SubtiBank SubtiBank
yhdF [2018-02-13 15:42:37]
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yhdF [2018-02-13 15:42:37]

similar to glucose 1-dehydrogenase
locus
BSU09450
pI
5.16
mw
31.36 kDa
protein length
289 aa Sequence Blast
gene length
867 bp Sequence Blast
function
unknown
product
unknown
essential
no
synonyms
Outlinks
KEGGBsubCycSubtiListUniProtExpression Browser

Genomic Context

      

categories

  • [category|SW 4|Lifestyles] → [category|SW 4.3|Coping with stress] → [category|SW 4.3.1|General stress proteins (controlled by SigB)]
  • [category|SW 6|Groups of genes] → [category|SW 6.6|Poorly characterized/ putative enzymes]

    • Gene

    Coordinates
    1,022,231 → 1,023,100

    The protein

    Protein family

  • short-chain dehydrogenases/reductases (SDR) family (according to Swiss-Prot)

    • Paralogous protein(s)

  • [protein|B6FF689E65906186F3576B378650D713DB84EDDA|YcdF] (34,3%), [protein|3161519994609DA9360ED6E073E4A4C8C6210EFB|YdaD] (69%), [protein|6047F2493FCE3D2A9BDB1AD88E5926ECEED81036|YhxC] (62,3%), [protein|739B228743BC1FE9E6888E999BC0E4F615E36F9E|YhxD] (47,9%), [protein|CA4597C6253CCF7D7954686A30AF041808BDF8E5|Gdh] (35.2%),
  • [protein|0DD474462720CAEE2AE17017BD7CA385238EBC6F|YxbG] (36.1%),[protein|20A7DBA142F3BF8DCAD9732BD908CE8CC79AA993|BacC] (37.8%), [protein|439B468A13137000FB42E9389391CB4986FFED84|FabG] (31.6%), [protein|4DEFC2998464BF8327578C36A13A10DD277F991E|YkvO] (34.3%),[protein|FBBDE1E058223D5E8CEB07CAA50940A329C809E4|KduD] (33.1%), [protein|CE990D33A12C50D22506A52E0099F7D97A762D4E|FadH] (31.1%), [protein|248F0805272FED9B38ECBB31E2872BC9EC163CE0|YmfI] (30,6%),[protein|D9D1FCBFC62F93CAA34DF61A784406F4E9EE6768|YjdA] (33.6%), [protein|6BA346D8A7B496F9618AFAB4FEEF4BD1A41D2C7E|YoxD] (31.9%), [protein|5964B6E817260DA7937796DDFA753A665A04D650|FabL] (30.1%),[protein|0FD332269D2D6103E57ACE719E39977C68E38F0A|YvrD] (30.2%)

    • Structure

  • [PDB|3I30] (from Bacillus anthracis str. amesAncestor, 66% identity)

    • Expression and Regulation

    Operons

    genes
    [gene|EAEEA4DD9641919830A81185333A2610B964D37C|yhdF]
    description
    [Pubmed|22383849]

    sigma factors

  • [protein|580011DE5DC40EC9E7E0512791D328FAA010DCB8|SigB]: sigma factor, [Pubmed|11544224], in [regulon|580011DE5DC40EC9E7E0512791D328FAA010DCB8|SigB regulon]

    • regulation

  • induced by stress ([protein|search|SigB]) [Pubmed|11544224]
    • view in new tab

    genes
    [gene|6684F6083B001E9FDC5967799B715AE966B83E1D|citA]-[gene|EAEEA4DD9641919830A81185333A2610B964D37C|yhdF]
    description
    [Pubmed|22383849]

    sigma factors

  • [protein|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA]: sigma factor, [Pubmed|8045898], in [regulon|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA regulon]

    • regulatory mechanism

  • [protein|E7E0B170D1EEECE4E4EDC29B0399CB48253E9A17|CitR]: repression, [Pubmed|8045899], in [regulon|E7E0B170D1EEECE4E4EDC29B0399CB48253E9A17|CitR regulon]

    • regulation

  • induced by stress ([protein|search|SigB]) [Pubmed|11544224]
    • view in new tab

    Biological materials

    Mutant

  • MGNA-B478 (yhdF::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/1477 NBRP B. subtilis, Japan]
  • BKE09450 (Δ[gene|EAEEA4DD9641919830A81185333A2610B964D37C|yhdF]::erm trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKE09450 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CACATTCATCACTCCTAGAC, downstream forward: _UP4_TAATCAACGAAAAACCAGCT
  • BKK09450 (Δ[gene|EAEEA4DD9641919830A81185333A2610B964D37C|yhdF]::kan trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKK09450 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CACATTCATCACTCCTAGAC, downstream forward: _UP4_TAATCAACGAAAAACCAGCT

    • References

  • 11544224