KEGG   PATHWAY: cbar03018
Entry
cbar03018                   Pathway                                
Name
RNA degradation - Petrocella atlantisensis
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
cbar03018  RNA degradation
cbar03018

Other DBs
GO: 0006401
Organism
Petrocella atlantisensis [GN:cbar]
Gene
PATL70BA_3141  eno; enolase [KO:K01689] [EC:4.2.1.11]
PATL70BA_0087  pnpA; polynucleotide phosphorylase (PNPase) [KO:K00962] [EC:2.7.7.8]
PATL70BA_0503  rhlE; ATP-dependent RNA helicase RhlE [KO:K11927] [EC:5.6.2.7]
PATL70BA_3049  rnr; ribonuclease R [KO:K12573] [EC:3.1.13.1]
PATL70BA_2610  ATP-dependent helicase [KO:K05592] [EC:5.6.2.7]
PATL70BA_2482  dbpA; ATP-dependent RNA helicase DbpA [KO:K05592] [EC:5.6.2.7]
PATL70BA_0094  ATP-dependent RNA helicase [KO:K05592] [EC:5.6.2.7]
PATL70BA_1554  recQ; putative ATP-dependent DNA helicase RecQ [KO:K03654] [EC:5.6.2.4]
PATL70BA_0987  rho; Transcription termination factor Rho [KO:K03628]
PATL70BA_0404  rny; endoribonuclease Y [KO:K18682] [EC:3.1.-.-]
PATL70BA_3426  rnjA; Ribonuclease J1 [KO:K12574] [EC:3.1.-.-]
PATL70BA_0705  pfkA; 6-phosphofructokinase [KO:K00850] [EC:2.7.1.11]
PATL70BA_3412  dnaK; molecular chaperone, ATP-dependent [KO:K04043]
PATL70BA_0960  conserved protein of unknown function [KO:K04043]
PATL70BA_0961  conserved protein of unknown function [KO:K04043]
PATL70BA_0964  conserved protein of unknown function [KO:K04043]
PATL70BA_0919  groEL; chaperonin large subunit [KO:K04077] [EC:5.6.1.7]
PATL70BA_0269  hfq; Hfq RNA chaperone [KO:K03666]
PATL70BA_1041  ppk; Polyphosphate kinase [KO:K00937] [EC:2.7.4.1]
PATL70BA_0926  Polyphosphate:ADP phosphotransferase [KO:K22468] [EC:2.7.4.34]
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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