KEGG   PATHWAY: ecb03018
Entry
ecb03018                    Pathway                                
Name
RNA degradation - Equus caballus (horse)
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
ecb03018  RNA degradation
ecb03018

Other DBs
GO: 0006401
Organism
Equus caballus (horse) [GN:ecb]
Gene
100064530  DCPS; m7GpppX diphosphatase isoform X1 [KO:K12584] [EC:3.6.1.59]
100070729  EXOSC1; exosome complex component CSL4 isoform X1 [KO:K07573]
100069734  EXOSC2; exosome complex component RRP4 [KO:K03679]
100055153  EXOSC3; exosome complex component RRP40 [KO:K03681]
100062567  EXOSC8; exosome complex component RRP43 [KO:K12586]
111772793  EXOSC6; exosome complex component MTR3 [KO:K12587]
100065722  EXOSC7; exosome complex component RRP42 isoform X2 [KO:K12589]
100063419  EXOSC4; exosome complex component RRP41 isoform X1 [KO:K11600]
100064997  EXOSC5; exosome complex component RRP46 [KO:K12590]
100063958  EXOSC9; exosome complex component RRP45 [KO:K03678]
100051938  DIS3; exosome complex exonuclease RRP44 isoform X1 [KO:K12585] [EC:3.1.13.-]
100056644  EXOSC10; exosome component 10 [KO:K12591] [EC:3.1.13.-]
100061974  C1D; nuclear nucleic acid-binding protein C1D isoform X1 [KO:K12592]
100069947  MPHOSPH6; M-phase phosphoprotein 6 [KO:K12593]
100066072  DIS3L; DIS3-like exonuclease 1 isoform X3 [KO:K18681] [EC:3.1.13.-]
100071429  PAPD7; non-canonical poly(A) RNA polymerase PAPD7 isoform X1 [KO:K03514] [EC:2.7.7.19]
100058454  PAPD5; non-canonical poly(A) RNA polymerase PAPD5 isoform X1 [KO:K03514] [EC:2.7.7.19]
100055202  ZCCHC7; zinc finger CCHC domain-containing protein 7 isoform X1 [KO:K12597]
100051945  MTREX; superkiller viralicidic activity 2-like 2 [KO:K12598] [EC:5.6.2.6]
100051198  SKIV2L; helicase SKI2W [KO:K12599] [EC:5.6.2.6]
100065001  TTC37; tetratricopeptide repeat protein 37 [KO:K12600]
100050338  WDR61; WD repeat-containing protein 61 [KO:K12602]
100059049  CNOT6L; CCR4-NOT transcription complex subunit 6-like isoform X1 [KO:K12603] [EC:3.1.13.4]
100057912  CNOT6; CCR4-NOT transcription complex subunit 6 isoform X1 [KO:K12603] [EC:3.1.13.4]
100052554  CNOT1; CCR4-NOT transcription complex subunit 1 isoform X1 [KO:K12604]
100062938  CNOT2; CCR4-NOT transcription complex subunit 2 isoform X2 [KO:K12605]
100049807  CNOT3; CCR4-NOT transcription complex subunit 3 isoform X1 [KO:K12580]
100065026  CNOT4; CCR4-NOT transcription complex subunit 4 isoform X1 [KO:K10643] [EC:2.3.2.27]
100050103  CNOT7; CCR4-NOT transcription complex subunit 7 [KO:K12581]
100059963  CNOT8; CCR4-NOT transcription complex subunit 8 isoform X1 [KO:K12581]
100058624  CNOT9; cell differentiation protein RCD1 homolog [KO:K12606]
100050817  CNOT10; CCR4-NOT transcription complex subunit 10 isoform X3 [KO:K12607]
100054140  DHX36; ATP-dependent RNA helicase DHX36 [KO:K14442] [EC:5.6.2.6]
100050655  PARN; poly(A)-specific ribonuclease PARN isoform X2 [KO:K01148] [EC:3.1.13.4]
100058786  PNLDC1; poly(A)-specific ribonuclease PNLDC1 isoform X1 [KO:K01148] [EC:3.1.13.4]
100053122  BTG2; protein BTG2 [KO:K14443]
100054048  BTG3; protein BTG3 [KO:K14443]
