KEGG   PATHWAY: pcoc03015
Entry
pcoc03015                   Pathway                                
Name
mRNA surveillance pathway - Phasianus colchicus (Ring-necked pheasant)
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
pcoc03015  mRNA surveillance pathway
pcoc03015

Other DBs
GO: 0071028
Organism
Phasianus colchicus (Ring-necked pheasant) [GN:pcoc]
Gene
116225784  PPP2R2C; protein phosphatase 2, regulatory subunit B, gamma isoform X1 [KO:K04354]
116225912  FIP1L1; pre-mRNA 3'-end-processing factor FIP1 isoform X1 [KO:K14405]
116226227  RNMT; mRNA cap guanine-N7 methyltransferase [KO:K00565] [EC:2.1.1.56]
116226590  CPSF6; cleavage and polyadenylation specificity factor subunit 6 isoform X1 [KO:K14398]
116227574  PABPC1L; polyadenylate-binding protein 1-like isoform X1 [KO:K13126]
116227651  PABPC1; polyadenylate-binding protein 1 [KO:K13126]
116227920  MSI2; RNA-binding protein Musashi homolog 2 isoform X1 [KO:K14411]
116228077  SMG6; telomerase-binding protein EST1A isoform X1 [KO:K11124] [EC:3.1.-.-]
116228420  MSI1; RNA-binding protein Musashi homolog 1 isoform X1 [KO:K14411]
116228591  PPP1CC; serine/threonine-protein phosphatase PP1-gamma catalytic subunit [KO:K06269] [EC:3.1.3.16]
116228842  PPP2R5C; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit gamma isoform isoform X1 [KO:K11584]
116228868  PAPOLA; poly(A) polymerase alpha isoform X1 [KO:K14376] [EC:2.7.7.19]
116228900  CPSF2; cleavage and polyadenylation specificity factor subunit 2 [KO:K14402]
116229070  CLP1; polyribonucleotide 5'-hydroxyl-kinase Clp1 [KO:K14399] [EC:2.7.1.78]
116229363  PPP2R3C; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit gamma [KO:K11583]
116229379  PNN; pinin [KO:K13114]
116229604  [KO:K12883]
116229659  CSTF2; cleavage stimulation factor subunit 2 isoform X1 [KO:K14407]
116229738  [KO:K14405]
116229780  PPP1CB; serine/threonine-protein phosphatase PP1-beta catalytic subunit [KO:K06269] [EC:3.1.3.16]
116229781  NXT2; NTF2-related export protein 2 isoform X1 [KO:K14285]
116229944  PABPC4; polyadenylate-binding protein 4 isoform X1 [KO:K13126]
116230063  SRRM1; serine/arginine repetitive matrix protein 1 isoform X1 [KO:K13171]
116230200  PAPOLG; poly(A) polymerase gamma isoform X1 [KO:K14376] [EC:2.7.7.19]
116230318  RNPS1; RNA-binding protein with serine-rich domain 1 [KO:K14325]
116230345  PPP2R5A; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit alpha isoform isoform X1 [KO:K11584]
116230404  SMG7; protein SMG7 isoform X1 [KO:K14409]
116230794  PPP2R3B; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit beta [KO:K11583]
116230870  [KO:K12883]
116231037  PPP2R3A; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit alpha isoform X1 [KO:K11583]
116231462  EIF4A3; eukaryotic initiation factor 4A-III [KO:K13025] [EC:5.6.2.7]
116231516  PPP2R2D; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B delta isoform isoform X1 [KO:K04354]
116231967  ETF1; eukaryotic peptide chain release factor subunit 1 [KO:K03265]
116232217  PPP2CA; serine/threonine-protein phosphatase 2A catalytic subunit alpha isoform [KO:K04382] [EC:3.1.3.16]
116232273  PPP2R2B; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B beta isoform isoform X1 [KO:K04354]
