KEGG   PATHWAY: sinh03018
Entry
sinh03018                   Pathway                                
Name
RNA degradation - Sinomicrobium kalidii
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
sinh03018  RNA degradation
sinh03018

Other DBs
GO: 0006401
Organism
Sinomicrobium kalidii [GN:sinh]
Gene
LS482_12835  eno; phosphopyruvate hydratase [KO:K01689] [EC:4.2.1.11]
LS482_03115  polyribonucleotide nucleotidyltransferase [KO:K00962] [EC:2.7.7.8]
LS482_09280  rnr; ribonuclease R [KO:K12573] [EC:3.1.13.1]
LS482_00380  DEAD/DEAH box helicase [KO:K05592] [EC:5.6.2.7]
LS482_01755  recQ; DNA helicase RecQ [KO:K03654] [EC:5.6.2.4]
LS482_15015  recQ; DNA helicase RecQ [KO:K03654] [EC:5.6.2.4]
LS482_19365  RecQ family ATP-dependent DNA helicase [KO:K03654] [EC:5.6.2.4]
LS482_03750  rho; transcription termination factor Rho [KO:K03628]
LS482_00920  rny; ribonuclease Y [KO:K18682] [EC:3.1.-.-]
LS482_03345  pfkA; 6-phosphofructokinase [KO:K00850] [EC:2.7.1.11]
LS482_13505  pfkA; 6-phosphofructokinase [KO:K00850] [EC:2.7.1.11]
LS482_21485  dnaK; molecular chaperone DnaK [KO:K04043]
LS482_05720  groL; chaperonin GroEL [KO:K04077] [EC:5.6.1.7]
LS482_00955  ppk1; polyphosphate kinase 1 [KO:K00937] [EC:2.7.4.1]
LS482_19425  ppk1; polyphosphate kinase 1 [KO:K00937] [EC:2.7.4.1]
LS482_02435  CCA tRNA nucleotidyltransferase [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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