KEGG   PATHWAY: este03018
Entry
este03018                   Pathway                                
Name
RNA degradation - Empedobacter stercoris
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
este03018  RNA degradation
este03018

Other DBs
GO: 0006401
Organism
Empedobacter stercoris [GN:este]
Gene
HNV03_01320  eno; phosphopyruvate hydratase [KO:K01689] [EC:4.2.1.11]
HNV03_06985  polyribonucleotide nucleotidyltransferase [KO:K00962] [EC:2.7.7.8]
HNV03_06165  DEAD/DEAH box helicase [KO:K11927] [EC:5.6.2.7]
HNV03_08475  DEAD/DEAH box helicase [KO:K11927] [EC:5.6.2.7]
HNV03_00715  DEAD/DEAH box helicase [KO:K11927] [EC:5.6.2.7]
HNV03_11890  rnr; ribonuclease R [KO:K12573] [EC:3.1.13.1]
HNV03_03565  DEAD/DEAH box helicase [KO:K05592] [EC:5.6.2.7]
HNV03_06375  RecQ family ATP-dependent DNA helicase [KO:K03654] [EC:5.6.2.4]
HNV03_09685  recQ; DNA helicase RecQ [KO:K03654] [EC:5.6.2.4]
HNV03_01055  rho; transcription termination factor Rho [KO:K03628]
HNV03_02670  rny; ribonuclease Y [KO:K18682] [EC:3.1.-.-]
HNV03_03390  pfkA; 6-phosphofructokinase [KO:K00850] [EC:2.7.1.11]
HNV03_00725  dnaK; molecular chaperone DnaK [KO:K04043]
HNV03_00930  groL; chaperonin GroEL [KO:K04077] [EC:5.6.1.7]
HNV03_06850  ppk1; polyphosphate kinase 1 [KO:K00937] [EC:2.7.4.1]
HNV03_02890  ppk2; polyphosphate kinase 2 [KO:K22468] [EC:2.7.4.34]
HNV03_02895  ppk2; polyphosphate kinase 2 [KO:K22468] [EC:2.7.4.34]
HNV03_02900  ppk2; polyphosphate kinase 2 [KO:K22468] [EC:2.7.4.34]
HNV03_07270  HD domain-containing protein [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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