KEGG   PATHWAY: mmyo03018
Entry
mmyo03018                   Pathway                                
Name
RNA degradation - Myotis myotis (greater mouse-eared bat)
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
mmyo03018  RNA degradation
mmyo03018

Other DBs
GO: 0006401
Organism
Myotis myotis (greater mouse-eared bat) [GN:mmyo]
Gene
118669901  EXOSC1; exosome complex component CSL4 isoform X1 [KO:K07573]
118666953  EXOSC2; exosome complex component RRP4 isoform X1 [KO:K03679]
118674141  exosome complex component RRP4-like [KO:K03679]
118667298  EXOSC3; LOW QUALITY PROTEIN: exosome complex component RRP40 [KO:K03681]
118651098  EXOSC8; exosome complex component RRP43 isoform X1 [KO:K12586]
118674415  EXOSC6; exosome complex component MTR3 [KO:K12587]
118668323  EXOSC7; exosome complex component RRP42 isoform X1 [KO:K12589]
118653111  EXOSC4; exosome complex component RRP41 isoform X1 [KO:K11600]
118674600  EXOSC5; exosome complex component RRP46 isoform X1 [KO:K12590]
118658223  EXOSC9; exosome complex component RRP45 [KO:K03678]
118652020  DIS3; exosome complex exonuclease RRP44 isoform X1 [KO:K12585] [EC:3.1.13.-]
118676457  EXOSC10; exosome component 10 isoform X1 [KO:K12591] [EC:3.1.13.-]
118653264  nuclear nucleic acid-binding protein C1D-like [KO:K12592]
118668926  C1D; nuclear nucleic acid-binding protein C1D [KO:K12592]
118663677  nuclear nucleic acid-binding protein C1D-like [KO:K12592]
118676530  nuclear nucleic acid-binding protein C1D-like [KO:K12592]
118650183  M-phase phosphoprotein 6-like [KO:K12593]
118674405  MPHOSPH6; M-phase phosphoprotein 6 [KO:K12593]
118654162  DIS3L; DIS3-like exonuclease 1 isoform X1 [KO:K18681] [EC:3.1.13.-]
118674161  TENT4B; terminal nucleotidyltransferase 4B isoform X1 [KO:K03514] [EC:2.7.7.19]
118655877  TENT4A; terminal nucleotidyltransferase 4A isoform X1 [KO:K03514] [EC:2.7.7.19]
118667309  ZCCHC7; zinc finger CCHC domain-containing protein 7 [KO:K12597]
118655935  MTREX; exosome RNA helicase MTR4 isoform X1 [KO:K12598] [EC:5.6.2.6]
118679564  SKIV2L; helicase SKI2W isoform X1 [KO:K12599] [EC:5.6.2.6]
118656919  TTC37; tetratricopeptide repeat protein 37 isoform X1 [KO:K12600]
118679078  WDR61; WD repeat-containing protein 61 [KO:K12602]
118657859  CNOT6; CCR4-NOT transcription complex subunit 6 isoform X1 [KO:K12603] [EC:3.1.13.4]
118670225  CNOT6L; CCR4-NOT transcription complex subunit 6-like isoform X1 [KO:K12603] [EC:3.1.13.4]
118674151  CNOT1; CCR4-NOT transcription complex subunit 1 isoform X1 [KO:K12604]
118651378  CNOT2; CCR4-NOT transcription complex subunit 2 isoform X1 [KO:K12605]
118666367  CNOT4; CCR4-NOT transcription complex subunit 4 isoform X1 [KO:K10643] [EC:2.3.2.27]
118649490  CNOT7; CCR4-NOT transcription complex subunit 7 isoform X1 [KO:K12581]
118659367  CNOT8; CCR4-NOT transcription complex subunit 8 isoform X1 [KO:K12581]
118662182  CNOT9; CCR4-NOT transcription complex subunit 9 isoform X1 [KO:K12606]
118668269  CNOT10; CCR4-NOT transcription complex subunit 10 isoform X1 [KO:K12607]
118675413  DHX36; ATP-dependent DNA/RNA helicase DHX36 isoform X1 [KO:K14442] [EC:5.6.2.6]
118659754  PNLDC1; poly(A)-specific ribonuclease PNLDC1 [KO:K01148] [EC:3.1.13.4]
118656125  PARN; poly(A)-specific ribonuclease PARN isoform X1 [KO:K01148] [EC:3.1.13.4]
118649939  TOB2; protein Tob2 [KO:K14443]
118673032  BTG2; protein BTG2 [KO:K14443]
118651813  BTG1; protein BTG1 [KO:K14443]
