KEGG   PATHWAY: vlg03015
Entry
vlg03015                    Pathway                                
Name
mRNA surveillance pathway - Vulpes lagopus (Arctic fox)
Description
The mRNA surveillance pathway is a quality control mechanism that detects and degrades abnormal mRNAs. These pathways include nonsense-mediated mRNA decay (NMD), nonstop mRNA decay (NSD), and no-go decay (NGD). NMD is a mechanism that eliminates mRNAs containing premature translation-termination codons (PTCs). In vertebrates, PTCs trigger efficient NMD when located upstream of an exon junction complex (EJC). Upf3, together with Upf1 and Upf2, may signal the presence of the PTC to the 5'end of the transcript, resulting in decapping and rapid exonucleolytic digestion of the mRNA. In the NSD pathway, which targets mRNAs lacking termination codons, the ribosome is believed to translate through the 3' untranslated region and stall at the end of the poly(A) tail. NSD involves an eRF3-like protein, Ski7p, which is hypothesized to bind the empty A site of the ribosome and recruit the exosome to degrade the mRNA from the 3' end. NGD targets mRNAs with stalls in translation elongation for endonucleolytic cleavage in a process involving the Dom34 and Hbs1 proteins.
Class
Genetic Information Processing; Translation
Pathway map
vlg03015  mRNA surveillance pathway
vlg03015

Other DBs
GO: 0071028
Organism
Vulpes lagopus (Arctic fox) [GN:vlg]
Gene
121471446  PPP2R5B; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit beta isoform isoform X1 [KO:K11584]
121472051  PPP1CA; serine/threonine-protein phosphatase PP1-alpha catalytic subunit [KO:K06269] [EC:3.1.3.16]
121472097  [KO:K12877]
121472680  CPSF4L; putative cleavage and polyadenylation specificity factor subunit 4-like protein [KO:K14404]
121472750  MSI2; RNA-binding protein Musashi homolog 2 isoform X1 [KO:K14411]
121472893  FIP1L1; pre-mRNA 3'-end-processing factor FIP1 isoform X1 [KO:K14405]
121472968  SMG6; telomerase-binding protein EST1A isoform X1 [KO:K11124] [EC:3.1.-.-]
121473667  CASC3; protein CASC3 [KO:K14323]
121474034  ALYREF; THO complex subunit 4 [KO:K12881]
121474121  [KO:K18723]
121474161  EIF4A3; eukaryotic initiation factor 4A-III [KO:K13025] [EC:5.6.2.7]
121475260  MSI1; RNA-binding protein Musashi homolog 1 isoform X1 [KO:K14411]
121475295  PPP1CC; serine/threonine-protein phosphatase PP1-gamma catalytic subunit isoform X1 [KO:K06269] [EC:3.1.3.16]
121475371  CSTF2T; cleavage stimulation factor subunit 2 tau variant [KO:K14407]
121476060  [KO:K15544] [EC:3.1.3.16]
121476249  PCF11; pre-mRNA cleavage complex 2 protein Pcf11 isoform X1 [KO:K14400]
121476865  UPF3A; regulator of nonsense transcripts 3A isoform X1 [KO:K14328]
121478246  CSTF1; cleavage stimulation factor subunit 1 [KO:K14406]
121478297  PABPC1L; polyadenylate-binding protein 1-like isoform X1 [KO:K13126]
121478450  NXT1; NTF2-related export protein 1 [KO:K14285]
121478731  PPP2R3A; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit alpha isoform X1 [KO:K11583]
121479033  [KO:K15544] [EC:3.1.3.16]
121479074  [KO:K14324]
121480265  MAGOHB; protein mago nashi homolog 2 [KO:K12877]
121481340  [KO:K12877]
121481544  PABPC4; polyadenylate-binding protein 4 isoform X1 [KO:K13126]
121481877  [KO:K14284]
121482034  RNMT; mRNA cap guanine-N7 methyltransferase [KO:K00565] [EC:2.1.1.56]
121482145  WDR33; pre-mRNA 3' end processing protein WDR33 isoform X1 [KO:K15542]
