KEGG   PATHWAY: xfu03018
Entry
xfu03018                    Pathway                                
Name
RNA degradation - Xanthomonas citri pv. fuscans
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
xfu03018  RNA degradation
xfu03018

Other DBs
GO: 0006401
Organism
Xanthomonas citri pv. fuscans [GN:xfu]
Gene
XFF4834R_chr04900  rppH; RNA pyrophosphohydrolase [KO:K08311] [EC:3.6.1.-]
XFF4834R_chr22100  probable Ribonuclease E [KO:K08300] [EC:3.1.26.12]
XFF4834R_chr37210  rhlB; probable ATP-dependent RNA helicase rhlB [KO:K03732] [EC:5.6.2.7]
XFF4834R_chr27920  putative phosphopyruvate hydratase [KO:K01689] [EC:4.2.1.11]
XFF4834R_chr26790  pnp; probable polynucleotide phosphorylase/polyadenylase [KO:K00962] [EC:2.7.7.8]
XFF4834R_chr35040  rhlE2; Probable ATP-dependent RNA helicase rhlE [KO:K11927] [EC:5.6.2.7]
XFF4834R_chr29470  vacB; exoribonuclease R, RNase R [KO:K12573] [EC:3.1.13.1]
XFF4834R_chr18150  deaD; probable Cold-shock DEAD box protein A [KO:K05592] [EC:5.6.2.7]
XFF4834R_chr15080  recQ; DNA helicase [KO:K03654] [EC:5.6.2.4]
XFF4834R_chr37230  rho; transcription termination factor [KO:K03628]
XFF4834R_chr29940  dnaK; probable chaperone Hsp70, regulated by DnaJ co-chaperone [KO:K04043]
XFF4834R_chr05360  groL; putative Cpn60 chaperonin GroEL, large subunit of GroESL [KO:K04077] [EC:5.6.1.7]
XFF4834R_chr27760  hfq; probable RNA-binding protein Hfq [KO:K03666]
XFF4834R_chr10440  ppk; probable polyphosphate kinase [KO:K00937] [EC:2.7.4.1]
XFF4834R_chr09470  putative polyphosphate kinase [KO:K22468] [EC:2.7.4.34]
XFF4834R_chr19130  pcnB; probable 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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