KEGG   PATHWAY: ddi03018
Entry
ddi03018                    Pathway                                
Name
RNA degradation - Dictyostelium discoideum (cellular slime mold)
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
ddi03018  RNA degradation
ddi03018

Other DBs
GO: 0006401
Organism
Dictyostelium discoideum (cellular slime mold) [GN:ddi]
Gene
DDB_G0285377  hypothetical protein [KO:K07573]
DDB_G0291310  hypothetical protein [KO:K03679]
DDB_G0276783  hypothetical protein [KO:K03681]
DDB_G0292692  hypothetical protein [KO:K12586]
DDB_G0271396  hypothetical protein [KO:K12587]
DDB_G0280251  hypothetical protein [KO:K12589]
DDB_G0291328  hypothetical protein [KO:K11600]
DDB_G0284053  hypothetical protein [KO:K12590]
DDB_G0271100  hypothetical protein [KO:K03678]
DDB_G0293614  hypothetical protein [KO:K12585] [EC:3.1.13.-]
DDB_G0271572  exosc10; 3'-5' exonuclease [KO:K12591] [EC:3.1.13.-]
DDB_G0268186  hypothetical protein [KO:K18681] [EC:3.1.13.-]
DDB_G0275633  DEAD/DEAH box helicase [KO:K12598] [EC:5.6.2.6]
DDB_G0277211  DEAD/DEAH box helicase [KO:K12599] [EC:5.6.2.6]
DDB_G0289175  DG1091; tetratricopeptide-like helical domain-containing protein [KO:K12600]
DDB_G0282793  wdr61; WD40 repeat-containing protein [KO:K12602]
DDB_G0276029  DG1040; hypothetical protein [KO:K12604]
DDB_G0284577  NOT2/NOT3/NOT5 family protein [KO:K12605]
DDB_G0272056  NOT2/NOT3/NOT5 family protein [KO:K12580]
DDB_G0275005  RING zinc finger-containing protein [KO:K10643] [EC:2.3.2.27]
DDB_G0284217  CAF1 family protein [KO:K12581]
DDB_G0285269  CAF1 family protein [KO:K12581]
DDB_G0269778  cell differentiation family, Rcd1-like protein [KO:K12606]
DDB_G0281363  hypothetical protein [KO:K12607]
DDB_G0285069  btg; anti-proliferative BTG domain-containing protein [KO:K14443]
DDB_G0293558  pabpc1A; RNA recognition motif-containing protein RRM [KO:K13126]
DDB_G0290745  pabpc1B; RNA recognition motif-containing protein RRM [KO:K13126]
DDB_G0269694  pan2; WD40-like domain-containing protein [KO:K12571] [EC:3.1.13.4]
DDB_G0287243  hypothetical protein [KO:K12611] [EC:3.-.-.-]
DDB_G0283315  dcp2; mRNA-decapping enzyme 2 [KO:K12613] [EC:3.6.1.62]
DDB_G0291804  ddx6; DEAD/DEAH box helicase [KO:K12614] [EC:5.6.2.7]
DDB_G0276137  xrn1; 5'-3' exoribonuclease [KO:K12618] [EC:3.1.13.-]
DDB_G0269922  xrn2; 5'-3' exoribonuclease [KO:K12619] [EC:3.1.13.-]
DDB_G0289921  hypothetical protein [KO:K12619] [EC:3.1.13.-]
DDB_G0279837  lsm1; LSM domain-containing protein [KO:K12620]
DDB_G0281779  lsm2; LSM domain-containing protein [KO:K12621]
DDB_G0277107  lsm3; LSM domain-containing protein [KO:K12622]
DDB_G0287053  lsm4; LSM domain-containing protein [KO:K12623]
DDB_G0268716  lsm5; LSM domain-containing protein [KO:K12624]
DDB_G0275719  lsm6; LSM domain-containing protein [KO:K12625]
DDB_G0289499  lsm7; LSM domain-containing protein [KO:K12626]
DDB_G0288479  lsm8; LSM domain-containing protein [KO:K12627]
DDB_G0283137  enoA; 2-phospho-D-glycerate hydrolase [KO:K01689] [EC:4.2.1.11]
DDB_G0268214  enoB; 2-phospho-D-glycerate hydrolase [KO:K01689] [EC:4.2.1.11]
DDB_G0274111  pfkA; hypothetical protein [KO:K00850] [EC:2.7.1.11]
DDB_G0293298  mhsp70; hypothetical protein [KO:K04043]
DDB_G0288181  hspA; chaperonin 60 [KO:K04077] [EC:5.6.1.7]
DDB_G0293524  ppk1; poly P kinase [KO:K00937] [EC:2.7.4.1]
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
Related
pathway
ddi03015  mRNA surveillance pathway
KO pathway
ko03018   
LinkDB

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