100055713  TOB2; protein Tob2 [KO:K14443]
100056451  TOB1; protein Tob1 [KO:K14443]
100070324  BTG4; protein BTG4 isoform X1 [KO:K14443]
100629230  BTG1; protein BTG1 [KO:K14443]
100056021  PABPC1; polyadenylate-binding protein 1 [KO:K13126]
100071995  PABPC5; polyadenylate-binding protein 5 [KO:K13126]
100070836  PABPC1L; polyadenylate-binding protein 1-like [KO:K13126]
100146775  PABPC1L2A; polyadenylate-binding protein 1-like 2 [KO:K13126]
100054235  PABPC4; polyadenylate-binding protein 4 isoform X3 [KO:K13126]
100071641  PABPC4L; polyadenylate-binding protein 4-like [KO:K13126]
100072210  LOW QUALITY PROTEIN: polyadenylate-binding protein 1-like [KO:K13126]
100052396  PAN2; PAN2-PAN3 deadenylation complex catalytic subunit PAN2 isoform X7 [KO:K12571] [EC:3.1.13.4]
100061907  PAN3; PAN2-PAN3 deadenylation complex subunit PAN3 isoform X1 [KO:K12572]
100051259  DCP1A; mRNA-decapping enzyme 1A isoform X1 [KO:K12610] [EC:3.-.-.-]
100055722  DCP1B; mRNA-decapping enzyme 1B isoform X1 [KO:K12611] [EC:3.-.-.-]
100073182  DCP2; m7GpppN-mRNA hydrolase [KO:K12613] [EC:3.6.1.62]
100063116  DDX6; probable ATP-dependent RNA helicase DDX6 [KO:K12614] [EC:5.6.2.7]
100051601  EDC3; enhancer of mRNA-decapping protein 3 [KO:K12615]
100053605  EDC4; enhancer of mRNA-decapping protein 4 isoform X2 [KO:K12616]
100058878  PATL1; protein PAT1 homolog 1 isoform X4 [KO:K12617]
100051335  XRN1; 5'-3' exoribonuclease 1 isoform X1 [KO:K12618] [EC:3.1.13.-]
100050094  XRN2; 5'-3' exoribonuclease 2 [KO:K12619] [EC:3.1.13.-]
100064676  NUDT16; U8 snoRNA-decapping enzyme [KO:K16855] [EC:3.6.1.62 3.6.1.64]
100057784  LSM1; U6 snRNA-associated Sm-like protein LSm1 [KO:K12620]
100058963  LSM2; U6 snRNA-associated Sm-like protein LSm2 [KO:K12621]
100629288  LSM3; U6 snRNA-associated Sm-like protein LSm3 [KO:K12622]
100070928  LSM4; U6 snRNA-associated Sm-like protein LSm4 isoform X2 [KO:K12623]
100055259  LSM5; U6 snRNA-associated Sm-like protein LSm5 [KO:K12624]
100629585  LSM6; U6 snRNA-associated Sm-like protein LSm6 isoform X2 [KO:K12625]
100060584  LSM7; U6 snRNA-associated Sm-like protein LSm7 [KO:K12626]
100071271  LSM8; LSM8 homolog, U6 small nuclear RNA associated [KO:K12627]
100061187  ENO3; beta-enolase [KO:K01689] [EC:4.2.1.11]
100051879  ENO1; alpha-enolase [KO:K01689] [EC:4.2.1.11]
100052776  ENO2; gamma-enolase [KO:K01689] [EC:4.2.1.11]
100052355  PNPT1; polyribonucleotide nucleotidyltransferase 1, mitochondrial isoform X1 [KO:K00962] [EC:2.7.7.8]
100070818  PFKP; ATP-dependent 6-phosphofructokinase, platelet type isoform X1 [KO:K00850] [EC:2.7.1.11]
100056927  PFKL; ATP-dependent 6-phosphofructokinase, liver type [KO:K00850] [EC:2.7.1.11]
100034116  PFKM; ATP-dependent 6-phosphofructokinase, muscle type [KO:K00850] [EC:2.7.1.11]
100034032  HSPA9; stress-70 protein, mitochondrial [KO:K04043]
100055147  HSPD1; 60 kDa heat shock protein, mitochondrial [KO:K04077] [EC:5.6.1.7]
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
ecb03015  mRNA surveillance pathway
KO pathway
ko03018   
LinkDB

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