121482368  PABPC5; polyadenylate-binding protein 5 [KO:K13126]
121482407  [KO:K15544] [EC:3.1.3.16]
121482548  [KO:K13126]
121482609  NCBP2L; nuclear cap-binding protein subunit 2-like [KO:K12883]
121482676  [KO:K14284]
121482818  UPF3B; regulator of nonsense transcripts 3B isoform X1 [KO:K14328]
121482889  PPP2R3B; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit beta isoform X1 [KO:K11583]
121483409  [KO:K14284]
121483425  [KO:K14284]
121483494  CSTF2; cleavage stimulation factor subunit 2 isoform X1 [KO:K14407]
121483516  GSPT2; eukaryotic peptide chain release factor GTP-binding subunit ERF3B isoform X1 [KO:K03267]
121483609  NXT2; NTF2-related export protein 2 [KO:K14285]
121484411  PPP2R2D; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B delta isoform isoform X1 [KO:K04354]
121484445  PPP2R1A; serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A alpha isoform isoform X1 [KO:K03456]
121485397  HBS1L; HBS1-like protein isoform X1 [KO:K14416]
121485416  SMG5; protein SMG5 isoform X1 [KO:K11125]
121485640  SYMPK; symplekin isoform X1 [KO:K06100]
121486472  GSPT1; eukaryotic peptide chain release factor GTP-binding subunit ERF3A isoform X1 [KO:K03267]
121486629  RNPS1; RNA-binding protein with serine-rich domain 1 isoform X1 [KO:K14325]
121486731  PELO; protein pelota homolog [KO:K06965]
121487335  PAPOLB; poly(A) polymerase beta [KO:K14376] [EC:2.7.7.19]
121487657  FUS; RNA-binding protein FUS isoform X1 [KO:K13098]
121487745  CPSF4; cleavage and polyadenylation specificity factor subunit 4 isoform X1 [KO:K14404]
121487964  SMG1; serine/threonine-protein kinase SMG1 isoform X1 [KO:K08873] [EC:2.7.11.1]
121489323  [KO:K13098]
121489390  [KO:K13171]
121489947  PPP2CB; serine/threonine-protein phosphatase 2A catalytic subunit beta isoform [KO:K04382] [EC:3.1.3.16]
121490126  PPP2R2C; protein phosphatase 2, regulatory subunit B, gamma isoform X1 [KO:K04354]
121490872  CPSF6; cleavage and polyadenylation specificity factor subunit 6 isoform X1 [KO:K14398]
121491037  PPP1CB; serine/threonine-protein phosphatase PP1-beta catalytic subunit [KO:K06269] [EC:3.1.3.16]
121491110  SMG7; protein SMG7 isoform X1 [KO:K14409]
121491112  RBM8A; RNA-binding protein 8A isoform X1 [KO:K12876]
121491285  CPSF3; cleavage and polyadenylation specificity factor subunit 3 isoform X1 [KO:K14403] [EC:3.1.27.-]
121491645  PAPOLG; poly(A) polymerase gamma isoform X1 [KO:K14376] [EC:2.7.7.19]
121492105  PYM1; partner of Y14 and mago [KO:K14294]
121492115  PPP2R5A; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit alpha isoform isoform X1 [KO:K11584]
121492454  PAPOLA; poly(A) polymerase alpha isoform X1 [KO:K14376] [EC:2.7.7.19]
121492564  PABPC4L; polyadenylate-binding protein 4-like [KO:K13126]
121492894  ACIN1; apoptotic chromatin condensation inducer in the nucleus isoform X1 [KO:K12875]
121493034  PPP2R5E; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit epsilon isoform isoform X1 [KO:K11584]
121493057  PPP2R5D; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit delta isoform [KO:K11584]
121493191  CPSF2; cleavage and polyadenylation specificity factor subunit 2 [KO:K14402]
121493453  PPP2R5C; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit gamma isoform isoform X1 [KO:K11584]
121493493  PPP2R3C; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit gamma isoform X1 [KO:K11583]
