KEGG   PATHWAY: eai03018
Entry
eai03018                    Pathway                                
Name
RNA degradation - Equus asinus (ass)
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
eai03018  RNA degradation
eai03018

Other DBs
GO: 0006401
Organism
Equus asinus (ass) [GN:eai]
Gene
106834017  DCPS; m7GpppX diphosphatase isoform X1 [KO:K12584] [EC:3.6.1.59]
106844958  EXOSC1; exosome complex component CSL4 isoform X1 [KO:K07573]
106845391  EXOSC2; exosome complex component RRP4 [KO:K03679]
106843909  EXOSC3; exosome complex component RRP40 [KO:K03681]
106835644  LOW QUALITY PROTEIN: exosome complex component RRP43-like [KO:K12586]
106844940  EXOSC8; exosome complex component RRP43 [KO:K12586]
106823434  EXOSC6; LOW QUALITY PROTEIN: exosome complex component MTR3 [KO:K12587]
106838405  EXOSC7; exosome complex component RRP42 isoform X2 [KO:K12589]
106841918  EXOSC4; exosome complex component RRP41 isoform X1 [KO:K11600]
106843819  EXOSC5; exosome complex component RRP46 [KO:K12590]
106834073  EXOSC9; exosome complex component RRP45 [KO:K03678]
106843100  DIS3; exosome complex exonuclease RRP44 isoform X1 [KO:K12585] [EC:3.1.13.-]
106836678  EXOSC10; exosome component 10 [KO:K12591] [EC:3.1.13.-]
106828343  C1D; nuclear nucleic acid-binding protein C1D isoform X1 [KO:K12592]
106832320  MPHOSPH6; M-phase phosphoprotein 6 [KO:K12593]
106840600  DIS3L; LOW QUALITY PROTEIN: DIS3-like exonuclease 1 [KO:K18681] [EC:3.1.13.-]
106823004  TENT4A; LOW QUALITY PROTEIN: terminal nucleotidyltransferase 4A [KO:K03514] [EC:2.7.7.19]
106824129  TENT4B; LOW QUALITY PROTEIN: terminal nucleotidyltransferase 4B [KO:K03514] [EC:2.7.7.19]
106843900  ZCCHC7; zinc finger CCHC domain-containing protein 7 isoform X1 [KO:K12597]
106843360  MTREX; exosome RNA helicase MTR4 [KO:K12598] [EC:5.6.2.6]
106831001  SKIV2L; helicase SKI2W [KO:K12599] [EC:5.6.2.6]
106848020  TTC37; tetratricopeptide repeat protein 37 [KO:K12600]
106840827  WDR61; WD repeat-containing protein 61 [KO:K12602]
106846336  CNOT6L; CCR4-NOT transcription complex subunit 6-like isoform X1 [KO:K12603] [EC:3.1.13.4]
106843728  CNOT6; CCR4-NOT transcription complex subunit 6 isoform X1 [KO:K12603] [EC:3.1.13.4]
123287606  CCR4-NOT transcription complex subunit 6-like [KO:K12603] [EC:3.1.13.4]
123287614  LOW QUALITY PROTEIN: CCR4-NOT transcription complex subunit 6-like [KO:K12603] [EC:3.1.13.4]
106822201  CNOT1; CCR4-NOT transcription complex subunit 1 isoform X1 [KO:K12604]
106842193  CNOT2; CCR4-NOT transcription complex subunit 2 isoform X1 [KO:K12605]
106840870  CNOT3; CCR4-NOT transcription complex subunit 3 [KO:K12580]
106829997  CNOT4; CCR4-NOT transcription complex subunit 4 isoform X1 [KO:K10643] [EC:2.3.2.27]
106828213  CNOT7; CCR4-NOT transcription complex subunit 7 [KO:K12581]
106824003  CNOT8; CCR4-NOT transcription complex subunit 8 [KO:K12581]
106838455  CNOT9; CCR4-NOT transcription complex subunit 9 isoform X1 [KO:K12606]
106838007  CNOT10; CCR4-NOT transcription complex subunit 10 isoform X1 [KO:K12607]
106836572  DHX36; ATP-dependent DNA/RNA helicase DHX36 [KO:K14442] [EC:5.6.2.6]
106842041  PNLDC1; poly(A)-specific ribonuclease PNLDC1 isoform X1 [KO:K01148] [EC:3.1.13.4]
106847167  PARN; poly(A)-specific ribonuclease PARN isoform X1 [KO:K01148] [EC:3.1.13.4]
106840337  BTG4; protein BTG4 isoform X2 [KO:K14443]
106824099  BTG2; protein BTG2 [KO:K14443]
106831164  BTG1; protein BTG1 [KO:K14443]
106845928  TOB2; protein Tob2 [KO:K14443]
106823957  BTG3; protein BTG3 [KO:K14443]
106826480  TOB1; protein Tob1 [KO:K14443]
