rimM

16S rRNA processing protein, RNase

locus: BSU_16020

pI: 5.22

mw: 20.06 kDa

protein length: 174 aa

gene length: 525 bp

function: maturation of 16S rRNA

product: 16S rRNA processing protein, RNase

essential: no

synonyms: ylqE

Genomic Context

categories

• [category|SW 3|Information processing] → [category|SW 3.2|RNA synthesis and degradation] → [category|SW 3.2.4|RNases] → [category|SW 3.2.4.4|RNases/ Other]
• [category|SW 3|Information processing] → [category|SW 3.3|Protein synthesis, modification and degradation] → [category|SW 3.3.1|Translation] → [category|SW 3.3.1.2|rRNA modification and maturation]

Gene

Coordinates: 1,674,650 1,675,174

Phenotypes of a mutant

• defective in 16S rRNA 3' processing by [protein|E0437C86E5F3707FF1DA13C8B98F73130DED8FB4|YqfG] [pubmed|31003868]

The protein

Protein family

• RimM family (single member, according to UniProt)

[SW|Domains]

• PRC barrel domain (aa 98-171) (according to UniProt)

Structure

• [PDB|3H9N] (from ''Haemophilus influenzae'', 33% identity)

[SW|Localization]

• cytoplasm (according to Swiss-Prot)

Expression and Regulation

Operons

• genes: [gene|8F559BFC80FE56EA0389A2336F4E9E6908562BCB|ylxM]-[gene|EC025F78D0BCBD91162BAAB9EAB7D3837E0A3208|ffh]-[gene|25C4850812DC216C1BEFBF07DCA71CC6820930B0|rpsP]-[gene|67FB5F6FB0B2701BD8E4FDD8DF06B236DE6A2599|ylqC]-[gene|0AB1FB44E8F28944B82B5EF14A9CDCFEE46DB76B|ylqD]-[gene|34B0FA6E7E25D1E5D8A54B70F5562BD0BD05B498|rimM]-[gene|885ECD9FAAC8BC95D32F049825D6B6244C046112|trmD]-[gene|51368512B8322EDBCA92674EC2B97CF26087D8A9|rplS]
  description: [Pubmed|29794222]

  sigma factors

  • [protein|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA]: sigma factor, [Pubmed|8335643], in [regulon|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA regulon]

  regulation

  • the mRNA is processed between [gene|EC025F78D0BCBD91162BAAB9EAB7D3837E0A3208|ffh] and [gene|25C4850812DC216C1BEFBF07DCA71CC6820930B0|rpsP] by [protein|872CCB5A49C9000BD95E4B0472556D5F60F7D7A4|RNase Y], this requires the [protein|EE52DFA35B935E551871D079A9BE877DB2001A3B|YmcA]-[protein|6C9A092F38739A3759793EF8B496569CD02C2E3F|YlbF]-[protein|EBD15C174A03B7FCDFFE4C5DB5D86E93F1B9CAC4|YaaT] complex [Pubmed|29794222]

Biological materials

Mutant

• MGNA-B376 (ylqE::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/1375 NBRP B. subtilis, Japan]
• BKE16020 ([gene|34B0FA6E7E25D1E5D8A54B70F5562BD0BD05B498|rimM]::erm trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKE16020 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATATGATCACCTCTGGCGA, downstream forward: _UP4_GAATGAAAATCGATTTTTTG
• BKK16020 ([gene|34B0FA6E7E25D1E5D8A54B70F5562BD0BD05B498|rimM]::kan trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKK16020 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATATGATCACCTCTGGCGA, downstream forward: _UP4_GAATGAAAATCGATTTTTTG

References

• 15496525,31003868