118664020  BTG4; protein BTG4 [KO:K14443]
118671667  TOB1; protein Tob1 [KO:K14443]
118676069  BTG3; protein BTG3 [KO:K14443]
118659267  PABPC4L; polyadenylate-binding protein 4-like [KO:K13126]
118654003  polyadenylate-binding protein 1-like 2 [KO:K13126]
118654065  PABPC5; polyadenylate-binding protein 5 [KO:K13126]
118654266  LOW QUALITY PROTEIN: polyadenylate-binding protein 4-like [KO:K13126]
118670683  PABPC1; polyadenylate-binding protein 1 isoform X1 [KO:K13126]
118663624  PABPC1L; LOW QUALITY PROTEIN: polyadenylate-binding protein 1-like [KO:K13126]
118675076  polyadenylate-binding protein 4 isoform X1 [KO:K13126]
118675491  PABPC4; polyadenylate-binding protein 4 isoform X1 [KO:K13126]
118651784  PAN2; PAN2-PAN3 deadenylation complex catalytic subunit PAN2 isoform X1 [KO:K12571] [EC:3.1.13.4]
118650872  PAN3; PAN2-PAN3 deadenylation complex subunit PAN3 isoform X1 [KO:K12572]
118667981  DCP1A; mRNA-decapping enzyme 1A isoform X1 [KO:K12610] [EC:3.-.-.-]
118652155  DCP1B; mRNA-decapping enzyme 1B isoform X1 [KO:K12611] [EC:3.-.-.-]
118655761  DCP2; m7GpppN-mRNA hydrolase isoform X1 [KO:K12613] [EC:3.6.1.62]
118664219  DDX6; probable ATP-dependent RNA helicase DDX6 isoform X1 [KO:K12614] [EC:5.6.2.7]
118675892  EDC3; enhancer of mRNA-decapping protein 3 [KO:K12615]
118674421  EDC4; enhancer of mRNA-decapping protein 4 isoform X1 [KO:K12616]
118664978  PATL1; protein PAT1 homolog 1 isoform X1 [KO:K12617]
118674964  XRN1; 5'-3' exoribonuclease 1 isoform X1 [KO:K12618] [EC:3.1.13.-]
118662618  XRN2; 5'-3' exoribonuclease 2 isoform X1 [KO:K12619] [EC:3.1.13.-]
118668184  NUDT16; U8 snoRNA-decapping enzyme [KO:K16855] [EC:3.6.1.62 3.6.1.64]
118649916  LSM1; U6 snRNA-associated Sm-like protein LSm1 isoform X1 [KO:K12620]
118679636  LSM2; U6 snRNA-associated Sm-like protein LSm2 [KO:K12621]
118670078  U6 snRNA-associated Sm-like protein LSm2 [KO:K12621]
118659831  U6 snRNA-associated Sm-like protein LSm3 [KO:K12622]
118668102  LSM3; U6 snRNA-associated Sm-like protein LSm3 [KO:K12622]
118657585  LSM4; U6 snRNA-associated Sm-like protein LSm4 isoform X1 [KO:K12623]
118666053  LSM5; U6 snRNA-associated Sm-like protein LSm5 [KO:K12624]
118658331  LSM6; U6 snRNA-associated Sm-like protein LSm6 [KO:K12625]
118658104  LSM7; LOW QUALITY PROTEIN: U6 snRNA-associated Sm-like protein LSm7 [KO:K12626]
118666475  LSM8; LSM8 homolog, U6 small nuclear RNA associated isoform X1 [KO:K12627]
118651906  ENO2; gamma-enolase [KO:K01689] [EC:4.2.1.11]
118671960  ENO3; beta-enolase isoform X1 [KO:K01689] [EC:4.2.1.11]
118676677  ENO1; alpha-enolase isoform X1 [KO:K01689] [EC:4.2.1.11]
118668987  PNPT1; polyribonucleotide nucleotidyltransferase 1, mitochondrial isoform X1 [KO:K00962] [EC:2.7.7.8]
118649796  PFKM; ATP-dependent 6-phosphofructokinase, muscle type [KO:K00850] [EC:2.7.1.11]
118676166  PFKL; ATP-dependent 6-phosphofructokinase, liver type [KO:K00850] [EC:2.7.1.11]
118672725  ATP-dependent 6-phosphofructokinase, platelet type isoform X1 [KO:K00850] [EC:2.7.1.11]
118658064  HSPA9; stress-70 protein, mitochondrial [KO:K04043]
118658939  60 kDa heat shock protein, mitochondrial-like [KO:K04077] [EC:5.6.1.7]
118661356  HSPD1; 60 kDa heat shock protein, mitochondrial isoform X1 [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
mmyo03015  mRNA surveillance pathway
KO pathway
ko03018   
LinkDB

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