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ymaB [2019-11-21 16:36:44]
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ymaB [2019-11-21 16:36:44]

putative [SW|Nudix hydrolase]
locus
BSU_17400
pI
4.51
mw
23.24 kDa
protein length
206 aa Sequence Blast
gene length
621 bp Sequence Blast
function
unknown
product
unknown
essential
no
synonyms
Outlinks
KEGGBsubCycSubtiListUniProtExpression Browser

Genomic Context

      

categories

  • [category|SW 6|Groups of genes] → [category|SW 6.7|Proteins of unknown function]

    • Gene

    Coordinates
    1,872,128 1,872,748

    The protein

    Structure

  • [PDB|3E57] (from ''Thermotoga maritima'', 35% identity)

    • Expression and Regulation

    Operons

    genes
    [gene|1EA0595C74359A36B9161CFD531CA894C5E66E25|nrdI]-[gene|3B68CE8E9A35997B45E437A316996D585E43B76B|nrdE]-[gene|CD2D14FE9C10544E7C350167EBDBD941B898051D|nrdF]-[gene|8C2A08A8395B72CCC9D03A8154602B8F3B77A1AA|ymaB]
    description
    [Pubmed|16885274]

    sigma factors

  • [protein|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA]: sigma factor, [Pubmed|16885274], in [regulon|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA regulon]

    • regulatory mechanism

  • [protein|1E829D639BADDC6BDC9B5FB4C97A632A53FDDB24|ResD]: activation, [Pubmed|16885274], in [regulon|1E829D639BADDC6BDC9B5FB4C97A632A53FDDB24|ResD regulon]
  • [protein|FD4E988BB73F6476CCEA4C521F343D6F8CBA457F|NrdR]: repression, (predicted) [Pubmed|15949864], in [regulon|FD4E988BB73F6476CCEA4C521F343D6F8CBA457F|NrdR regulon]
  • [protein|00BCAAE16576DC5426A652580C69A570FC7A1C2C|PerR]: transcription repression, [Pubmed|27920297], in [regulon|00BCAAE16576DC5426A652580C69A570FC7A1C2C|PerR regulon]

    • regulation

  • expressed under anaerobic conditions ([protein|search|ResD]) [Pubmed|16885274]

    • additional information

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

    genes
    [gene|93FA602438546FD6201FAB5BD19DB5DEB5965E48|ymzA]-[gene|1EA0595C74359A36B9161CFD531CA894C5E66E25|nrdI]-[gene|3B68CE8E9A35997B45E437A316996D585E43B76B|nrdE]-[gene|CD2D14FE9C10544E7C350167EBDBD941B898051D|nrdF]-[gene|8C2A08A8395B72CCC9D03A8154602B8F3B77A1AA|ymaB]
    description
    [Pubmed|22383849]
    view in new tab

    Biological materials

    Mutant

  • MGNA-B380 (ymaB::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/1379 NBRP B. subtilis, Japan]
  • BKE17400 ([gene|8C2A08A8395B72CCC9D03A8154602B8F3B77A1AA|ymaB]::erm trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKE17400 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATGGGTACTGCGTCCTCCT, downstream forward: _UP4_TAAAAAAACCCGGTTTCTCG
  • BKK17400 ([gene|8C2A08A8395B72CCC9D03A8154602B8F3B77A1AA|ymaB]::kan trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKK17400 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATGGGTACTGCGTCCTCCT, downstream forward: _UP4_TAAAAAAACCCGGTTTCTCG

    • References

  • 16885274,8969495,15949864,27920297