KEGG   PATHWAY: flm03018
Entry
flm03018                    Pathway                                
Name
RNA degradation - Flammeovirga sp. MY04
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
flm03018  RNA degradation
flm03018

Other DBs
GO: 0006401
Organism
Flammeovirga sp. MY04 [GN:flm]
Gene
MY04_0041  [KO:K00850] [EC:2.7.1.11]
MY04_0212  [KO:K05592] [EC:3.6.4.13]
MY04_0514  groL; chaperonin GroEL [KO:K04077] [EC:5.6.1.7]
MY04_0673  [KO:K03654] [EC:5.6.2.4]
MY04_0837  [KO:K03654] [EC:5.6.2.4]
MY04_0898  [KO:K00970] [EC:2.7.7.19]
MY04_1095  [KO:K11927] [EC:3.6.4.13]
MY04_1301  [KO:K11927] [EC:3.6.4.13]
MY04_1326  eno; phosphopyruvate hydratase [KO:K01689] [EC:4.2.1.11]
MY04_1433  eno; phosphopyruvate hydratase [KO:K01689] [EC:4.2.1.11]
MY04_1940  ppk1; polyphosphate kinase 1 [KO:K00937] [EC:2.7.4.1]
MY04_2017  [KO:K11927] [EC:3.6.4.13]
MY04_2033  [KO:K11927] [EC:3.6.4.13]
MY04_2072  rny; ribonuclease Y [KO:K18682] [EC:3.1.-.-]
MY04_2137  [KO:K11927] [EC:3.6.4.13]
MY04_2323  ppk2; polyphosphate kinase 2 [KO:K22468] [EC:2.7.4.34]
MY04_2339  recQ; DNA helicase RecQ [KO:K03654] [EC:5.6.2.4]
MY04_2376  eno; phosphopyruvate hydratase [KO:K01689] [EC:4.2.1.11]
MY04_2395  [KO:K05592] [EC:3.6.4.13]
MY04_3018  pnp; polyribonucleotide nucleotidyltransferase [KO:K00962] [EC:2.7.7.8]
MY04_3196  [KO:K03628]
MY04_3234  recQ; DNA helicase RecQ [KO:K03654] [EC:5.6.2.4]
MY04_3265  rnr; ribonuclease R [KO:K12573] [EC:3.1.13.1]
MY04_3415  pfkA; 6-phosphofructokinase [KO:K00850] [EC:2.7.1.11]
MY04_3538  dnaK; molecular chaperone DnaK [KO:K04043]
MY04_4157  [KO:K11927] [EC:3.6.4.13]
MY04_5328  [KO:K05592] [EC:3.6.4.13]
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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