KEGG   PATHWAY: amz03018
Entry
amz03018                    Pathway                                
Name
RNA degradation - Amycolatopsis mediterranei RB
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
amz03018  RNA degradation
amz03018

Other DBs
GO: 0006401
Organism
Amycolatopsis mediterranei RB [GN:amz]
Gene
B737_6608  ribonuclease [KO:K08300] [EC:3.1.26.12]
B737_8074  eno; enolase [KO:K01689] [EC:4.2.1.11]
B737_8020  eno; enolase [KO:K01689] [EC:4.2.1.11]
B737_6227  pnp; polyribonucleotide nucleotidyltransferase [KO:K00962] [EC:2.7.7.8]
B737_2973  recQ; ATP-dependent DNA helicase RecQ [KO:K03654] [EC:5.6.2.4]
B737_6597  recQ; ATP-dependent DNA helicase RecQ [KO:K03654] [EC:5.6.2.4]
B737_4141  recQ; ATP-dependent DNA helicase RecQ [KO:K03654] [EC:5.6.2.4]
B737_5796  rho; transcription termination factor Rho [KO:K03628]
B737_7675  rho; transcription termination factor Rho [KO:K03628]
B737_6208  mRNA degradation ribonucleases J1/J2 [KO:K12574] [EC:3.1.-.-]
B737_6333  dnaK; molecular chaperone DnaK [KO:K04043]
B737_9030  dnaK; molecular chaperone DnaK [KO:K04043]
B737_5106  chaperone protein DnaK-like protein [KO:K04043]
B737_6707  groE; chaperonin GroEL [KO:K04077] [EC:5.6.1.7]
B737_4279  groE; chaperonin GroEL [KO:K04077] [EC:5.6.1.7]
B737_0762  groE; chaperonin GroEL [KO:K04077] [EC:5.6.1.7]
B737_8424  groE; chaperonin GroEL [KO:K04077] [EC:5.6.1.7]
B737_1716  ppk; polyphosphate kinase [KO:K00937] [EC:2.7.4.1]
B737_9209  pcnB; poly(A) polymerase [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   
LinkDB

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