KEGG   PATHWAY: aaln03018
Entry
aaln03018                   Pathway                                
Name
RNA degradation - Advenella alkanexedens
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
aaln03018  RNA degradation
aaln03018

Other DBs
GO: 0006401
Organism
Advenella alkanexedens [GN:aaln]
Gene
Q3V95_04615  RNA pyrophosphohydrolase [KO:K08311] [EC:3.6.1.-]
Q3V95_11425  Rne/Rng family ribonuclease [KO:K08300] [EC:3.1.26.12]
Q3V95_06390  eno; phosphopyruvate hydratase [KO:K01689] [EC:4.2.1.11]
Q3V95_11770  pnp; polyribonucleotide nucleotidyltransferase [KO:K00962] [EC:2.7.7.8]
Q3V95_05055  DEAD/DEAH box helicase [KO:K11927] [EC:5.6.2.7]
Q3V95_06875  rnr; ribonuclease R [KO:K12573] [EC:3.1.13.1]
Q3V95_04970  recQ; DNA helicase RecQ [KO:K03654] [EC:5.6.2.4]
Q3V95_09195  rho; transcription termination factor Rho [KO:K03628]
Q3V95_05195  dnaK; molecular chaperone DnaK [KO:K04043]
Q3V95_04425  groL; chaperonin GroEL [KO:K04077] [EC:5.6.1.7]
Q3V95_09340  hfq; RNA chaperone Hfq [KO:K03666]
Q3V95_05420  ppk1; polyphosphate kinase 1 [KO:K00937] [EC:2.7.4.1]
Q3V95_13415  ppk2; polyphosphate kinase 2 [KO:K22468] [EC:2.7.4.34]
Q3V95_12410  pcnB; 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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