KEGG   PATHWAY: mbez03018
Entry
mbez03018                   Pathway                                
Name
RNA degradation - Moschus berezovskii (Chinese forest musk deer)
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
mbez03018  RNA degradation
mbez03018

Other DBs
GO: 0006401
Organism
Moschus berezovskii (Chinese forest musk deer) [GN:mbez]
Gene
129535025  [KO:K12621]
129535551  [KO:K12613] [EC:3.6.1.62]
129535726  DCP1B; mRNA-decapping enzyme 1B [KO:K12611] [EC:3.-.-.-]
129536197  ENO2; gamma-enolase [KO:K01689] [EC:4.2.1.11]
129536471  [KO:K07573]
129536753  BTG1; protein BTG1 [KO:K14443]
129536973  TOB2; protein Tob2 [KO:K14443]
129536987  CNOT2; CCR4-NOT transcription complex subunit 2 isoform X1 [KO:K12605]
129537125  PAN2; PAN2-PAN3 deadenylation complex catalytic subunit PAN2 isoform X1 [KO:K12571] [EC:3.1.13.4]
129537193  PFKM; ATP-dependent 6-phosphofructokinase, muscle type isoform X1 [KO:K00850] [EC:2.7.1.11]
129538049  CNOT9; CCR4-NOT transcription complex subunit 9 [KO:K12606]
129538691  HSPD1; 60 kDa heat shock protein, mitochondrial [KO:K04077] [EC:5.6.1.7]
129539546  PNPT1; polyribonucleotide nucleotidyltransferase 1, mitochondrial isoform X1 [KO:K00962] [EC:2.7.7.8]
129539597  C1D; nuclear nucleic acid-binding protein C1D isoform X1 [KO:K12592]
129539615  EXOSC2; exosome complex component RRP4 isoform X1 [KO:K03679]
129539820  [KO:K13126]
129541081  PABPC4; polyadenylate-binding protein 4 isoform X1 [KO:K13126]
129542348  ENO3; beta-enolase isoform X1 [KO:K01689] [EC:4.2.1.11]
129542553  LSM6; U6 snRNA-associated Sm-like protein LSm6 [KO:K12625]
129542651  PABPC4L; polyadenylate-binding protein 4-like [KO:K13126]
129543122  SKIC2; SKI2 subunit of superkiller complex protein [KO:K12599] [EC:3.6.4.13]
129543466  LSM2; U6 snRNA-associated Sm-like protein LSm2 [KO:K12621]
129544250  TOB1; protein Tob1 [KO:K14443]
129544491  [KO:K12605]
129545355  [KO:K12621]
129545391  PARN; poly(A)-specific ribonuclease PARN isoform X1 [KO:K01148] [EC:3.1.13.4]
129545963  CNOT3; CCR4-NOT transcription complex subunit 3 isoform X1 [KO:K12580]
129546372  DHX36; ATP-dependent DNA/RNA helicase DHX36 [KO:K14442] [EC:3.6.4.13]
129546781  EXOSC5; exosome complex component RRP46 [KO:K12590]
129546931  XRN1; 5'-3' exoribonuclease 1 isoform X1 [KO:K12618] [EC:3.1.13.-]
129546988  EDC4; enhancer of mRNA-decapping protein 4 [KO:K12616]
129547053  CNOT1; CCR4-NOT transcription complex subunit 1 isoform X1 [KO:K12604]
129547120  TENT4B; terminal nucleotidyltransferase 4B [KO:K03514] [EC:2.7.7.19]
129547226  MPHOSPH6; M-phase phosphoprotein 6 isoform X1 [KO:K12593]
129547276  EXOSC6; exosome complex component MTR3 [KO:K12587]
129547700  LSM3; U6 snRNA-associated Sm-like protein LSm3 [KO:K12622]
129547739  EXOSC7; exosome complex component RRP42 [KO:K12589]
129547807  NUDT16; U8 snoRNA-decapping enzyme [KO:K16855] [EC:3.6.1.62 3.6.1.64]
129547931  DCP1A; mRNA-decapping enzyme 1A [KO:K12610] [EC:3.-.-.-]
129548174  CNOT10; CCR4-NOT transcription complex subunit 10 isoform X1 [KO:K12607]
129548422  PFKL; ATP-dependent 6-phosphofructokinase, liver type [KO:K00850] [EC:2.7.1.11]
