KEGG   PATHWAY: rud03018
Entry
rud03018                    Pathway                                
Name
RNA degradation - Rufibacter sp. DG15C
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
rud03018  RNA degradation
rud03018

Other DBs
GO: 0006401
Organism
Rufibacter sp. DG15C [GN:rud]
Gene
TH61_09730  eno; enolase [KO:K01689] [EC:4.2.1.11]
TH61_14670  polynucleotide phosphorylase [KO:K00962] [EC:2.7.7.8]
TH61_07390  DEAD/DEAH box helicase [KO:K11927] [EC:5.6.2.7]
TH61_15725  RNA helicase [KO:K11927] [EC:5.6.2.7]
TH61_00395  RNA helicase [KO:K11927] [EC:5.6.2.7]
TH61_01020  DEAD/DEAH box helicase [KO:K11927] [EC:5.6.2.7]
TH61_06460  ribonuclease R [KO:K12573] [EC:3.1.13.1]
TH61_14255  RNA helicase [KO:K05592] [EC:5.6.2.7]
TH61_14175  ATP-dependent DNA helicase RecQ [KO:K03654] [EC:5.6.2.4]
TH61_11230  ATP-dependent DNA helicase RecQ [KO:K03654] [EC:5.6.2.4]
TH61_14395  hypothetical protein [KO:K03654] [EC:5.6.2.4]
TH61_17525  ATP-dependent DNA helicase RecQ [KO:K03654] [EC:5.6.2.4]
TH61_02465  transcription termination factor Rho [KO:K03628]
TH61_03360  ribonuclease [KO:K18682] [EC:3.1.-.-]
TH61_17065  6-phosphofructokinase [KO:K00850] [EC:2.7.1.11]
TH61_11860  molecular chaperone DnaK [KO:K04043]
TH61_15375  groEL; molecular chaperone GroEL [KO:K04077] [EC:5.6.1.7]
TH61_08735  hypothetical protein [KO:K00937] [EC:2.7.4.1]
TH61_16475  polyphosphate kinase [KO:K00937] [EC:2.7.4.1]
TH61_00740  tRNA nucleotidyltransferase [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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