KEGG   PATHWAY: sbs03018
Entry
sbs03018                    Pathway                                
Name
RNA degradation - Shewanella baltica OS117
Description
The correct processing, quality control and turnover of cellular RNA molecules are critical to many aspects in the expression of genetic information. In eukaryotes, two major pathways of mRNA decay exist and both pathways are initiated by poly(A) shortening of the mRNA. In the 5' to 3' pathway, this is followed by decapping which then permits the 5' to 3' exonucleolytic degradation of transcripts. In the 3' to 5' pathway, the exosome, a large multisubunit complex, plays a key role. The exosome exists in archaeal cells, too. In bacteria, endoribonuclease E, a key enzyme involved in RNA decay and processing, organizes a protein complex called degradosome. RNase E or R interacts with the phosphate-dependent exoribonuclease polynucleotide phosphorylase, DEAD-box helicases, and additional factors in the RNA-degrading complex.
Class
Genetic Information Processing; Folding, sorting and degradation
Pathway map
sbs03018  RNA degradation
sbs03018

Other DBs
GO: 0006401
Organism
Shewanella baltica OS117 [GN:sbs]
Gene
Sbal117_1285  RNA pyrophosphohydrolase [KO:K08311] [EC:3.6.1.-]
Sbal117_1823  ribonuclease, Rne/Rng family [KO:K08300] [EC:3.1.26.12]
Sbal117_4087  ATP-dependent RNA helicase rhlB [KO:K03732] [EC:5.6.2.7]
Sbal117_3268  Enolase [KO:K01689] [EC:4.2.1.11]
Sbal117_3370  Polyribonucleotide nucleotidyltransferase [KO:K00962] [EC:2.7.7.8]
Sbal117_3608  DEAD/DEAH box helicase domain protein [KO:K11927] [EC:5.6.2.7]
Sbal117_1443  DEAD/DEAH box helicase domain protein [KO:K11927] [EC:5.6.2.7]
Sbal117_3228  DEAD/DEAH box helicase domain protein [KO:K11927] [EC:5.6.2.7]
Sbal117_3449  DEAD/DEAH box helicase domain protein [KO:K11927] [EC:5.6.2.7]
Sbal117_1354  DEAD/DEAH box helicase domain protein [KO:K11927] [EC:5.6.2.7]
Sbal117_2106  DEAD/DEAH box helicase domain protein [KO:K11927] [EC:5.6.2.7]
Sbal117_2938  DEAD/DEAH box helicase domain protein [KO:K11927] [EC:5.6.2.7]
Sbal117_3797  ribonuclease R [KO:K12573] [EC:3.1.13.1]
Sbal117_3911  DEAD/DEAH box helicase domain protein [KO:K05592] [EC:5.6.2.7]
Sbal117_2185  ATP-dependent DNA helicase, RecQ family [KO:K03654] [EC:5.6.2.4]
Sbal117_4508  ATP-dependent DNA helicase, RecQ family [KO:K03654] [EC:5.6.2.4]
Sbal117_0487  ATP-dependent DNA helicase, RecQ family [KO:K03654] [EC:5.6.2.4]
Sbal117_4089  transcription termination factor Rho [KO:K03628]
Sbal117_3456  Chaperone protein dnaK [KO:K04043]
Sbal117_3863  60 kDa chaperonin [KO:K04077] [EC:5.6.1.7]
Sbal117_0660  Protein hfq [KO:K03666]
Sbal117_1951  Polyphosphate kinase [KO:K00937] [EC:2.7.4.1]
Sbal117_3635  poly(A) polymerase [KO:K00970] [EC:2.7.7.19]
Reference
  Authors
Houseley J, Tollervey D
  Title
The many pathways of RNA degradation.
  Journal
Cell 136:763-76 (2009)
DOI:10.1016/j.cell.2009.01.019
Reference
  Authors
Buttner K, Wenig K, Hopfner KP
  Title
The exosome: a macromolecular cage for controlled RNA degradation.
  Journal
Mol Microbiol 61:1372-9 (2006)
DOI:10.1111/j.1365-2958.2006.05331.x
Reference
  Authors
Schilders G, van Dijk E, Raijmakers R, Pruijn GJ
  Title
Cell and molecular biology of the exosome: how to make or break an RNA.
  Journal
Int Rev Cytol 251:159-208 (2006)
DOI:10.1016/S0074-7696(06)51005-8
Reference
  Authors
Hartung S, Hopfner KP
  Title
The exosome, plugged.
  Journal
EMBO Rep 8:456-7 (2007)
DOI:10.1038/sj.embor.7400961
Reference
  Authors
Carpousis AJ
  Title
The RNA degradosome of Escherichia coli: an mRNA-degrading machine assembled on RNase E.
  Journal
Annu Rev Microbiol 61:71-87 (2007)
DOI:10.1146/annurev.micro.61.080706.093440
Reference
  Authors
Marcaida MJ, DePristo MA, Chandran V, Carpousis AJ, Luisi BF
  Title
The RNA degradosome: life in the fast lane of adaptive molecular evolution.
  Journal
Trends Biochem Sci 31:359-65 (2006)
DOI:10.1016/j.tibs.2006.05.005
Reference
  Authors
Condon C
  Title
Maturation and degradation of RNA in bacteria.
  Journal
Curr Opin Microbiol 10:271-8 (2007)
DOI:10.1016/j.mib.2007.05.008
KO pathway
ko03018   
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