KEGG   PATHWAY: ptr03015Help
Entry
ptr03015                    Pathway                                

Name
mRNA surveillance pathway - Pan troglodytes (chimpanzee)
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
BRITE hierarchy
Pathway map
ptr03015  mRNA surveillance pathway
ptr03015

Ortholog table
Module
ptr_M00399  Cap binding complex [PATH:ptr03015]
ptr_M00430  Exon junction complex (EJC) [PATH:ptr03015]
Other DBs
BSID: 193313
GO: 0071028
Organism
Pan troglodytes (chimpanzee) [GN:ptr]
Gene
464601  NCBP1; nuclear cap-binding protein subunit 1 isoform X1 [KO:K12882]
460966  NCBP2; nuclear cap-binding protein subunit 2 isoform X1 [KO:K12883]
452689  UPF3A; regulator of nonsense transcripts 3A isoform X1 [KO:K14328]
465954  UPF3B; regulator of nonsense transcripts 3B isoform X1 [KO:K14328]
457983  RBM8A; RNA-binding protein 8A isoform X1 [KO:K12876]
736868  protein mago nashi homolog [KO:K12877]
100613301  MAGOHB; protein mago nashi homolog 2 isoform X2 [KO:K12877]
104001049  MAGOH; protein mago nashi homolog [KO:K12877]
454646  CASC3; protein CASC3 isoform X1 [KO:K14323]
454941  EIF4A3; eukaryotic initiation factor 4A-III [KO:K13025] [EC:3.6.4.13]
742589  eukaryotic initiation factor 4A-III [KO:K13025] [EC:3.6.4.13]
452467  SAP18; histone deacetylase complex subunit SAP18 [KO:K14324]
452875  PNN; pinin isoform X1 [KO:K13114]
452792  ACIN1; apoptotic chromatin condensation inducer in the nucleus isoform X7 [KO:K12875]
750086  RNPS1; RNA-binding protein with serine-rich domain 1 [KO:K14325]
744649  ALYREF; THO complex subunit 4 [KO:K12881]
451267  NXF1; nuclear RNA export factor 1 [KO:K14284]
735423  nuclear RNA export factor 2 [KO:K14284]
465774  NXF3; nuclear RNA export factor 3 [KO:K14284]
100610724  NXF5; nuclear RNA export factor 5 [KO:K14284]
100611904  LOW QUALITY PROTEIN: nuclear RNA export factor 2-like [KO:K14284]
458138  NXT1; NTF2-related export protein 1 [KO:K14285]
473728  NXT2; NTF2-related export protein 2 isoform X1 [KO:K14285]
463180  DDX39B; spliceosome RNA helicase DDX39B [KO:K12812] [EC:3.6.4.13]
451975  PYM1; partner of Y14 and mago isoform X1 [KO:K14294]
456632  SRRM1; serine/arginine repetitive matrix protein 1 isoform X11 [KO:K13171]
462878  RNGTT; mRNA-capping enzyme isoform X2 [KO:K13917] [EC:3.6.1.- 2.7.7.50]
455501  RNMT; mRNA cap guanine-N7 methyltransferase isoform X2 [KO:K00565] [EC:2.1.1.56]
452797  polyadenylate-binding protein 2 isoform X1 [KO:K14396]
100612015  PABPN1L; embryonic polyadenylate-binding protein 2 isoform X1 [KO:K14396]
454100  NUDT21; cleavage and polyadenylation specificity factor subunit 5 [KO:K14397]
452068  CPSF6; cleavage and polyadenylation specificity factor subunit 6 isoform X4 [KO:K14398]
451237  CPSF7; cleavage and polyadenylation specificity factor subunit 7 isoform X4 [KO:K14398]
459259  PAPOLG; poly(A) polymerase gamma isoform X3 [KO:K14376] [EC:2.7.7.19]
100610673  PAPOLB; poly(A) polymerase beta [KO:K14376] [EC:2.7.7.19]
100614622  PAPOLA; poly(A) polymerase alpha isoform X1 [KO:K14376] [EC:2.7.7.19]
451198  CLP1; polyribonucleotide 5'-hydroxyl-kinase Clp1 [KO:K14399] [EC:2.7.1.78]
451458  PCF11; pre-mRNA cleavage complex 2 protein Pcf11 isoform X1 [KO:K14400]
738846  CPSF2; cleavage and polyadenylation specificity factor subunit 2 isoform X1 [KO:K14402]
459017  CPSF3; cleavage and polyadenylation specificity factor subunit 3 [KO:K14403] [EC:3.1.27.-]
463572  CPSF4; cleavage and polyadenylation specificity factor subunit 4 isoform X2 [KO:K14404]
107974320  FIP1L1; pre-mRNA 3'-end-processing factor FIP1 isoform X1 [KO:K14405]
470527  WDR33; pre-mRNA 3' end processing protein WDR33 isoform X1 [KO:K15542]
460419  WDR82; WD repeat-containing protein 82 [KO:K14962]
462795  PPP1CC; serine/threonine-protein phosphatase PP1-gamma catalytic subunit [KO:K06269] [EC:3.1.3.16]
745709  PPP1CA; serine/threonine-protein phosphatase PP1-alpha catalytic subunit [KO:K06269] [EC:3.1.3.16]
743656  serine/threonine-protein phosphatase PP1-gamma catalytic subunit [KO:K06269] [EC:3.1.3.16]
459118  PPP1CB; serine/threonine-protein phosphatase PP1-beta catalytic subunit isoform X1 [KO:K06269] [EC:3.1.3.16]
