KEGG   PATHWAY: ecj03018
Entry
ecj03018                    Pathway                                
Name
RNA degradation - Escherichia coli K-12 W3110
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
ecj03018  RNA degradation
ecj03018

Other DBs
GO: 0006401
Organism
Escherichia coli K-12 W3110 [GN:ecj]
Gene
JW2798  nudH; nucleotide hydrolase [KO:K08311] [EC:3.6.1.-]
JW1071  rne; fused ribonucleaseE endoribonuclease and scaffold for formation of degradosome [KO:K08300] [EC:3.1.26.12]
JW3753  rhlB; ATP-dependent RNA helicase [KO:K03732] [EC:5.6.2.7]
JW2750  eno; enolase [KO:K01689] [EC:4.2.1.11]
JW5851  pnp; polynucleotide phosphorylase/polyadenylase [KO:K00962] [EC:2.7.7.8]
JW0781  rhlE; RNA helicase [KO:K11927] [EC:5.6.2.7]
JW5741  rnr; exoribonuclease R, RNase R [KO:K12573] [EC:3.1.13.1]
JW5531  deaD; ATP-dependent RNA helicase [KO:K05592] [EC:5.6.2.7]
JW5855  recQ; ATP-dependent DNA helicase [KO:K03654] [EC:5.6.2.4]
JW3756  rho; transcription termination factor [KO:K03628]
JW3887  pfkA; 6-phosphofructokinase I [KO:K00850] [EC:2.7.1.11]
JW0013  dnaK; chaperone Hsp70, co-chaperone with DnaJ [KO:K04043]
JW4103  groL; Cpn60 chaperonin GroEL, large subunit of GroESL [KO:K04077] [EC:5.6.1.7]
JW4130  hfq; HF-I, host factor for RNA phage Q beta replication [KO:K03666]
JW2486  ppk; polyphosphate kinase, component of RNA degradosome [KO:K00937] [EC:2.7.4.1]
JW5808  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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