KEGG   PATHWAY: pdr03018
Entry
pdr03018                    Pathway                                
Name
RNA degradation - Pseudomonas sp. ATCC 13867
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
pdr03018  RNA degradation
pdr03018

Other DBs
GO: 0006401
Organism
Pseudomonas sp. ATCC 13867 [GN:pdr]
Gene
H681_23550  RNA pyrophosphohydrolase [KO:K08311] [EC:3.6.1.-]
H681_16090  ribonuclease E [KO:K08300] [EC:3.1.26.12]
H681_19270  ATP-dependent RNA helicase RhlB [KO:K03732] [EC:3.6.4.13]
H681_07660  eno; enolase [KO:K01689] [EC:4.2.1.11]
H681_21040  polynucleotide phosphorylase/polyadenylase [KO:K00962] [EC:2.7.7.8]
H681_22795  ATP-dependent RNA helicase [KO:K11927] [EC:3.6.4.13]
H681_03635  ATP-dependent RNA helicase [KO:K11927] [EC:3.6.4.13]
H681_22110  ribonuclease R [KO:K12573] [EC:3.1.13.1]
H681_15645  ATP-dependent RNA helicase [KO:K05592] [EC:3.6.4.13]
H681_23430  ATP-dependent DNA helicase, RecQ-like protein [KO:K03654] [EC:5.6.2.4]
H681_17255  ATP-dependent DNA helicase RecQ [KO:K03654] [EC:5.6.2.4]
H681_01380  rho; transcription termination factor Rho [KO:K03628]
H681_21145  dnaK; molecular chaperone DnaK [KO:K04043]
H681_05755  groEL; chaperonin GroEL [KO:K04077]
H681_22145  hfq; RNA-binding protein Hfq [KO:K03666]
H681_01365  polyphosphate kinase [KO:K00937] [EC:2.7.4.1]
H681_05935  hypothetical protein [KO:K22468] [EC:2.7.4.34]
H681_11035  hypothetical protein [KO:K22468] [EC:2.7.4.34]
H681_23925  polyphosphate kinase [KO:K22468] [EC:2.7.4.34]
H681_20965  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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