129548943  DCPS; m7GpppX diphosphatase [KO:K12584] [EC:3.6.1.59]
129549347  CNOT7; CCR4-NOT transcription complex subunit 7 [KO:K12581]
129549402  LSM1; U6 snRNA-associated Sm-like protein LSm1 [KO:K12620]
129550404  SKIC8; SKI8 subunit of superkiller complex protein [KO:K12602]
129550460  EDC3; enhancer of mRNA-decapping protein 3 [KO:K12615]
129551039  [KO:K10643] [EC:2.3.2.27]
129551494  ENO1; alpha-enolase isoform X1 [KO:K01689] [EC:4.2.1.11]
129551532  EXOSC10; exosome component 10 isoform X1 [KO:K12591] [EC:3.1.13.-]
129551789  BTG2; protein BTG2 [KO:K14443]
129552475  LSM5; U6 snRNA-associated Sm-like protein LSm5 [KO:K12624]
129552588  LSM8; LSM8 homolog, U6 small nuclear RNA associated [KO:K12627]
129552675  CNOT4; CCR4-NOT transcription complex subunit 4 isoform X1 [KO:K10643] [EC:2.3.2.27]
129553213  BTG3; protein BTG3 [KO:K14443]
129553252  MTREX; exosome RNA helicase MTR4 [KO:K12598] [EC:3.6.4.13]
129553380  TENT4A; terminal nucleotidyltransferase 4A isoform X1 [KO:K03514] [EC:2.7.7.19]
129553764  BTG4; protein BTG4 [KO:K14443]
129554394  DDX6; probable ATP-dependent RNA helicase DDX6 [KO:K12614] [EC:3.6.4.13]
129554884  PATL1; protein PAT1 homolog 1 [KO:K12617]
129555492  EXOSC1; exosome complex component CSL4 [KO:K07573]
129556321  EXOSC8; exosome complex component RRP43 [KO:K12586]
129556365  PAN3; PAN2-PAN3 deadenylation complex subunit PAN3 isoform X1 [KO:K12572]
129556416  DIS3; exosome complex exonuclease RRP44 isoform X1 [KO:K12585] [EC:3.1.13.-]
129556825  ZCCHC7; zinc finger CCHC domain-containing protein 7 isoform X1 [KO:K12597]
129556834  EXOSC3; exosome complex component RRP40 [KO:K03681]
129558340  SKIC3; SKI3 subunit of superkiller complex protein isoform X1 [KO:K12600]
129558794  LSM7; U6 snRNA-associated Sm-like protein LSm7 [KO:K12626]
129559098  CNOT8; CCR4-NOT transcription complex subunit 8 [KO:K12581]
129559169  LSM4; U6 snRNA-associated Sm-like protein LSm4 [KO:K12623]
129559228  XRN2; 5'-3' exoribonuclease 2 isoform X1 [KO:K12619] [EC:3.1.13.-]
129559302  [KO:K14443]
129559444  HSPA9; stress-70 protein, mitochondrial [KO:K04043]
129559605  CNOT6; CCR4-NOT transcription complex subunit 6 isoform X1 [KO:K12603] [EC:3.1.13.4]
129559779  PFKP; ATP-dependent 6-phosphofructokinase, platelet type [KO:K00850] [EC:2.7.1.11]
129559975  PABPC1; polyadenylate-binding protein 1 [KO:K13126]
129560085  [KO:K13126]
129560245  EXOSC4; exosome complex component RRP41 isoform X1 [KO:K11600]
129561127  [KO:K14443]
129561196  PNLDC1; LOW QUALITY PROTEIN: poly(A)-specific ribonuclease PNLDC1 [KO:K01148] [EC:3.1.13.4]
129561793  EXOSC9; exosome complex component RRP45 isoform X1 [KO:K03678]
129562123  [KO:K12615]
129562483  DIS3L; DIS3-like exonuclease 1 [KO:K18681] [EC:3.1.13.-]
129563419  DCP2; m7GpppN-mRNA hydrolase [KO:K12613] [EC:3.6.1.62]
129564057  PABPC1L; polyadenylate-binding protein 1-like [KO:K13126]
129564414  PABPC5; polyadenylate-binding protein 5 [KO:K13126]
129564533  [KO:K13126]
129564544  [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
mbez03015  mRNA surveillance pathway
KO pathway
ko03018   

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