KEGG   PATHWAY: pva03018Help
Entry
pva03018                    Pathway                                

Name
RNA degradation - Pantoea vagans
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
RNA degradation
pva03018

All organismsOrtholog table
Module
RNA degradosome [PATH:pva03018]
Other DBs
BSID: 
GO: 
Organism
Pantoea vagans [GN:pva]
Gene
ygdP; invasion protein [KO:K08311] [EC:3.6.1.-]
rne; ribonuclease E [KO:K08300] [EC:3.1.26.12]
rhlB; ATP-dependent RNA helicase [KO:K03732] [EC:3.6.4.13]
eno1; enolase [KO:K01689] [EC:4.2.1.11]
eno3; enolase [KO:K01689] [EC:4.2.1.11]
pnp; polyribonucleotide nucleotidyltransferase [KO:K00962] [EC:2.7.7.8]
rhlE; ATP-dependent RNA helicase rhlE [KO:K11927] [EC:3.6.4.13]
ribonuclease R; K12573 ribonuclease R [EC:3.1.-.-] [KO:K12573] [EC:3.1.-.-]
deaD; cold-shock DEAD box protein A [KO:K05592] [EC:3.6.4.13]
recQ; ATP-dependent DNA helicase RecQ [KO:K03654] [EC:3.6.4.12]
rho; transcription termination factor rho [KO:K03628]
dnaK; chaperone protein dnaK [KO:K04043]
groEL; molecular chaperone GroEL [KO:K04077]
hfq; protein hfq [KO:K03666]
ppk; polyphosphate kinase [KO:K00937] [EC:2.7.4.1]
pcnB; poly(A) polymerase [KO:K00970] [EC:2.7.7.19]
Compound
C00201  
Nucleoside triphosphate
Reference
  Authors
Houseley J, Tollervey D
  Title
The many pathways of RNA degradation.
  Journal
Cell 136:763-76 (2009)
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)
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)
Reference
  Authors
Hartung S, Hopfner KP
  Title
The exosome, plugged.
  Journal
EMBO Rep 8:456-7 (2007)
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)
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)
Reference
  Authors
Condon C
  Title
Maturation and degradation of RNA in bacteria.
  Journal
Curr Opin Microbiol 10:271-8 (2007)
KO pathway
 

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