KEGG   PATHWAY: mlf03018
Entry
mlf03018                    Pathway                                
Name
RNA degradation - Myotis lucifugus (little brown 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
mlf03018  RNA degradation
mlf03018

Other DBs
GO: 0006401
Organism
Myotis lucifugus (little brown bat) [GN:mlf]
Gene
102433128  DCPS; m7GpppX diphosphatase isoform X3 [KO:K12584] [EC:3.6.1.59]
102431676  EXOSC1; exosome complex component CSL4 isoform X1 [KO:K07573]
102434149  EXOSC2; exosome complex component RRP4 isoform X1 [KO:K03679]
106699123  LOW QUALITY PROTEIN: exosome complex component RRP40-like [KO:K03681]
102434145  EXOSC8; exosome complex component RRP43 [KO:K12586]
102424824  EXOSC6; LOW QUALITY PROTEIN: exosome complex component MTR3 [KO:K12587]
102440833  exosome complex exonuclease RRP42 [KO:K12589]
102428743  EXOSC5; exosome complex component RRP46 isoform X1 [KO:K12590]
102442845  EXOSC9; exosome complex component RRP45 isoform X2 [KO:K03678]
102422502  DIS3; exosome complex exonuclease RRP44 isoform X1 [KO:K12585] [EC:3.1.13.-]
102434136  EXOSC10; exosome component 10 isoform X3 [KO:K12591] [EC:3.1.13.-]
102422292  C1D; nuclear nucleic acid-binding protein C1D [KO:K12592]
102419066  MPHOSPH6; M-phase phosphoprotein 6 isoform X2 [KO:K12593]
102440065  DIS3-like exonuclease 1 isoform X1 [KO:K18681] [EC:3.1.13.-]
102429233  PAPD7; non-canonical poly(A) RNA polymerase PAPD7 isoform X1 [KO:K03514] [EC:2.7.7.19]
102425855  PAPD5; LOW QUALITY PROTEIN: non-canonical poly(A) RNA polymerase PAPD5 [KO:K03514] [EC:2.7.7.19]
102428122  ZCCHC7; zinc finger CCHC domain-containing protein 7 [KO:K12597]
102441903  MTREX; superkiller viralicidic activity 2-like 2 isoform X1 [KO:K12598] [EC:5.6.2.6]
102434698  SKIV2L; helicase SKI2W isoform X2 [KO:K12599] [EC:5.6.2.6]
102429628  TTC37; tetratricopeptide repeat protein 37 [KO:K12600]
102433418  CNOT6L; CCR4-NOT transcription complex subunit 6-like isoform X1 [KO:K12603] [EC:3.1.13.4]
102420708  CNOT6; CCR4-NOT transcription complex subunit 6 isoform X1 [KO:K12603] [EC:3.1.13.4]
102423616  CNOT1; CCR4-NOT transcription complex subunit 1 isoform X5 [KO:K12604]
102438739  CNOT2; CCR4-NOT transcription complex subunit 2 isoform X1 [KO:K12605]
102434481  CNOT4; CCR4-NOT transcription complex subunit 4 isoform X2 [KO:K10643] [EC:2.3.2.27]
102429428  CNOT7; CCR4-NOT transcription complex subunit 7 isoform X1 [KO:K12581]
102418657  CNOT8; CCR4-NOT transcription complex subunit 8 isoform X1 [KO:K12581]
102421715  CNOT9; CCR4-NOT transcription complex subunit 9 isoform X1 [KO:K12606]
102441809  CNOT10; CCR4-NOT transcription complex subunit 10 isoform X10 [KO:K12607]
102440903  DHX36; ATP-dependent RNA helicase DHX36 isoform X1 [KO:K14442] [EC:5.6.2.6]
102427204  poly(A)-specific ribonuclease PARN isoform X1 [KO:K01148] [EC:3.1.13.4]
102421437  PNLDC1; poly(A)-specific ribonuclease PNLDC1 [KO:K01148] [EC:3.1.13.4]
102418692  BTG2; protein BTG2 [KO:K14443]
102423136  BTG1; protein BTG1 [KO:K14443]
102430971  BTG3; protein BTG3 [KO:K14443]
102428510  TOB2; protein Tob2 [KO:K14443]
