KEGG   PATHWAY: sfe03018
Entry
sfe03018                    Pathway                                
Name
RNA degradation - Shigella flexneri 2002017 (serotype Fxv)
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
sfe03018  RNA degradation
sfe03018

Other DBs
GO: 0006401
Organism
Shigella flexneri 2002017 (serotype Fxv) [GN:sfe]
Gene
SFxv_3114  rppH; (Di)nucleoside polyphosphate hydrolase [KO:K08311] [EC:3.6.1.-]
SFxv_1239  rne; RNase E [KO:K08300] [EC:3.1.26.12]
SFxv_4199  rhlB; putative Superfamily II DNA and RNA helicase [KO:K03732] [EC:5.6.2.7]
SFxv_3065  eno; Enolase [KO:K01689] [EC:4.2.1.11]
SFxv_3518  pnp; Polynucleotide phosphorylase [KO:K00962] [EC:2.7.7.8]
SFxv_0813  rhlE; putative ATP-dependent RNA helicase [KO:K11927] [EC:5.6.2.7]
SFxv_4723  rnr; putative Exoribonuclease R [KO:K12573] [EC:3.1.13.1]
SFxv_3516  deaD; Cold-shock DEAD-box protein A [KO:K05592] [EC:5.6.2.7]
SFxv_4251  recQ; ATP-dependent DNA helicase [KO:K03654] [EC:5.6.2.4]
SFxv_4202  rho; Transcription termination factor rho [KO:K03628]
SFxv_4355  pfkA; 6-phosphofructokinase isozyme 1 [KO:K00850] [EC:2.7.1.11]
SFxv_0013  dnaK; Chaperone protein dnaK [KO:K04043]
SFxv_4686  groL; chaperonin [KO:K04077] [EC:5.6.1.7]
SFxv_4716  hfq; RNA-binding protein Hfq [KO:K03666]
SFxv_2799  ppk; Polyphosphate kinase [KO:K00937] [EC:2.7.4.1]
SFxv_0142  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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