ylmH

168

ribosome-associated quality control factor, stabilizes the P-site tRNA conformation, processivity factor essential for poly-alanine synthesis during ribosome quality control elongation by [protein|003047E90159765F9F0E499FD760F95FFF4AC360|rqcH], redundant with [protein|B0CB19A3E3E84E12BF42BB050394C8A059A89359|rqcP]

locus: BSU_15410

Molecular weight: 28.92 kDa

pI: 7.04

Protein length: 257 aa

Gene length: 774 bp

function: ribosome-associated quality control

product: ribosome-associated quality control factor

essential: no

synonyms: ylmH

List of homologs in different organisms, belongs to COG2302 (Galperin et al., 2021)

Gene

Coordinates: 1,611,654 → 1,612,427

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The protein

Catalyzed reaction/ biological activity

• binds to the 50S ribosome subunit via 23S rRNA [https://www.biorxiv.org/content/10.1101/2024.03.03.583159v1.full.pdf bioRxiv]

Protein family

• [wiki|S4 RNA-binding domain] superfamily (according to http://www.ebi.ac.uk/interpro/entry/IPR036986 Interpro)

[wiki|Domains]

• [wiki|S4 RNA-binding domain] (aa 181-251) (according to UniProt)

Structure

• [PDB|8S1P] [protein|BD5ACF930DD63E258D71569326752C9A1D7B9324|ylmH] bound to the 50S ribosome subunit [https://www.biorxiv.org/content/10.1101/2024.03.03.583159v1.full.pdf bioRxiv]
• [PDB|8S1U] [protein|BD5ACF930DD63E258D71569326752C9A1D7B9324|ylmH] and [protein|003047E90159765F9F0E499FD760F95FFF4AC360|rqcH] bound to the 50S ribosome subunit [https://www.biorxiv.org/content/10.1101/2024.03.03.583159v1.full.pdf bioRxiv]
• [PDB|2FPH] (from Streptococcus pneumoniae, N-terminal domain, corresponds to aa 4 ... 158, 32% identity)
• [AF|P71020]

Expression and Regulation

Operons

• genes: [gene|ECCE99438DBFC52DA7236CB4F6486DD004CADF73|ylmD]-[gene|31789A170CB624BF8210C915F40007F802F5C81B|ylmE]-[gene|DB09F1C36257F511A84A083967A25A9D46744D14|sepF]-[gene|2B2D285D5A8F160808A21DCF07BDB924365970C5|ylmG]-[gene|BD5ACF930DD63E258D71569326752C9A1D7B9324|ylmH]

  description: [Pubmed|16420366]

  regulation

  • repressed under conditions that trigger sporulation ([wiki|Spo0A]) [Pubmed|14651647]

  regulatory mechanism

  • [protein|2C54FE2ADC82FF414D732018C90649D477A925AD|spo0A]: repression, [Pubmed|14651647], in [regulon|protein:2C54FE2ADC82FF414D732018C90649D477A925AD|spo0A regulon]

Biological materials

Mutant

• MGNA-B364 ([gene|BD5ACF930DD63E258D71569326752C9A1D7B9324|ylmH]::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/1363 NBRP B. subtilis, Japan]
• BKE15410 (Δ[gene|BD5ACF930DD63E258D71569326752C9A1D7B9324|ylmH]::erm trpC2) available at [http://bgsc.org/getdetail.php?bgscid=BKE15410 BGSC],  [Pubmed|28189581], upstream reverse: _UP1_CATCGTCTTTCCCTTCTATG,  downstream forward: _UP4_TAGTCGGTTTTTCAGTTTTT
• BKK15410 (Δ[gene|BD5ACF930DD63E258D71569326752C9A1D7B9324|ylmH]::kan trpC2) available at [http://bgsc.org/getdetail.php?bgscid=BKK15410 BGSC],  [Pubmed|28189581], upstream reverse: _UP1_CATCGTCTTTCCCTTCTATG,  downstream forward: _UP4_TAGTCGGTTTTTCAGTTTTT

References

• 14651647,16420366,32900832