102435763  BTG4; protein BTG4 [KO:K14443]
102423538  TOB1; protein Tob1 [KO:K14443]
102442503  PABPC4L; polyadenylate-binding protein 4-like [KO:K13126]
102432686  LOW QUALITY PROTEIN: polyadenylate-binding protein 1-like [KO:K13126]
102437146  PABPC5; polyadenylate-binding protein 5 [KO:K13126]
102439041  PABPC4; polyadenylate-binding protein 4 isoform X1 [KO:K13126]
102430523  PABPC1L; polyadenylate-binding protein 1-like isoform X1 [KO:K13126]
102423026  PABPC1; polyadenylate-binding protein 1 [KO:K13126]
102431799  PAN2; PAN2-PAN3 deadenylation complex catalytic subunit PAN2 isoform X1 [KO:K12571] [EC:3.1.13.4]
102417003  PAN3; PAN2-PAN3 deadenylation complex subunit PAN3 [KO:K12572]
102420664  DCP1A; mRNA-decapping enzyme 1A isoform X1 [KO:K12610] [EC:3.-.-.-]
102435235  DCP1B; mRNA-decapping enzyme 1B [KO:K12611] [EC:3.-.-.-]
102436917  DCP2; m7GpppN-mRNA hydrolase isoform X1 [KO:K12613] [EC:3.6.1.62]
102425531  DDX6; probable ATP-dependent RNA helicase DDX6 isoform X1 [KO:K12614] [EC:5.6.2.7]
102436033  EDC3; enhancer of mRNA-decapping protein 3 [KO:K12615]
102420898  EDC4; enhancer of mRNA-decapping protein 4 isoform X4 [KO:K12616]
102438634  PATL1; protein PAT1 homolog 1 [KO:K12617]
102418732  XRN1; 5'-3' exoribonuclease 1 isoform X2 [KO:K12618] [EC:3.1.13.-]
102441760  XRN2; 5'-3' exoribonuclease 2 isoform X1 [KO:K12619] [EC:3.1.13.-]
102437955  NUDT16; U8 snoRNA-decapping enzyme [KO:K16855] [EC:3.6.1.62 3.6.1.64]
102420947  LSM1; U6 snRNA-associated Sm-like protein LSm1 [KO:K12620]
102426142  LSM2; U6 snRNA-associated Sm-like protein LSm2 [KO:K12621]
102424665  LSM3; U6 snRNA-associated Sm-like protein LSm3 [KO:K12622]
102432463  LSM4; U6 snRNA-associated Sm-like protein LSm4 isoform X3 [KO:K12623]
102431458  LSM5; U6 snRNA-associated Sm-like protein LSm5 isoform X1 [KO:K12624]
102435470  LSM6; U6 snRNA-associated Sm-like protein LSm6 [KO:K12625]
102430992  LSM7; U6 snRNA-associated Sm-like protein LSm7 [KO:K12626]
102418596  LSM8; LSM8 homolog, U6 small nuclear RNA associated [KO:K12627]
102430477  ENO2; gamma-enolase [KO:K01689] [EC:4.2.1.11]
102438782  LOW QUALITY PROTEIN: alpha-enolase-like [KO:K01689] [EC:4.2.1.11]
102441674  ENO3; beta-enolase isoform X1 [KO:K01689] [EC:4.2.1.11]
102425624  ENO1; alpha-enolase isoform X2 [KO:K01689] [EC:4.2.1.11]
102442197  PNPT1; polyribonucleotide nucleotidyltransferase 1, mitochondrial isoform X1 [KO:K00962] [EC:2.7.7.8]
102422671  PFKP; ATP-dependent 6-phosphofructokinase, platelet type [KO:K00850] [EC:2.7.1.11]
102422316  PFKL; ATP-dependent 6-phosphofructokinase, liver type [KO:K00850] [EC:2.7.1.11]
102427855  PFKM; ATP-dependent 6-phosphofructokinase, muscle type isoform X2 [KO:K00850] [EC:2.7.1.11]
102439211  HSPA9; stress-70 protein, mitochondrial isoform X1 [KO:K04043]
102429538  HSPD1; 60 kDa heat shock protein, mitochondrial [KO:K04077] [EC:5.6.1.7]
102424371  LOW QUALITY PROTEIN: 60 kDa heat shock protein, mitochondrial-like [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
mlf03015  mRNA surveillance pathway
KO pathway
ko03018   
LinkDB

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