106830588  PABPC4; polyadenylate-binding protein 4 isoform X8 [KO:K13126]
106843010  PABPC1L; LOW QUALITY PROTEIN: polyadenylate-binding protein 1-like [KO:K13126]
106847841  PABPC1; polyadenylate-binding protein 1 isoform X1 [KO:K13126]
106846295  LOW QUALITY PROTEIN: polyadenylate-binding protein 1-like [KO:K13126]
106836850  polyadenylate-binding protein 1-like 2 [KO:K13126]
106834978  PABPC4L; polyadenylate-binding protein 4-like [KO:K13126]
123282488  polyadenylate-binding protein 1-like 2 [KO:K13126]
106832953  PAN2; PAN2-PAN3 deadenylation complex catalytic subunit PAN2 isoform X1 [KO:K12571] [EC:3.1.13.4]
106832907  PAN3; PAN2-PAN3 deadenylation complex subunit PAN3 isoform X1 [KO:K12572]
106822068  DCP1A; mRNA-decapping enzyme 1A isoform X1 [KO:K12610] [EC:3.-.-.-]
106839433  DCP1B; mRNA-decapping enzyme 1B isoform X1 [KO:K12611] [EC:3.-.-.-]
106832215  DCP2; LOW QUALITY PROTEIN: m7GpppN-mRNA hydrolase [KO:K12613] [EC:3.6.1.62]
106840288  DDX6; probable ATP-dependent RNA helicase DDX6 [KO:K12614] [EC:5.6.2.7]
106842699  EDC3; enhancer of mRNA-decapping protein 3 [KO:K12615]
106822486  EDC4; enhancer of mRNA-decapping protein 4 isoform X1 [KO:K12616]
106844355  PATL1; protein PAT1 homolog 1 isoform X1 [KO:K12617]
106838126  XRN1; 5'-3' exoribonuclease 1 isoform X1 [KO:K12618] [EC:3.1.13.-]
106840312  XRN2; 5'-3' exoribonuclease 2 isoform X1 [KO:K12619] [EC:3.1.13.-]
106841819  NUDT16; LOW QUALITY PROTEIN: U8 snoRNA-decapping enzyme [KO:K16855] [EC:3.6.1.62 3.6.1.64]
106824667  LSM1; U6 snRNA-associated Sm-like protein LSm1 [KO:K12620]
106825058  LSM2; U6 snRNA-associated Sm-like protein LSm2 [KO:K12621]
106829369  LSM3; U6 snRNA-associated Sm-like protein LSm3 [KO:K12622]
106825000  LSM4; U6 snRNA-associated Sm-like protein LSm4 isoform X1 [KO:K12623]
106831074  LSM5; U6 snRNA-associated Sm-like protein LSm5 isoform X1 [KO:K12624]
106829169  LSM6; U6 snRNA-associated Sm-like protein LSm6 isoform X2 [KO:K12625]
106834211  LSM7; U6 snRNA-associated Sm-like protein LSm7 [KO:K12626]
106829394  LSM8; LSM8 homolog, U6 small nuclear RNA associated [KO:K12627]
106847599  ENO1; alpha-enolase [KO:K01689] [EC:4.2.1.11]
106825685  ENO3; beta-enolase [KO:K01689] [EC:4.2.1.11]
106847317  ENO2; gamma-enolase isoform X1 [KO:K01689] [EC:4.2.1.11]
106832300  PNPT1; polyribonucleotide nucleotidyltransferase 1, mitochondrial isoform X1 [KO:K00962] [EC:2.7.7.8]
106824451  PFKL; ATP-dependent 6-phosphofructokinase, liver type [KO:K00850] [EC:2.7.1.11]
106836834  ATP-dependent 6-phosphofructokinase, muscle type [KO:K00850] [EC:2.7.1.11]
106840623  ATP-dependent 6-phosphofructokinase, platelet type isoform X1 [KO:K00850] [EC:2.7.1.11]
106839220  HSPA9; stress-70 protein, mitochondrial [KO:K04043]
106834367  HSPD1; 60 kDa heat shock protein, mitochondrial [KO:K04077] [EC:5.6.1.7]
106824745  LOW QUALITY PROTEIN: 60 kDa heat shock protein, mitochondrial [KO:K04077] [EC:5.6.1.7]
Reference
PMID:19239894
  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
PMID:16968219
  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
PMID:16939780
  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
PMID:17471261
  Authors
Hartung S, Hopfner KP
  Title
The exosome, plugged.
  Journal
EMBO Rep 8:456-7 (2007)
DOI:10.1038/sj.embor.7400961
Reference
PMID:17447862
  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
PMID:16766188
  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
PMID:17560162
  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
eai03015  mRNA surveillance pathway
KO pathway
ko03018   
LinkDB

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