KEGG   PATHWAY: mex03018
Entry
mex03018                    Pathway                                
Name
RNA degradation - Methylorubrum extorquens PA1
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
mex03018  RNA degradation
mex03018

Other DBs
GO: 0006401
Organism
Methylorubrum extorquens PA1 [GN:mex]
Gene
Mext_2284  NUDIX hydrolase [KO:K08311] [EC:3.6.1.-]
Mext_3659  ribonuclease, Rne/Rng family [KO:K08300] [EC:3.1.26.12]
Mext_2784  Phosphopyruvate hydratase [KO:K01689] [EC:4.2.1.11]
Mext_4027  Polyribonucleotide nucleotidyltransferase [KO:K00962] [EC:2.7.7.8]
Mext_2571  DEAD/DEAH box helicase domain protein [KO:K11927] [EC:5.6.2.7]
Mext_2380  ribonuclease R [KO:K12573] [EC:3.1.13.1]
Mext_4450  DEAD/DEAH box helicase domain protein [KO:K05592] [EC:5.6.2.7]
Mext_0006  ATP-dependent DNA helicase RecQ [KO:K03654] [EC:5.6.2.4]
Mext_1563  transcription termination factor Rho [KO:K03628]
Mext_1070  beta-lactamase domain protein [KO:K12574] [EC:3.1.-.-]
Mext_2960  chaperone protein DnaK [KO:K04043]
Mext_3334  chaperonin GroEL [KO:K04077] [EC:5.6.1.7]
Mext_0741  chaperonin GroEL [KO:K04077] [EC:5.6.1.7]
Mext_4782  chaperonin GroEL [KO:K04077] [EC:5.6.1.7]
Mext_2824  RNA chaperone Hfq [KO:K03666]
Mext_2067  Polyphosphate kinase [KO:K00937] [EC:2.7.4.1]
Mext_1138  protein of unknown function DUF344 [KO:K22468] [EC:2.7.4.34]
Mext_1464  Polynucleotide adenylyltransferase region [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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