rnr

168

RNase R, required for protection against paraquate stress

locus: BSU_33610

Molecular weight: 88.56 kDa

pI: 5.7

Protein length: 779 aa

Gene length: 2340 bp

function: nonspecific degradation of rRNA

product: exoribonuclease RNase R (EC 3.1.-.-)

essential: no

synonyms: rnr, yvaJ

List of homologs in different organisms, belongs to COG0557 (Galperin et al., 2021)

Gene

Coordinates: 3,451,863  3,454,202

Phenotypes of a mutant

• defective in [category|SW.4.1.4|Swarming] motility (prolonged period of immotility prior to [category|SW.4.1.4|Swarming]) [pubmed|35638827]

The protein

Catalyzed reaction/ biological activity

• 3'-5'-exoribonuclease
• Exonucleolytic cleavage in the 3'- to 5'-direction to yield nucleoside 5'-phosphates (according to UniProt)

Protein family

• RNR ribonuclease family (single member, according to UniProt)

[wiki|Domains]

• [wiki|S1 domain] (aa 628-708) (according to UniProt)
• 2 [wiki|CSD domain]s (aa 73-133, aa 138-202) (according to the Interpro database)

Structure

• [PDB|5XGU] (from E. coli, 40% identity) [pubmed|29036353]
• [AF|O32231]

Expression and Regulation

Operons

• genes: [gene|D8851F453E5EF18D36F25834A8CB9C61EAF15E44|secG]-[gene|C0B6520E74CE9F7EE3DEC8C0D83E0770F241C4E8|yvaK]-[gene|0472A4346ADA1DC41C9D00E8F3222A0EBB76DFA8|rnr]-[gene|D19519B5A776D6E8EC2BFE7A7D67469CA0A6459A|smpB]-[gene|5C12BB19B975F7FEBCFA119DAC66338C20FCECFA|ssrA]

  description: [Pubmed|17369301]

  regulation

  • ''[protein|search|yvaK]'': induced by stress ([protein|search|SigB]) [Pubmed|11544224]

  sigma factors

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

• genes: [gene|C0B6520E74CE9F7EE3DEC8C0D83E0770F241C4E8|yvaK]-[gene|0472A4346ADA1DC41C9D00E8F3222A0EBB76DFA8|rnr]-[gene|D19519B5A776D6E8EC2BFE7A7D67469CA0A6459A|smpB]-[gene|5C12BB19B975F7FEBCFA119DAC66338C20FCECFA|ssrA]

  description: [Pubmed|17369301]

  regulation

  • ''[protein|search|yvaK]'': induced by stress ([protein|search|SigB]) [Pubmed|11544224]

Biological materials

Mutant

• MGNA-A495 (yvaJ::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/495 NBRP B. subtilis, Japan]
• BKE33610 ([gene|0472A4346ADA1DC41C9D00E8F3222A0EBB76DFA8|rnr]::erm  trpC2) available at [http://bgsc.org/getdetail.php?bgscid=BKE33610 BGSC],  [Pubmed|28189581], upstream reverse: _UP1_TTCCATTATCCGACCTCCTG,  downstream forward: _UP4_TAGCAGCTCAACCAGCAAAT
• BKK33610 ([gene|0472A4346ADA1DC41C9D00E8F3222A0EBB76DFA8|rnr]::kan  trpC2) available at [http://bgsc.org/getdetail.php?bgscid=BKK33610 BGSC],  [Pubmed|28189581], upstream reverse: _UP1_TTCCATTATCCGACCTCCTG,  downstream forward: _UP4_TAGCAGCTCAACCAGCAAAT

labs

• [wiki|David Bechhofer], Mount Sinai School, New York, USA [http://www.mountsinai.org/Research/Centers%20Laboratories%20and%20Programs/Bechhofer%20Laboratory?citype=Physician&ciid=Bechhofer%20David%20H%201255565 Homepage]

References

Reviews

• 25878039,30340785,31464530

Original Publications

• 15805528,15805522,20360175,17369301,23529473,22582280,29873764,29036353,35311531,35638827