KEGG   PATHWAY: tge03018
Entry
tge03018                    Pathway                                
Name
RNA degradation - Theropithecus gelada (gelada)
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
tge03018  RNA degradation
tge03018

Other DBs
GO: 0006401
Organism
Theropithecus gelada (gelada) [GN:tge]
Gene
112606568  DCPS; LOW QUALITY PROTEIN: m7GpppX diphosphatase [KO:K12584] [EC:3.6.1.59]
112631277  EXOSC1; exosome complex component CSL4 isoform X1 [KO:K07573]
112608411  EXOSC2; exosome complex component RRP4 isoform X1 [KO:K03679]
112607877  EXOSC3; exosome complex component RRP40 isoform X1 [KO:K03681]
112610602  EXOSC8; exosome complex component RRP43 [KO:K12586]
112614404  EXOSC6; exosome complex component MTR3 [KO:K12587]
112618164  EXOSC7; exosome complex component RRP42 isoform X1 [KO:K12589]
112630070  EXOSC4; exosome complex component RRP41 [KO:K11600]
112612160  EXOSC5; exosome complex component RRP46 [KO:K12590]
112624451  EXOSC9; exosome complex component RRP45 isoform X1 [KO:K03678]
112610623  DIS3; exosome complex exonuclease RRP44 isoform X1 [KO:K12585] [EC:3.1.13.-]
112620107  EXOSC10; exosome component 10 isoform X1 [KO:K12591] [EC:3.1.13.-]
112605371  C1D; nuclear nucleic acid-binding protein C1D [KO:K12592]
112614763  MPHOSPH6; M-phase phosphoprotein 6 [KO:K12593]
112627905  DIS3L; DIS3-like exonuclease 1 isoform X1 [KO:K18681] [EC:3.1.13.-]
112614722  TENT4B; non-canonical poly(A) RNA polymerase PAPD5 isoform X1 [KO:K03514] [EC:2.7.7.19]
112626971  TENT4A; non-canonical poly(A) RNA polymerase PAPD7 [KO:K03514] [EC:2.7.7.19]
112608228  ZCCHC7; zinc finger CCHC domain-containing protein 7 [KO:K12597]
112626738  MTREX; exosome RNA helicase MTR4 isoform X1 [KO:K12598] [EC:5.6.2.6]
112622248  SKIV2L; helicase SKI2W isoform X1 [KO:K12599] [EC:5.6.2.6]
112625984  TTC37; tetratricopeptide repeat protein 37 isoform X1 [KO:K12600]
112627535  WDR61; WD repeat-containing protein 61 isoform X1 [KO:K12602]
112625086  CNOT6L; CCR4-NOT transcription complex subunit 6-like isoform X1 [KO:K12603] [EC:3.1.13.4]
112626475  CNOT6; CCR4-NOT transcription complex subunit 6 isoform X1 [KO:K12603] [EC:3.1.13.4]
112613906  CNOT1; CCR4-NOT transcription complex subunit 1 isoform X1 [KO:K12604]
112634281  CNOT2; CCR4-NOT transcription complex subunit 2 [KO:K12605]
112613068  CNOT3; CCR4-NOT transcription complex subunit 3 [KO:K12580]
112620926  CNOT4; CCR4-NOT transcription complex subunit 4 isoform X1 [KO:K10643] [EC:2.3.2.27]
112629762  CNOT7; CCR4-NOT transcription complex subunit 7 isoform X1 [KO:K12581]
112625863  CNOT8; CCR4-NOT transcription complex subunit 8 isoform X1 [KO:K12581]
112635824  CNOT9; CCR4-NOT transcription complex subunit 9 isoform X1 [KO:K12606]
112619177  CNOT10; CCR4-NOT transcription complex subunit 10 [KO:K12607]
112619159  DHX36; ATP-dependent RNA helicase DHX36 isoform X1 [KO:K14442] [EC:5.6.2.6]
112614387  PARN; poly(A)-specific ribonuclease PARN isoform X1 [KO:K01148] [EC:3.1.13.4]
112622996  PNLDC1; poly(A)-specific ribonuclease PNLDC1 [KO:K01148] [EC:3.1.13.4]
112620451  BTG3; protein BTG3 isoform X1 [KO:K14443]
112606737  BTG4; protein BTG4 [KO:K14443]
112610082  TOB1; protein Tob1 isoform X1 [KO:K14443]
112633345  TOB2; protein Tob2 [KO:K14443]
112633988  BTG1; protein BTG1 [KO:K14443]
112634482  BTG2; protein BTG2 [KO:K14443]
112629868  PABPC1; polyadenylate-binding protein 1 isoform X1 [KO:K13126]
