KEGG   PATHWAY: ocn03018
Entry
ocn03018                    Pathway                                
Name
RNA degradation - Oceanobacillus zhaokaii
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
ocn03018  RNA degradation
ocn03018

Other DBs
GO: 0006401
Organism
Oceanobacillus zhaokaii [GN:ocn]
Gene
CUC15_13860  phosphopyruvate hydratase [KO:K01689] [EC:4.2.1.11]
CUC15_09390  polyribonucleotide nucleotidyltransferase [KO:K00962] [EC:2.7.7.8]
CUC15_13830  rnr; ribonuclease R [KO:K12573] [EC:3.1.13.1]
CUC15_19030  RNA helicase [KO:K05592] [EC:5.6.2.7]
CUC15_03125  DEAD/DEAH box helicase [KO:K05592] [EC:5.6.2.7]
CUC15_10750  ATP-dependent DNA helicase [KO:K03654] [EC:5.6.2.4]
CUC15_17875  recQ; DNA helicase RecQ [KO:K03654] [EC:5.6.2.4]
CUC15_05720  ATP-dependent DNA helicase RecQ [KO:K03654] [EC:5.6.2.4]
CUC15_17620  rho; transcription termination factor Rho [KO:K03628]
CUC15_09510  rny; ribonuclease Y [KO:K18682] [EC:3.1.-.-]
CUC15_06185  ribonuclease J [KO:K12574] [EC:3.1.-.-]
CUC15_08460  ribonuclease J [KO:K12574] [EC:3.1.-.-]
CUC15_16975  pfkA; 6-phosphofructokinase [KO:K00850] [EC:2.7.1.11]
CUC15_12385  pfkA; 6-phosphofructokinase [KO:K00850] [EC:2.7.1.11]
CUC15_11485  molecular chaperone DnaK [KO:K04043]
CUC15_03350  groL; chaperonin GroEL [KO:K04077] [EC:5.6.1.7]
CUC15_09560  RNA chaperone Hfq [KO:K03666]
CUC15_15080  RNA degradosome polyphosphate kinase [KO:K00937] [EC:2.7.4.1]
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   
LinkDB

DBGET integrated database retrieval system