KEGG   PATHWAY: poz03018
Entry
poz03018                    Pathway                                
Name
RNA degradation - Pontivivens ytuae
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
poz03018  RNA degradation
poz03018

Other DBs
GO: 0006401
Organism
Pontivivens ytuae [GN:poz]
Gene
I0K15_14600  RNA pyrophosphohydrolase [KO:K08311] [EC:3.6.1.-]
I0K15_00410  Rne/Rng family ribonuclease [KO:K08300] [EC:3.1.26.12]
I0K15_18315  eno; phosphopyruvate hydratase [KO:K01689] [EC:4.2.1.11]
I0K15_12955  pnp; polyribonucleotide nucleotidyltransferase [KO:K00962] [EC:2.7.7.8]
I0K15_16655  DEAD/DEAH box helicase [KO:K11927] [EC:5.6.2.7]
I0K15_09650  rnr; ribonuclease R [KO:K12573] [EC:3.1.13.1]
I0K15_07185  recQ; DNA helicase RecQ [KO:K03654] [EC:5.6.2.4]
I0K15_09250  rho; transcription termination factor Rho [KO:K03628]
I0K15_02700  ribonuclease J [KO:K12574] [EC:3.1.-.-]
I0K15_09715  dnaK; molecular chaperone DnaK [KO:K04043]
I0K15_11380  groL; chaperonin GroEL [KO:K04077] [EC:5.6.1.7]
I0K15_19260  hfq; RNA chaperone Hfq [KO:K03666]
I0K15_04565  RNA degradosome polyphosphate kinase [KO:K00937] [EC:2.7.4.1]
I0K15_19000  ppk2; polyphosphate kinase 2 [KO:K22468] [EC:2.7.4.34]
I0K15_06135  CCA tRNA nucleotidyltransferase [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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