121493606  PNN; pinin [KO:K13114]
121493843  [KO:K14396]
121494455  UPF1; regulator of nonsense transcripts 1 isoform X1 [KO:K14326] [EC:5.6.2.5 5.6.2.3]
121495108  DDX39B; spliceosome RNA helicase DDX39B isoform X1 [KO:K12812] [EC:5.6.2.7]
121495383  ETF1; eukaryotic peptide chain release factor subunit 1 [KO:K03265]
121495460  NCBP1; nuclear cap-binding protein subunit 1 [KO:K12882]
121495605  DAZAP1; DAZ-associated protein 1 isoform X1 [KO:K14411]
121495681  PPP2CA; serine/threonine-protein phosphatase 2A catalytic subunit alpha isoform [KO:K04382] [EC:3.1.3.16]
121495917  WDR82; WD repeat-containing protein 82 [KO:K14962]
121496718  [KO:K23600]
121496949  PPP2R2A; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform isoform X1 [KO:K04354]
121497098  SRRM1; serine/arginine repetitive matrix protein 1 isoform X1 [KO:K13171]
121497242  UPF2; regulator of nonsense transcripts 2 isoform X1 [KO:K14327]
121497471  PPP2R2B; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B beta isoform isoform X1 [KO:K04354]
121497572  SAP18; histone deacetylase complex subunit SAP18 [KO:K14324]
121497834  [KO:K13171]
121498606  NCBP2; nuclear cap-binding protein subunit 2 isoform X1 [KO:K12883]
121498673  CPSF1; cleavage and polyadenylation specificity factor subunit 1 isoform X1 [KO:K14401]
121498942  PABPC1; polyadenylate-binding protein 1 [KO:K13126]
121499530  MAGOH; protein mago nashi homolog [KO:K12877]
121499587  PPP2R1B; serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A beta isoform isoform X1 [KO:K03456]
121499805  SSU72; RNA polymerase II subunit A C-terminal domain phosphatase SSU72 [KO:K15544] [EC:3.1.3.16]
121500134  DDX19B; ATP-dependent RNA helicase DDX19B isoform X1 [KO:K18655] [EC:5.6.2.7]
121500237  RNGTT; mRNA-capping enzyme [KO:K13917] [EC:2.7.7.50 3.6.1.74]
121500524  [KO:K18655] [EC:5.6.2.7]
121500948  PABPN1L; LOW QUALITY PROTEIN: embryonic polyadenylate-binding protein 2 [KO:K14396]
121501317  CLP1; polyribonucleotide 5'-hydroxyl-kinase Clp1 [KO:K14399] [EC:2.7.1.78]
121501530  NXF1; nuclear RNA export factor 1 [KO:K14284]
121501772  CPSF7; cleavage and polyadenylation specificity factor subunit 7 isoform X1 [KO:K14398]
121501814  CSTF3; cleavage stimulation factor subunit 3 [KO:K14408]
Reference
PMID:15040442
  Authors
Maquat LE
  Title
Nonsense-mediated mRNA decay: splicing, translation and mRNP dynamics.
  Journal
Nat Rev Mol Cell Biol 5:89-99 (2004)
DOI:10.1038/nrm1310
Reference
PMID:16723977
  Authors
Amrani N, Sachs MS, Jacobson A
  Title
Early nonsense: mRNA decay solves a translational problem.
  Journal
Nat Rev Mol Cell Biol 7:415-25 (2006)
DOI:10.1038/nrm1942
Reference
PMID:17183357
  Authors
Eulalio A, Behm-Ansmant I, Izaurralde E
  Title
P bodies: at the crossroads of post-transcriptional pathways.
  Journal
Nat Rev Mol Cell Biol 8:9-22 (2007)
DOI:10.1038/nrm2080
Reference
PMID:18158581
  Authors
Mandel CR, Bai Y, Tong L
  Title
Protein factors in pre-mRNA 3'-end processing.
  Journal
Cell Mol Life Sci 65:1099-122 (2008)
DOI:10.1007/s00018-007-7474-3
Reference
PMID:16715045
  Authors
Clement SL, Lykke-Andersen J
  Title
No mercy for messages that mess with the ribosome.
  Journal
Nat Struct Mol Biol 13:299-301 (2006)
DOI:10.1038/nsmb0406-299
Related
pathway
vlg03013  Nucleocytoplasmic transport
vlg03018  RNA degradation
vlg03040  Spliceosome
KO pathway
ko03015   

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