742879  SSU72; RNA polymerase II subunit A C-terminal domain phosphatase SSU72 [KO:K15544] [EC:3.1.3.16]
472500  RNA polymerase II subunit A C-terminal domain phosphatase SSU72 [KO:K15544] [EC:3.1.3.16]
100610308  CSTF1; cleavage stimulation factor subunit 1 [KO:K14406]
473699  CSTF2; cleavage stimulation factor subunit 2 isoform X3 [KO:K14407]
450463  CSTF2T; cleavage stimulation factor subunit 2 tau variant [KO:K14407]
451108  CSTF3; cleavage stimulation factor subunit 3 [KO:K14408]
456142  SYMPK; symplekin [KO:K06100]
455549  DAZAP1; DAZ-associated protein 1 isoform X1 [KO:K14411]
748578  MSI2; RNA-binding protein Musashi homolog 2 isoform X1 [KO:K14411]
452305  MSI1; RNA-binding protein Musashi homolog 1 isoform X1 [KO:K14411]
465742  PABPC5; polyadenylate-binding protein 5 [KO:K13126]
458273  PABPC1L; polyadenylate-binding protein 1-like isoform X3 [KO:K13126]
452494  PABPC3; polyadenylate-binding protein 3 [KO:K13126]
471308  PABPC4L; polyadenylate-binding protein 4-like isoform X1 [KO:K13126]
456782  PABPC4; polyadenylate-binding protein 4 isoform X2 [KO:K13126]
464318  PABPC1; polyadenylate-binding protein 1 [KO:K13126]
100615000  polyadenylate-binding protein 1-like 2 [KO:K13126]
462098  ETF1; eukaryotic peptide chain release factor subunit 1 isoform X1 [KO:K03265]
742431  GSPT2; eukaryotic peptide chain release factor GTP-binding subunit ERF3B [KO:K03267]
454075  GSPT1; eukaryotic peptide chain release factor GTP-binding subunit ERF3A isoform X1 [KO:K03267]
456373  UPF1; regulator of nonsense transcripts 1 isoform X1 [KO:K14326] [EC:3.6.4.-]
450304  UPF2; regulator of nonsense transcripts 2 [KO:K14327]
453961  SMG1; serine/threonine-protein kinase SMG1 isoform X1 [KO:K08873] [EC:2.7.11.1]
457572  SMG7; protein SMG7 isoform X1 [KO:K14409]
107968716  SMG5; protein SMG5 isoform X1 [KO:K11125]
454417  SMG6; telomerase-binding protein EST1A isoform X1 [KO:K11124] [EC:3.1.-.-]
464100  PPP2CB; serine/threonine-protein phosphatase 2A catalytic subunit beta isoform [KO:K04382] [EC:3.1.3.16]
471633  serine/threonine-protein phosphatase 2A catalytic subunit alpha isoform [KO:K04382] [EC:3.1.3.16]
100614247  PPP2CA; serine/threonine-protein phosphatase 2A catalytic subunit alpha isoform [KO:K04382] [EC:3.1.3.16]
468983  PPP2R1A; serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A alpha isoform [KO:K03456]
466778  PPP2R1B; serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A beta isoform [KO:K03456]
464068  PPP2R2A; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform isoform X1 [KO:K04354]
462170  PPP2R2B; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B beta isoform isoform X5 [KO:K04354]
466265  PPP2R2D; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B delta isoform isoform X5 [KO:K04354]
461101  PPP2R2C; protein phosphatase 2, regulatory subunit B, gamma isoform X6 [KO:K04354]
452859  PPP2R3C; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit gamma [KO:K11583]
460715  PPP2R3A; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit alpha isoform X3 [KO:K11583]
107972993  LOW QUALITY PROTEIN: serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit beta-like [KO:K11583]
453170  PPP2R5C; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit gamma isoform [KO:K11584]
462705  PPP2R5D; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit delta isoform [KO:K11584]
457716  PPP2R5A; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit alpha isoform [KO:K11584]
452962  PPP2R5E; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit epsilon isoform [KO:K11584]
451305  PPP2R5B; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit beta isoform isoform X1 [KO:K11584]
463015  HBS1L; HBS1-like protein isoform X1 [KO:K14416]
104001088  PELO; protein pelota homolog [KO:K06965]
Reference
  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
  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
  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
  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
  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
KO pathway
ko03015   
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