KEGG   PATHWAY: tom03018
Entry
tom03018                    Pathway                                
Name
RNA degradation - Tateyamaria omphalii
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
tom03018  RNA degradation
tom03018

Other DBs
GO: 0006401
Organism
Tateyamaria omphalii [GN:tom]
Gene
BWR18_14750  RNA pyrophosphohydrolase [KO:K08311] [EC:3.6.1.-]
BWR18_06670  ribonuclease E/G [KO:K08300] [EC:3.1.26.12]
BWR18_06220  phosphopyruvate hydratase [KO:K01689] [EC:4.2.1.11]
BWR18_17960  polyribonucleotide nucleotidyltransferase [KO:K00962] [EC:2.7.7.8]
BWR18_06240  DEAD/DEAH box helicase [KO:K11927] [EC:5.6.2.7]
BWR18_17405  ribonuclease R [KO:K12573] [EC:3.1.13.1]
BWR18_00440  ATP-dependent RNA helicase [KO:K05592] [EC:5.6.2.7]
BWR18_17735  DNA helicase RecQ [KO:K03654] [EC:5.6.2.4]
BWR18_16560  transcription termination factor Rho [KO:K03628]
BWR18_08670  MBL fold hydrolase [KO:K12574] [EC:3.1.-.-]
BWR18_16830  molecular chaperone DnaK [KO:K04043]
BWR18_11520  chaperonin GroL [KO:K04077] [EC:5.6.1.7]
BWR18_07730  RNA-binding protein Hfq [KO:K03666]
BWR18_04275  RNA degradosome polyphosphate kinase [KO:K00937] [EC:2.7.4.1]
BWR18_07905  polyphosphate kinase 2 [KO:K22468] [EC:2.7.4.34]
BWR18_12795  polyphosphate kinase 2 [KO:K22468] [EC:2.7.4.34]
BWR18_16675  CCA 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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