116232560  ALYREF; THO complex subunit 4 [KO:K12881]
116233641  CASC3; protein CASC3 isoform X1 [KO:K14323]
116234210  GLE1; nucleoporin GLE1 [KO:K18723]
116234886  MAGOH; protein mago nashi homolog [KO:K12877]
116234889  UPF3B; regulator of nonsense transcripts 3B [KO:K14328]
116235295  PPP2R5D; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit delta isoform isoform X1 [KO:K11584]
116235731  UPF1; regulator of nonsense transcripts 1 isoform X1 [KO:K14326] [EC:5.6.2.5 5.6.2.3]
116235786  DAZAP1; DAZ-associated protein 1 isoform X1 [KO:K14411]
116236376  WDR33; pre-mRNA 3' end processing protein WDR33 isoform X1 [KO:K15542]
116236499  UPF3A; regulator of nonsense transcripts 3A isoform X1 [KO:K14328]
116236797  PPP2R5E; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit epsilon isoform isoform X1 [KO:K11584]
116237461  CPSF4; cleavage and polyadenylation specificity factor subunit 4 [KO:K14404]
116237577  SMG1; serine/threonine-protein kinase SMG1 isoform X1 [KO:K08873] [EC:2.7.11.1]
116237579  GSPT1; eukaryotic peptide chain release factor GTP-binding subunit ERF3A [KO:K03267]
116237875  UPF2; regulator of nonsense transcripts 2 [KO:K14327]
116237948  CSTF3; cleavage stimulation factor subunit 3 [KO:K14408]
116238029  PPP2CB; serine/threonine-protein phosphatase 2A catalytic subunit beta isoform [KO:K04382] [EC:3.1.3.16]
116238391  PPP2R2A; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform isoform X1 [KO:K04354]
116238819  SMG5; protein SMG5 [KO:K11125]
116239270  PYM1; partner of Y14 and mago [KO:K14294]
116239357  PELO; protein pelota homolog [KO:K06965]
116239466  NCBP1; nuclear cap-binding protein subunit 1 [KO:K12882]
116239770  [KO:K14401]
116239937  FUS; RNA-binding protein FUS [KO:K13098]
116240394  HBS1L; HBS1-like protein isoform X1 [KO:K14416]
116240406  CPSF3; cleavage and polyadenylation specificity factor subunit 3 isoform X1 [KO:K14403] [EC:3.1.27.-]
116240660  RNGTT; mRNA-capping enzyme isoform X1 [KO:K13917] [EC:2.7.7.50 3.6.1.74]
116241060  WDR82; WD repeat-containing protein 82 [KO:K14962]
116241275  RBM8A; RNA-binding protein 8A [KO:K12876]
116241931  PCF11; pre-mRNA cleavage complex 2 protein Pcf11 isoform X1 [KO:K14400]
116242634  TARDBP; TAR DNA-binding protein 43 [KO:K23600]
116242648  SSU72; RNA polymerase II subunit A C-terminal domain phosphatase SSU72 [KO:K15544] [EC:3.1.3.16]
116242731  [KO:K18655] [EC:5.6.2.7]
116243020  PPP1CA; serine/threonine-protein phosphatase PP1-alpha catalytic subunit [KO:K06269] [EC:3.1.3.16]
116243028  CPSF7; cleavage and polyadenylation specificity factor subunit 7 [KO:K14398]
116243582  NUDT21; cleavage and polyadenylation specificity factor subunit 5 [KO:K14397]
116243927  PABPN1L; embryonic polyadenylate-binding protein 2 [KO:K14396]
116244180  SAP18; histone deacetylase complex subunit SAP18 [KO:K14324]
116244552  CSTF1; cleavage stimulation factor subunit 1 [KO:K14406]
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
pcoc03013  Nucleocytoplasmic transport
pcoc03018  RNA degradation
pcoc03040  Spliceosome
KO pathway
ko03015   

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