KEGG   PATHWAY: puc03018
Entry
puc03018                    Pathway                                
Name
RNA degradation - Panthera uncia (snow leopard)
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
puc03018  RNA degradation
puc03018

Other DBs
GO: 0006401
Organism
Panthera uncia (snow leopard) [GN:puc]
Gene
125939126  m7GpppX diphosphatase [KO:K12584] [EC:3.6.1.59]
125932838  exosome complex component CSL4 isoform X1 [KO:K07573]
125922625  exosome complex component RRP4 [KO:K03679]
125919861  exosome complex component RRP40 [KO:K03681]
125933721  exosome complex component RRP43 isoform X1 [KO:K12586]
125930630  exosome complex component RRP42 [KO:K12589]
125924316  exosome complex component RRP41 [KO:K11600]
125916053  exosome complex component RRP46 [KO:K12590]
125921660  LOW QUALITY PROTEIN: exosome complex component RRP45-like [KO:K03678]
125923082  exosome complex component RRP45 [KO:K03678]
125933862  exosome complex exonuclease RRP44 isoform X1 [KO:K12585] [EC:3.1.13.-]
125913122  exosome component 10 [KO:K12591] [EC:3.1.13.-]
125937045  nuclear nucleic acid-binding protein C1D isoform X1 [KO:K12592]
125916525  M-phase phosphoprotein 6 isoform X1 [KO:K12593]
125910077  DIS3-like exonuclease 1 isoform X1 [KO:K18681] [EC:3.1.13.-]
125915412  terminal nucleotidyltransferase 4B isoform X1 [KO:K03514] [EC:2.7.7.19]
125935317  terminal nucleotidyltransferase 4A [KO:K03514] [EC:2.7.7.19]
125919728  zinc finger CCHC domain-containing protein 7 [KO:K12597]
125935621  exosome RNA helicase MTR4 isoform X1 [KO:K12598] [EC:5.6.2.6]
125938419  helicase SKI2W [KO:K12599] [EC:5.6.2.6]
125934306  tetratricopeptide repeat protein 37 isoform X1 [KO:K12600]
125910855  WD repeat-containing protein 61 isoform X1 [KO:K12602]
125923658  CCR4-NOT transcription complex subunit 6-like isoform X1 [KO:K12603] [EC:3.1.13.4]
125934767  CCR4-NOT transcription complex subunit 6 isoform X1 [KO:K12603] [EC:3.1.13.4]
125916193  CCR4-NOT transcription complex subunit 1 isoform X1 [KO:K12604]
125920283  CCR4-NOT transcription complex subunit 2 isoform X1 [KO:K12605]
125915492  LOW QUALITY PROTEIN: CCR4-NOT transcription complex subunit 3 [KO:K12580]
125930166  CCR4-NOT transcription complex subunit 4 isoform X1 [KO:K10643] [EC:2.3.2.27]
125923429  CCR4-NOT transcription complex subunit 7 isoform X1 [KO:K12581]
125934509  CCR4-NOT transcription complex subunit 8 isoform X1 [KO:K12581]
125911184  CCR4-NOT transcription complex subunit 9 isoform X1 [KO:K12606]
125921457  CCR4-NOT transcription complex subunit 10 isoform X1 [KO:K12607]
125921233  ATP-dependent DNA/RNA helicase DHX36 [KO:K14442] [EC:5.6.2.6]
125939029  poly(A)-specific ribonuclease PNLDC1 isoform X1 [KO:K01148] [EC:3.1.13.4]
125927904  poly(A)-specific ribonuclease PARN isoform X1 [KO:K01148] [EC:3.1.13.4]
125921740  protein BTG3 isoform X1 [KO:K14443]
125925429  protein BTG2 [KO:K14443]
125910035  protein BTG4 [KO:K14443]
125919410  protein BTG1 [KO:K14443]
125919642  protein Tob2 [KO:K14443]
