant
essential
no
synonyms
Outlinks
KEGGBsubCycSubtiListUniProtExpression Browser

Genomic Context

      

categories

  • [category|SW 1|Cellular processes] → [category|SW 1.1|Cell envelope and cell division] → [category|SW 1.1.1|Cell wall synthesis] → [category|SW 1.1.1.1|Biosynthesis of peptidoglycan]
  • [category|SW 1|Cellular processes] → [category|SW 1.1|Cell envelope and cell division] → [category|SW 1.1.2|Cell shape]
  • [category|SW 2|Metabolism] → [category|SW 2.6|Additional metabolic pathways] → [category|SW 2.6.1|Biosynthesis of cell wall components] → [category|SW 2.6.1.1|Biosynthesis of peptidoglycan]
  • [category|SW 6|Groups of genes] → [category|SW 6.11|Efp-dependent proteins]
  • [category|SW 6|Groups of genes] → [category|SW 6.4|Phosphoproteins] → [category|SW 6.4.6|Phosphorylation on a Thr residue]

    • Gene

    Coordinates
    3,570,546 → 3,571,499

    Phenotypes of a mutant

  • unable to grow with gluconeogenic substrates as single carbon source [Pubmed|16272399]
  • filamentous or L-shape-like aberrant morphologies (suppressed by Mg2+) [Pubmed|16272399], this is supressed by overexpression of [protein|A4C8719E06F774A6EB4D79757CC79CF89E453A54|MreB] or by deletion of [gene|A8EEC896B279CFDDE9C3A6F146A04EC822E33A4F|PBP1] [Pubmed|21320184]

    • The protein

    Protein family

  • UPF0052 family (according to Swiss-Prot)

    • [SW|Domains]

  • phosphorylated on Thr-304 by [protein|23FF4A00C36EC1B7297F51A9EF3579B41F0B7EBA|PrkC], dephosphorylated by [protein|84447F9A6644EA8A7593BB99B2B69D4377E670E2|PrpC] [Pubmed|25012659]

    • Effectors of protein activity

  • binds UDP-sugars (UDP-Glc, UDP-GlcNAc) [pubmed|28646159]

    • Structure

  • [PDB|2O2Z] (the protein from ''B. halodurans'', 63% identity, 86% similarity)

    • [SW|Localization]

  • localized as a helical-like pattern [Pubmed|25012659,21320184]

    • Expression and Regulation

    Operons

    genes
    [gene|0C40455EB53D25363FC3EB0E84502A76520F5F91|nahA]-[gene|EB12C6B4F36B57BF0C59CE048CBAE18734C78D35|yvcJ]-[gene|7150BABA5086D5E2EB8102E4901A216F43576282|glmR]-[gene|1986DB3078FBA16D6ACCD70EEAC95C46564D0958|whiA]-[gene|A269774F2FDC94F93BA5F1360FFFE754B50383AD|crh]-[gene|C521BEE1EEEA7AD283A3C47C34301A8603CD9188|yvcN]
    description
    [Pubmed|9237995]

    sigma factors

  • [protein|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA]: sigma factor, [Pubmed|16272399], in [regulon|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA regulon]

    • regulatory mechanism

  • [protein|E39AFEB7B7F28969A35C4B51CC6E7819F71C79D9|CcpA]: repression, in [regulon|E39AFEB7B7F28969A35C4B51CC6E7819F71C79D9|CcpA regulon]

    • regulation

  • constitutive expression at both protein and RNA levels [Pubmed|24097947,22383849]

    • additional information

  • A [protein|search|ncRNA] is predicted between '[protein|search|yvcI]' and '[protein|search|trxB]' [PubMed|20525796]
    • view in new tab

    additional information

  • translation is likely to require [protein|3054CD45713BBD69C2A528DE24AF6AF37175FD9D|Efp] due to the presence of several consecutive proline residues [PubMed|23239624,23239623]

    • Biological materials

    Mutant

  • MGNA-B640 (yvcK::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/1639 NBRP B. subtilis, Japan]
  • BKE34760 (Δ[gene|7150BABA5086D5E2EB8102E4901A216F43576282|glmR]::erm trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKE34760 BGSC], [Pubmed|28189581], upstream reverse: _UP1_TGCGATTTTCGGCTTTTGTC, downstream forward: _UP4_TGAAGCCTTGAAATGAGGTG
  • BKK34760 (Δ[gene|7150BABA5086D5E2EB8102E4901A216F43576282|glmR]::kan trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKK34760 BGSC], [Pubmed|28189581], upstream reverse: _UP1_TGCGATTTTCGGCTTTTGTC, downstream forward: _UP4_TGAAGCCTTGAAATGAGGTG

    • Expression vector

  • pGP736 (N-terminal Strep-tag, purification from ''B. subtilis'', for [SW|SPINE], in [SW|pGP380]), available in [SW|Stülke] lab

    • two-hybrid system

  • ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([SW|BACTH]), available in [SW| Görke] lab

    • Labs working on this gene/protein

  • [SW|Anne Galinier], University of Marseille, France

    • References

    Reviews

  • 21371139

    • Original publications

  • 9237995,16272399,21320184,25012659,25047842,27806131,28646159