KEGG   PATHWAY: pva03018Help
Entry
pva03018                    Pathway                                

Name
RNA degradation - Pantoea vagans C9-1
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
BRITE hierarchy
Pathway map
pva03018  RNA degradation
pva03018

Ortholog table
Module
pva_M00394  RNA degradosome [PATH:pva03018]
Other DBs
BSID: 171856
GO: 0006401
Organism
Pantoea vagans C9-1 [GN:pva]
Gene
Pvag_2503  ygdP; putative invasion protein [KO:K08311] [EC:3.6.1.-]
Pvag_0886  rne; ribonuclease E [KO:K08300] [EC:3.1.26.12]
Pvag_3380  rhlB; putative ATP-dependent RNA helicase [KO:K03732] [EC:3.6.4.13]
Pvag_0973  eno1; Enolase [KO:K01689] [EC:4.2.1.11]
Pvag_2458  eno3; Enolase [KO:K01689] [EC:4.2.1.11]
Pvag_3683  pnp; polyribonucleotide nucleotidyltransferase [KO:K00962] [EC:2.7.7.8]
Pvag_0609  rhlE; Putative ATP-dependent RNA helicase rhlE [KO:K11927] [EC:3.6.4.13]
Pvag_2785  ribonuclease R [KO:K12573] [EC:3.1.-.-]
Pvag_3685  deaD; Cold-shock DEAD box protein A [KO:K05592] [EC:3.6.4.13]
Pvag_3414  recQ; ATP-dependent DNA helicase RecQ [KO:K03654] [EC:3.6.4.12]
Pvag_3382  rho; Transcription termination factor rho [KO:K03628]
Pvag_3162  pfka3; 6-phosphofructokinase [KO:K00850] [EC:2.7.1.11]
Pvag_1290  pfka1; putative 6-phosphofructokinase [KO:K00850] [EC:2.7.1.11]
Pvag_0071  dnaK; Chaperone protein dnaK [KO:K04043]
Pvag_3611  groEL; 60 kDa chaperonin (groEL protein) [KO:K04077]
Pvag_2792  hfq; Protein hfq [KO:K03666]
Pvag_2258  ppk; Polyphosphate kinase [KO:K00937] [EC:2.7.4.1]
Pvag_0181  pcnB; poly(A) polymerase [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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