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ywbD [2019-01-30 13:18:15]
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ywbD [2019-01-30 13:18:15]

similar to ribosomal RNA large subunit methyltransferase I
locus
BSU38360
pI
9.18
mw
44.28 kDa
protein length
396 aa Sequence Blast
gene length
1191 bp Sequence Blast
function
unknown
product
putative ribosomal RNA large subunit methyltransferase
essential
no
synonyms
ipa-19d
Outlinks
KEGGBsubCycSubtiListUniProtExpression Browser

Genomic Context

      

categories

  • [category|SW 3|Information processing] → [category|SW 3.3|Protein synthesis, modification and degradation] → [category|SW 3.3.1|Translation] → [category|SW 3.3.1.3|rRNA modification and maturation/ based on similarity]

    • Gene

    Coordinates
    3,935,824 → 3,937,014

    The protein

    Catalyzed reaction/ biological activity

  • S-adenosyl-L-methionine + rRNA = S-adenosyl-L-homocysteine + rRNA containing C(5)-methylcytosine (according to Swiss-Prot)

    • Protein family

  • RlmI family (according to Swiss-Prot)

    • Structure

  • [PDB|3VSE] (from Staphylococcus aureus, 48% identity) [pubmed|23016631]

    • [SW|Localization]

  • cytoplasm (according to Swiss-Prot)

    • Expression and Regulation

    Operons

    genes
    [gene|F2F0B16E5F55C8C91C20E4FFC7A63E3CD09D4EFD|ywbD]
    description
    [pubmed|22383849]

    regulatory mechanism

  • [protein|5A6FBAE6553343092862CB79E150F934978C32A9|SinR]: repression, [Pubmed|16430695], in [regulon|5A6FBAE6553343092862CB79E150F934978C32A9|SinR regulon]
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    Biological materials

    Mutant

  • MGNA-B222 (ywbD::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/1221 NBRP B. subtilis, Japan]
  • BKE38360 (Δ[gene|F2F0B16E5F55C8C91C20E4FFC7A63E3CD09D4EFD|ywbD]::erm trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKE38360 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATATATGTCGTCCTCTTTC, downstream forward: _UP4_TAAATGAAAAAGCTGCCCTG
  • BKK38360 (Δ[gene|F2F0B16E5F55C8C91C20E4FFC7A63E3CD09D4EFD|ywbD]::kan trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKK38360 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATATATGTCGTCCTCTTTC, downstream forward: _UP4_TAAATGAAAAAGCTGCCCTG

    • lacZ fusion

  • GP1614 ''amyE::p(ywbD-lacZ cat)'', constructed with pGP2150 based on [protein|search|pAC5], available in [SW| Jörg Stülke]'s lab

    • References

  • 16430695,18786544,23016631