KEGG   PATHWAY: koy03018
Entry
koy03018                    Pathway                                
Name
RNA degradation - Klebsiella michiganensis HKOPL1
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
koy03018  RNA degradation
koy03018

Other DBs
GO: 0006401
Organism
Klebsiella michiganensis HKOPL1 [GN:koy]
Gene
J415_08075  RNA pyrophosphohydrolase [KO:K08311] [EC:3.6.1.-]
J415_20295  rne; ribonuclease E [KO:K08300] [EC:3.1.26.12]
J415_02210  ATP-dependent RNA helicase RhlB [KO:K03732] [EC:5.6.2.7]
J415_08555  eno; enolase [KO:K01689] [EC:4.2.1.11]
J415_06120  polynucleotide phosphorylase/polyadenylase [KO:K00962] [EC:2.7.7.8]
J415_22460  ATP-dependent RNA helicase RhlE [KO:K11927] [EC:5.6.2.7]
J415_00870  exoribonuclease R [KO:K12573] [EC:3.1.13.1]
J415_06130  ATP-dependent RNA helicase DeaD [KO:K05592] [EC:5.6.2.7]
J415_02035  ATP-dependent DNA helicase RecQ [KO:K03654] [EC:5.6.2.4]
J415_02200  rho; transcription termination factor Rho [KO:K03628]
J415_02775  6-phosphofructokinase [KO:K00850] [EC:2.7.1.11]
J415_02485  6-phosphofructokinase [KO:K00850] [EC:2.7.1.11]
J415_27255  dnaK; molecular chaperone DnaK [KO:K04043]
J415_01075  groEL; chaperonin GroEL [KO:K04077] [EC:5.6.1.7]
J415_00905  hfq; RNA-binding protein Hfq [KO:K03666]
J415_10445  polyphosphate kinase [KO:K00937] [EC:2.7.4.1]
J415_26485  pcnB; poly(A) polymerase I [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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