112615877  PABPC5; polyadenylate-binding protein 5 [KO:K13126]
112624867  PABPC4L; polyadenylate-binding protein 4-like [KO:K13126]
112610648  PABPC3; polyadenylate-binding protein 3 isoform X1 [KO:K13126]
112632734  PABPC1L; polyadenylate-binding protein 1-like isoform X1 [KO:K13126]
112626360  PABPC4; polyadenylate-binding protein 4 isoform X1 [KO:K13126]
112616170  PABPC1L2A; polyadenylate-binding protein 1-like 2 [KO:K13126]
112616258  PABPC1L2B; polyadenylate-binding protein 1-like 2 [KO:K13126]
112634333  PAN2; PAN2-PAN3 deadenylation complex catalytic subunit PAN2 isoform X1 [KO:K12571] [EC:3.1.13.4]
112610980  PAN3; PAN2-PAN3 deadenylation complex subunit PAN3 [KO:K12572]
112618610  DCP1A; mRNA-decapping enzyme 1A isoform X1 [KO:K12610] [EC:3.-.-.-]
112634002  DCP1B; mRNA-decapping enzyme 1B isoform X1 [KO:K12611] [EC:3.-.-.-]
112625928  DCP2; m7GpppN-mRNA hydrolase isoform X1 [KO:K12613] [EC:3.6.1.62]
112606772  DDX6; probable ATP-dependent RNA helicase DDX6 [KO:K12614] [EC:5.6.2.7]
112627407  EDC3; enhancer of mRNA-decapping protein 3 isoform X1 [KO:K12615]
112614065  EDC4; enhancer of mRNA-decapping protein 4 isoform X1 [KO:K12616]
112606811  PATL1; protein PAT1 homolog 1 [KO:K12617]
112619028  XRN1; 5'-3' exoribonuclease 1 isoform X1 [KO:K12618] [EC:3.1.13.-]
112632745  XRN2; 5'-3' exoribonuclease 2 isoform X1 [KO:K12619] [EC:3.1.13.-]
112617211  U8 snoRNA-decapping enzyme [KO:K16855] [EC:3.6.1.62 3.6.1.64]
112617516  U8 snoRNA-decapping enzyme [KO:K16855] [EC:3.6.1.62 3.6.1.64]
112619589  NUDT16; U8 snoRNA-decapping enzyme isoform X1 [KO:K16855] [EC:3.6.1.62 3.6.1.64]
112630645  LSM1; U6 snRNA-associated Sm-like protein LSm1 isoform X1 [KO:K12620]
112617522  LSM2; U6 snRNA-associated Sm-like protein LSm2 [KO:K12621]
112618360  LSM3; U6 snRNA-associated Sm-like protein LSm3 [KO:K12622]
112612407  LSM4; U6 snRNA-associated Sm-like protein LSm4 isoform X1 [KO:K12623]
112620473  LSM5; U6 snRNA-associated Sm-like protein LSm5 isoform X1 [KO:K12624]
112624626  LSM6; U6 snRNA-associated Sm-like protein LSm6 [KO:K12625]
112612270  LSM7; U6 snRNA-associated Sm-like protein LSm7 [KO:K12626]
112620783  LSM8; LSM8 homolog, U6 small nuclear RNA associated [KO:K12627]
112621107  alpha-enolase-like isoform X1 [KO:K01689] [EC:4.2.1.11]
112635583  ENO2; gamma-enolase isoform X1 [KO:K01689] [EC:4.2.1.11]
112608045  ENO1; alpha-enolase isoform X1 [KO:K01689] [EC:4.2.1.11]
112609016  ENO3; beta-enolase isoform X1 [KO:K01689] [EC:4.2.1.11]
112620048  alpha-enolase-like isoform X1 [KO:K01689] [EC:4.2.1.11]
112624578  alpha-enolase-like [KO:K01689] [EC:4.2.1.11]
112605132  PNPT1; polyribonucleotide nucleotidyltransferase 1, mitochondrial [KO:K00962] [EC:2.7.7.8]
112617401  ATP-dependent 6-phosphofructokinase, platelet type isoform X1 [KO:K00850] [EC:2.7.1.11]
112620269  PFKL; ATP-dependent 6-phosphofructokinase, liver type isoform X1 [KO:K00850] [EC:2.7.1.11]
112634756  PFKM; ATP-dependent 6-phosphofructokinase, muscle type isoform X1 [KO:K00850] [EC:2.7.1.11]
112617405  stress-70 protein, mitochondrial isoform X1 [KO:K04043]
112625713  HSPA9; stress-70 protein, mitochondrial [KO:K04043]
112636000  HSPD1; 60 kDa heat shock protein, mitochondrial isoform X1 [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
tge03015  mRNA surveillance pathway
KO pathway
ko03018   
LinkDB

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