125927403  protein Tob1 [KO:K14443]
125923123  polyadenylate-binding protein 4-like [KO:K13126]
125924490  polyadenylate-binding protein 1 isoform X1 [KO:K13126]
125931812  polyadenylate-binding protein 5 [KO:K13126]
125917539  polyadenylate-binding protein 1-like 2 [KO:K13126]
125912733  polyadenylate-binding protein 4 isoform X1 [KO:K13126]
125936560  polyadenylate-binding protein 1-like [KO:K13126]
125920244  PAN2-PAN3 deadenylation complex catalytic subunit PAN2 isoform X1 [KO:K12571] [EC:3.1.13.4]
125934068  PAN2-PAN3 deadenylation complex subunit PAN3 isoform X1 [KO:K12572]
125929474  mRNA-decapping enzyme 1A isoform X1 [KO:K12610] [EC:3.-.-.-]
125920048  mRNA-decapping enzyme 1B [KO:K12611] [EC:3.-.-.-]
125934377  m7GpppN-mRNA hydrolase [KO:K12613] [EC:3.6.1.62]
125909223  probable ATP-dependent RNA helicase DDX6 [KO:K12614] [EC:5.6.2.7]
125910147  enhancer of mRNA-decapping protein 3 [KO:K12615]
125916557  enhancer of mRNA-decapping protein 4 isoform X1 [KO:K12616]
125933193  protein PAT1 homolog 1 [KO:K12617]
125921268  5'-3' exoribonuclease 1 isoform X1 [KO:K12618] [EC:3.1.13.-]
125936858  5'-3' exoribonuclease 2 isoform X1 [KO:K12619] [EC:3.1.13.-]
125922005  U8 snoRNA-decapping enzyme [KO:K16855] [EC:3.6.1.62 3.6.1.64]
125938193  U6 snRNA-associated Sm-like protein LSm2 [KO:K12621]
125929666  U6 snRNA-associated Sm-like protein LSm3 isoform X1 [KO:K12622]
125914586  LOW QUALITY PROTEIN: U6 snRNA-associated Sm-like protein LSm3 [KO:K12622]
125924023  U6 snRNA-associated Sm-like protein LSm3 [KO:K12622]
125920632  U6 snRNA-associated Sm-like protein LSm3 [KO:K12622]
125929248  U6 snRNA-associated Sm-like protein LSm4 isoform X1 [KO:K12623]
125930041  U6 snRNA-associated Sm-like protein LSm5 [KO:K12624]
125935394  U6 snRNA-associated Sm-like protein LSm5 [KO:K12624]
125917460  U6 snRNA-associated Sm-like protein LSm6 [KO:K12625]
125918455  U6 snRNA-associated Sm-like protein LSm6 [KO:K12625]
125928833  U6 snRNA-associated Sm-like protein LSm7 [KO:K12626]
125930455  LSM8 homolog, U6 small nuclear RNA associated [KO:K12627]
125913609  alpha-enolase [KO:K01689] [EC:4.2.1.11]
125918211  gamma-enolase [KO:K01689] [EC:4.2.1.11]
125918217  gamma-enolase [KO:K01689] [EC:4.2.1.11]
125927101  beta-enolase [KO:K01689] [EC:4.2.1.11]
125937009  polyribonucleotide nucleotidyltransferase 1, mitochondrial isoform X1 [KO:K00962] [EC:2.7.7.8]
125918508  ATP-dependent 6-phosphofructokinase, platelet type isoform X1 [KO:K00850] [EC:2.7.1.11]
125920192  ATP-dependent 6-phosphofructokinase, muscle type [KO:K00850] [EC:2.7.1.11]
125920667  ATP-dependent 6-phosphofructokinase, liver type [KO:K00850] [EC:2.7.1.11]
125935553  stress-70 protein, mitochondrial isoform X1 [KO:K04043]
125911328  60 kDa heat shock protein, mitochondrial [KO:K04077] [EC:5.6.1.7]
125920282  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
puc03015  mRNA surveillance pathway
KO pathway
ko03018   
LinkDB

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