KEGG   PATHWAY: ppuj03018
Entry
ppuj03018                   Pathway                                
Name
RNA degradation - Pectobacterium punjabense
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
ppuj03018  RNA degradation
ppuj03018

Other DBs
GO: 0006401
Organism
Pectobacterium punjabense [GN:ppuj]
Gene
E2566_05185  rppH; RNA pyrophosphohydrolase [KO:K08311] [EC:3.6.1.-]
E2566_13045  ribonuclease E [KO:K08300] [EC:3.1.26.12]
E2566_20410  rhlB; ATP-dependent RNA helicase RhlB [KO:K03732] [EC:5.6.2.7]
E2566_17040  phosphopyruvate hydratase [KO:K01689] [EC:4.2.1.11]
E2566_03480  pnp; polyribonucleotide nucleotidyltransferase [KO:K00962] [EC:2.7.7.8]
E2566_08445  rhlE; ATP-dependent RNA helicase RhlE [KO:K11927] [EC:5.6.2.7]
E2566_17325  ribonuclease R [KO:K12573] [EC:3.1.13.1]
E2566_03495  DEAD/DEAH family ATP-dependent RNA helicase [KO:K05592] [EC:5.6.2.7]
E2566_20175  recQ; ATP-dependent DNA helicase RecQ [KO:K03654] [EC:5.6.2.4]
E2566_20400  rho; transcription termination factor Rho [KO:K03628]
E2566_20525  pfkA; 6-phosphofructokinase [KO:K00850] [EC:2.7.1.11]
E2566_10440  permease [KO:K00850] [EC:2.7.1.11]
E2566_18500  dnaK; molecular chaperone DnaK [KO:K04043]
E2566_03085  groL; chaperonin GroEL [KO:K04077] [EC:5.6.1.7]
E2566_18820  hfq; RNA chaperone Hfq [KO:K03666]
E2566_15225  ppk1; polyphosphate kinase 1 [KO:K00937] [EC:2.7.4.1]
E2566_16080  pcnB; polynucleotide adenylyltransferase PcnB [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   
LinkDB

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