rnc [2017-06-06 08:58:17]

RNase III; required for the degradation of sense/antisense transcripts in Gram positive, low GC bacteria

locus: BSU15930

pI: 8.08

mw: 28.28 kDa

protein length: 249 aa

gene length: 747 bp

function: cleaves both 5- and 3-sites of the small cytoplasmic RNA precursor (scr)

product: endoribonuclease III

essential: yes

synonyms: rncS

Genomic Context

categories

• [category|SW 3|Information processing] → [category|SW 3.2|RNA synthesis and degradation] → [category|SW 3.2.4|RNases] → [category|SW 3.2.4.2|Endoribonucleases]
• [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]
• [category|SW 3|Information processing] → [category|SW 3.3|Protein synthesis, modification and degradation] → [category|SW 3.3.5|Protein secretion]
• [category|SW 6|Groups of genes] → [category|SW 6.1|Essential genes]

Gene

Coordinates: 1,665,710 → 1,666,459

Phenotypes of a mutant

• essential [Pubmed|23300471,12682299,11123676]
• the ''[gene|BAB297D18F94FFA67B8D12A684AB4D1BCDFB4981|rnc]'' gene can be deleted in strains cured of the [SW|Skin element] and [[SPß prophage]] (or upon deletion of the toxin genes ''[gene|2A6EE9A3A5B32554E87E356B8BD4E2ED7975429A|txpA]'' and ''[gene|961DB64225CEF84D80982ADBDC9BBBCDF5049132|yonT]'') [Pubmed|23300471]

The protein

Catalyzed reaction/ biological activity

• Endonucleolytic cleavage of double-stranded RNA to 5'-phosphomonoester (according to Swiss-Prot)
• cleaves both 5'- and 3'-sites of the small cytoplasmic RNA precursor (''[gene|097C817A5A3E31F73F6ABC4AA95852A64E43A057|scr]'')
• degradation of ''[gene|2A6EE9A3A5B32554E87E356B8BD4E2ED7975429A|txpA]'' mRNA-[protein|search|FFCE5AD9E04E6D5F7970E89781C545E7DBDF45F0] RNA duplex (encoded on the [SW|Skin element]) [Pubmed|23300471]
• degradation of ''[gene|961DB64225CEF84D80982ADBDC9BBBCDF5049132|yonT]'' mRNA-''[gene|8832F99BF927D5A4D6CB265DB24D3AE46434A5CD|SR6]'' RNA duplex (encoded on the [[SP-beta prophage]]) [Pubmed|23300471]
• degradation of the ''[gene|6AC80B5916EEA851E9A7AF586341C58B7E69D8E7|roxS]''-''[gene|B729EFC0BF0D75765C2D2B0B4F397E0AEE11F1E7|ytdI]'' and ''[gene|6AC80B5916EEA851E9A7AF586341C58B7E69D8E7|roxS]-[gene|D72175937B3956C2BC500FC00CEC8EC57A0A76A8|sucC]'' RNA duplexes [Pubmed|25643072]

Structure

• [PDB|1O0W] (from ''Thermotoga maritima'', 41% identity)

[SW|Localization]

• cytoplasm (according to Swiss-Prot)

Expression and Regulation

Operons

• genes: [gene|BAB297D18F94FFA67B8D12A684AB4D1BCDFB4981|rnc]-[gene|0136394A52759CEEDD8DE074ED74033C6FFB8435|smc]-[gene|D519765BF5261E48512CE86245BD7B733F188D4A|ftsY]
  description: [Pubmed|11021934]

  sigma factors

  • [protein|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA]: sigma factor, [Pubmed|11021934], in [regulon|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA regulon]

  regulatory mechanism

  • [regulon|stringent response|stringent response]: negative regulation, in [regulon|stringent response|stringent response]

  regulation

  • expressed during vegetative growth and during sporulation in the mother cell ([protein|search|SigK], [protein|search|GerE]) [Pubmed|11021934]

Biological materials

two-hybrid system

• B. pertussis adenylate cyclase-based bacterial two hybrid system ([SW|BACTH]), available in [SW|Stülke] lab

Labs working on this gene/protein

• [SW|David Bechhofer], Mount Sinai School, New York, USA [http://www.mountsinai.org/Research/Centers Laboratories and Programs/Bechhofer Laboratory?citype=Physician&ciid=Bechhofer David H 1255565 Homepage]
• [SW|Ciaran Condon], IBPC, Paris, France [http://www.ibpc.fr/UPR9073/condon/index_en.html Homepage]

References

Reviews

• 17194582,16179796,8936814,16855311,23300472,25292357,25808661,25878039

Original publications

• 9393702,11123676,7527387,9677377,17576666,11021934,6409421,22123973,22412379,25643072,23300471,26940229,26883633