KEGG   PATHWAY: xct03018
Entry
xct03018                    Pathway                                
Name
RNA degradation - Xanthomonas citri subsp. citri A306
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
xct03018  RNA degradation
xct03018

Other DBs
GO: 0006401
Organism
Xanthomonas citri subsp. citri A306 [GN:xct]
Gene
J151_00614  NTP pyrophosphohydrolase [KO:K08311] [EC:3.6.1.-]
J151_02271  RNAse E [KO:K08300] [EC:3.1.26.12]
J151_04007  DNA/RNA helicase, superfamily II [KO:K03732] [EC:5.6.2.7]
J151_01873  enolase [KO:K01689] [EC:4.2.1.11]
J151_02863  polyribonucleotide nucleotidyltransferase (polynucleotide phosphorylase) [KO:K00962] [EC:2.7.7.8]
J151_03796  DNA/RNA helicase, superfamily II [KO:K11927] [EC:5.6.2.7]
J151_00565  DNA/RNA helicase, superfamily II [KO:K11927] [EC:5.6.2.7]
J151_01718  RNAse R [KO:K12573] [EC:3.1.13.1]
J151_02995  ATP-dependent RNA helicase CsdA [KO:K05592] [EC:5.6.2.7]
J151_03306  ATP-dependent DNA helicase RecQ [KO:K03654] [EC:5.6.2.4]
J151_04009  transcription termination factor Rho [KO:K03628]
J151_01672  molecular chaperone [KO:K04043]
J151_00664  chaperonin GroEL [KO:K04077] [EC:5.6.1.7]
J151_01890  RNA-binding protein Hfq [KO:K03666]
J151_01167  polyphosphate kinase [KO:K00937] [EC:2.7.4.1]
J151_01067  transcriptional regulator [KO:K22468] [EC:2.7.4.34]
J151_01940  tRNA nucleotidyltransferase/poly(A) polymerase [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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