KEGG   PATHWAY: spsh03018
Entry
spsh03018                   Pathway                                
Name
RNA degradation - Shewanella psychropiezotolerans
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
spsh03018  RNA degradation
spsh03018

Other DBs
GO: 0006401
Organism
Shewanella psychropiezotolerans [GN:spsh]
Gene
FM037_21740  rppH; RNA pyrophosphohydrolase [KO:K08311] [EC:3.6.1.-]
FM037_16780  ribonuclease E [KO:K08300] [EC:3.1.26.12]
FM037_24955  rhlB; ATP-dependent RNA helicase RhlB [KO:K03732] [EC:5.6.2.7]
FM037_07525  phosphopyruvate hydratase [KO:K01689] [EC:4.2.1.11]
FM037_06860  pnp; polyribonucleotide nucleotidyltransferase [KO:K00962] [EC:2.7.7.8]
FM037_23920  DEAD/DEAH box helicase [KO:K11927] [EC:5.6.2.7]
FM037_05590  DEAD/DEAH box helicase [KO:K11927] [EC:5.6.2.7]
FM037_06990  DEAD/DEAH box helicase [KO:K11927] [EC:5.6.2.7]
FM037_07145  DEAD/DEAH box helicase [KO:K11927] [EC:5.6.2.7]
FM037_10385  DEAD/DEAH box helicase [KO:K11927] [EC:5.6.2.7]
FM037_12730  DEAD/DEAH box helicase [KO:K11927] [EC:5.6.2.7]
FM037_02840  ribonuclease R [KO:K12573] [EC:3.1.13.1]
FM037_24185  DEAD/DEAH box helicase [KO:K05592] [EC:5.6.2.7]
FM037_26250  recQ; DNA helicase RecQ [KO:K03654] [EC:5.6.2.4]
FM037_13175  RecQ family ATP-dependent DNA helicase [KO:K03654] [EC:5.6.2.4]
FM037_24965  rho; transcription termination factor Rho [KO:K03628]
FM037_07715  transcription termination factor Rho [KO:K03628]
FM037_06715  dnaK; molecular chaperone DnaK [KO:K04043]
FM037_02285  groL; chaperonin GroEL [KO:K04077] [EC:5.6.1.7]
FM037_03670  hfq; RNA chaperone Hfq [KO:K03666]
FM037_23730  polynucleotide adenylyltransferase PcnB [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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