Rny

From SubtiWiki
Revision as of 22:08, 29 January 2009 by Jstuelk (talk | contribs)
Jump to: navigation, search
  • Description: RNase Y, endoribonuclease, required for the processing of the gapA operon mRNA

Gene name rny
Synonyms ymdA
Essential yes
Product 2',3'-cyclic-nucleotide 2'-phosphodiesterase
Function required for the processing of the gapA operon mRNA
MW, pI 58,7 kDa, 5.39
Gene length, protein length 1560 bp, 520 amino acids
Immediate neighbours pdbX, ymdB
Gene sequence (+200bp) Protein sequence
Genetic context
Rny context.gif



The gene

Basic information

  • Coordinates: 1766580 - 1768139

Phenotypes of a mutant

essential PubMed

Database entries

  • DBTBS entry:
  • SubtiList entry: [1]

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity: required for the processing of the gapA operon mRNA
  • Protein family: 2',3' cyclic nucleotide phosphodiesterase family
  • Paralogous protein(s):

Extended information on the protein

  • Kinetic information:
  • Domains:
    • transmembrane domain (4–24)
    • KH domain (210–273)
    • HD domain (336–429)
  • Modification:
  • Cofactor(s): metal-dependent
  • Effectors of protein activity:
  • Interactions:
  • Localization: Single-pass membrane protein

Database entries

  • Structure:
  • Swiss prot entry: [2]
  • KEGG entry: [3]
  • E.C. number: [4]

Additional information

required for the processing of the gapA operon mRNA

Expression and regulation

  • Sigma factor:
  • Regulation: constitutive
  • Regulatory mechanism:
  • Additional information: there is a terminator between rny and ymdB, most transcripts terminate there

Biological materials

  • Mutant: essential!!!!, 4043 (rny under p-spac control), GP193 (rny under p-xyl control), available in Stülke lab
  • Expression vector: pGP441(N-terminal Strep-tag, in pGP172), pGP755 (N-terminal Strep-tag, for SPINE, expression in B. subtilis, in pGP380), available in Stülke lab
  • lacZ fusion: pGP459 (in pAC7), available in Stülke lab
  • GFP fusion: B. subtilis 3569 (amyE:: (p-xyl rny-gfpmut1-spc)), available in Errington lab
  • two-hybrid system: B. pertussis adenylate cyclase-based bacterial two hybrid system (BACTH), available in Stülke lab

Labs working on this gene/protein

Harald Putzer, IBPC Paris, France Homepage

Jörg Stülke, University of Göttingen, Germany Homepage

Your additional remarks

References

  1. Commichau, F. M., Rothe, F. M., Herzberg, C., Wagner, E., Hellwig, D., Lehnik-Habrink, M., Hammer, E., Völker, U. & Stülke, J. Novel activities of glycolytic enzymes in Bacillus subtilis: Interactions with essential proteins involved in mRNA processing. subm.
  2. Hunt, A., Rawlins, J. P., Thomaides, H. B., and Errington, J. (2006) Functional analysis of 11 putative essential genes in Bacillus subtilis. Microbiology 152, 2895-2907. PubMed