KEGG   PATHWAY: pcao03018
Entry
pcao03018                   Pathway                                
Name
RNA degradation - Phalacrocorax carbo (great cormorant)
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
pcao03018  RNA degradation
pcao03018

Other DBs
GO: 0006401
Organism
Phalacrocorax carbo (great cormorant) [GN:pcao]
Gene
104039406  DIS3L; DIS3-like exonuclease 1 [KO:K18681] [EC:3.1.13.-]
104039636  EXOSC10; exosome component 10 [KO:K12591] [EC:3.1.13.-]
104039998  [KO:K01689] [EC:4.2.1.11]
104040223  HSPA9; stress-70 protein, mitochondrial [KO:K04043]
104040553  LSM7; U6 snRNA-associated Sm-like protein LSm7 [KO:K12626]
104040772  LSM8; LSM8 homolog, U6 small nuclear RNA associated [KO:K12627]
104040971  DCPS; m7GpppX diphosphatase [KO:K12584] [EC:3.6.1.59]
104041507  DCP2; m7GpppN-mRNA hydrolase [KO:K12613] [EC:3.6.1.62]
104041616  LSM6; U6 snRNA-associated Sm-like protein LSm6 [KO:K12625]
104041644  LSM5; U6 snRNA-associated Sm-like protein LSm5 [KO:K12624]
104041952  [KO:K12616]
104042053  XRN2; 5'-3' exoribonuclease 2 [KO:K12619] [EC:3.1.13.-]
104042548  PABPC3; polyadenylate-binding protein 3 [KO:K13126]
104042767  PNPT1; polyribonucleotide nucleotidyltransferase 1, mitochondrial [KO:K00962] [EC:2.7.7.8]
104042943  CNOT4; CCR4-NOT transcription complex subunit 4 isoform X1 [KO:K10643] [EC:2.3.2.27]
104042970  PAN2; PAB-dependent poly(A)-specific ribonuclease subunit PAN2 [KO:K12571] [EC:3.1.13.4]
104043212  BTG1; protein BTG1 [KO:K14443]
104043554  HSPD1; 60 kDa heat shock protein, mitochondrial [KO:K04077] [EC:5.6.1.7]
104043806  EXOSC9; exosome complex component RRP45 [KO:K03678]
104043959  [KO:K12600]
104044114  WDR61; WD repeat-containing protein 61 isoform X1 [KO:K12602]
104044496  BTG2; protein BTG2 [KO:K14443]
104044680  XRN1; 5'-3' exoribonuclease 1 [KO:K12618] [EC:3.1.13.-]
104044988  DCP1A; mRNA-decapping enzyme 1A [KO:K12610] [EC:3.-.-.-]
104045361  CNOT7; CCR4-NOT transcription complex subunit 7 [KO:K12581]
104045457  LSM4; U6 snRNA-associated Sm-like protein LSm4 [KO:K12623]
104045892  MPHOSPH6; M-phase phosphoprotein 6 [KO:K12593]
104046013  [KO:K00850] [EC:2.7.1.11]
104046702  EDC3; enhancer of mRNA-decapping protein 3 [KO:K12615]
104046864  DDX6; probable ATP-dependent RNA helicase DDX6 [KO:K12614] [EC:3.6.4.13]
104046929  EXOSC1; exosome complex component CSL4 [KO:K07573]
104047077  RQCD1; cell differentiation protein RCD1 homolog [KO:K12606]
104047444  EXOSC2; exosome complex component RRP4 [KO:K03679]
104047742  PAPD5; non-canonical poly(A) RNA polymerase PAPD5 [KO:K03514] [EC:2.7.7.19]
104047820  CNOT6L; CCR4-NOT transcription complex subunit 6-like isoform X1 [KO:K12603] [EC:3.1.13.4]
104049109  PAN3; PAB-dependent poly(A)-specific ribonuclease subunit PAN3 isoform X1 [KO:K12572]
104049166  CNOT10; CCR4-NOT transcription complex subunit 10 [KO:K12607]
104049320  EXOSC3; exosome complex component RRP40 [KO:K03681]
104049491  DHX36; ATP-dependent RNA helicase DHX36 [KO:K14442] [EC:3.6.4.13]
104049587  DCP1B; mRNA-decapping enzyme 1B [KO:K12611] [EC:3.-.-.-]
104050808  PARN; poly(A)-specific ribonuclease PARN [KO:K01148] [EC:3.1.13.4]
104050911  PAPD7; non-canonical poly(A) RNA polymerase PAPD7 [KO:K03514] [EC:2.7.7.19]
104050962  EXOSC8; exosome complex component RRP43 [KO:K12586]
104051218  SKIV2L2; superkiller viralicidic activity 2-like 2 [KO:K12598] [EC:3.6.4.13]
104051302  DIS3; exosome complex exonuclease RRP44 [KO:K12585] [EC:3.1.13.-]
104051316  C1D; nuclear nucleic acid-binding protein C1D [KO:K12592]
104051430  PNLDC1; poly(A)-specific ribonuclease PARN-like domain-containing protein 1 [KO:K01148] [EC:3.1.13.4]
104051441  BTG4; protein BTG4 [KO:K14443]
104051467  TOB1; protein Tob1 [KO:K14443]
104051744  CNOT2; CCR4-NOT transcription complex subunit 2 [KO:K12605]
104051943  CNOT6; CCR4-NOT transcription complex subunit 6 [KO:K12603] [EC:3.1.13.4]
104052098  CNOT8; CCR4-NOT transcription complex subunit 8 isoform X1 [KO:K12581]
104052388  LSM3; U6 snRNA-associated Sm-like protein LSm3 [KO:K12622]
104052549  [KO:K01689] [EC:4.2.1.11]
104052847  EXOSC7; exosome complex component RRP42 [KO:K12589]
104052982  TOB2; protein Tob2 [KO:K14443]
104053501  PABPC1L; polyadenylate-binding protein 1-like [KO:K13126]
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
pcao03015  mRNA surveillance pathway
KO pathway
ko03018   

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