KEGG   PATHWAY: ect03018
Entry
ect03018                    Pathway                                
Name
RNA degradation - Escherichia coli O7:K1 IAI39 (ExPEC)
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
ect03018  RNA degradation
ect03018

Other DBs
GO: 0006401
Organism
Escherichia coli O7:K1 IAI39 (ExPEC) [GN:ect]
Gene
ECIAI39_3249  nudH; nucleotide hydrolase [KO:K08311] [EC:3.6.1.-]
ECIAI39_2076  rne; fused ribonucleaseE: endoribonuclease; RNA-binding protein; RNA degradosome binding protein [KO:K08300] [EC:3.1.26.12]
ECIAI39_3007  rhlB; ATP-dependent RNA helicase [KO:K03732] [EC:5.6.2.7]
ECIAI39_3198  eno; enolase [KO:K01689] [EC:4.2.1.11]
ECIAI39_3661  pnp; polynucleotide phosphorylase/polyadenylase [KO:K00962] [EC:2.7.7.8]
ECIAI39_0773  rhlE; RNA helicase [KO:K11927] [EC:5.6.2.7]
ECIAI39_4644  rnr; exoribonuclease R, RNase R [KO:K12573] [EC:3.1.13.1]
ECIAI39_3659  deaD; ATP-dependent RNA helicase [KO:K05592] [EC:5.6.2.7]
ECIAI39_3917  conserved hypothetical protein; putative superfamily II DNA helicase [KO:K03654] [EC:5.6.2.4]
ECIAI39_3187  recQ; ATP-dependent DNA helicase [KO:K03654] [EC:5.6.2.4]
ECIAI39_3005  rho; transcription termination factor [KO:K03628]
ECIAI39_3080  pfkA; 6-phosphofructokinase I [KO:K00850] [EC:2.7.1.11]
ECIAI39_0013  dnaK; chaperone Hsp70, co-chaperone with DnaJ [KO:K04043]
ECIAI39_4608  groL; Cpn60 chaperonin GroEL, large subunit of GroESL [KO:K04077] [EC:5.6.1.7]
ECIAI39_4637  hfq; HF-I, host factor for RNA phage Q beta replication [KO:K03666]
ECIAI39_2642  ppk; polyphosphate kinase, component of RNA degradosome [KO:K00937] [EC:2.7.4.1]
ECIAI39_0147  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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