KEGG   PATHWAY: apla03015
Entry
apla03015                   Pathway                                
Name
mRNA surveillance pathway - Anas platyrhynchos (mallard)
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
apla03015  mRNA surveillance pathway
apla03015

Other DBs
GO: 0071028
Organism
Anas platyrhynchos (mallard) [GN:apla]
Gene
101793205  NCBP1; nuclear cap-binding protein subunit 1 [KO:K12882]
101798009  nuclear cap-binding protein subunit 2 [KO:K12883]
113844723  nuclear cap-binding protein subunit 2 [KO:K12883]
101790864  UPF3B; regulator of nonsense transcripts 3B [KO:K14328]
101796815  UPF3A; regulator of nonsense transcripts 3A isoform X1 [KO:K14328]
119715424  RBM8A; LOW QUALITY PROTEIN: RNA-binding protein 8A [KO:K12876]
101802448  MAGOH; protein mago nashi homolog [KO:K12877]
119715209  CASC3; protein CASC3 isoform X1 [KO:K14323]
101802807  EIF4A3; eukaryotic initiation factor 4A-III [KO:K13025] [EC:5.6.2.7]
101790891  histone deacetylase complex subunit SAP18 [KO:K14324]
119716050  histone deacetylase complex subunit SAP18 [KO:K14324]
101797000  PNN; pinin [KO:K13114]
101800387  RNPS1; RNA-binding protein with serine-rich domain 1 isoform X1 [KO:K14325]
119713134  ALYREF; THO complex subunit 4 [KO:K12881]
101805188  ATP-dependent RNA helicase DDX19B [KO:K18655] [EC:5.6.2.7]
101791932  GLE1; LOW QUALITY PROTEIN: nucleoporin GLE1 [KO:K18723]
119715097  NXF1; nuclear RNA export factor 1 [KO:K14284]
101799293  NXT2; NTF2-related export protein 2 isoform X4 [KO:K14285]
119713612  SRRM1; serine/arginine repetitive matrix protein 1 isoform X1 [KO:K13171]
101797459  RNGTT; mRNA-capping enzyme isoform X3 [KO:K13917] [EC:2.7.7.50 3.6.1.74]
101799369  RNMT; mRNA cap guanine-N7 methyltransferase [KO:K00565] [EC:2.1.1.56]
101801785  LOW QUALITY PROTEIN: TAR DNA-binding protein 43 [KO:K23600]
101791322  PABPN1L; LOW QUALITY PROTEIN: embryonic polyadenylate-binding protein 2 [KO:K14396]
101805298  NUDT21; cleavage and polyadenylation specificity factor subunit 5 [KO:K14397]
101791371  CPSF6; cleavage and polyadenylation specificity factor subunit 6 isoform X1 [KO:K14398]
119717079  CPSF7; LOW QUALITY PROTEIN: cleavage and polyadenylation specificity factor subunit 7 [KO:K14398]
101789407  PAPOLA; poly(A) polymerase alpha isoform X1 [KO:K14376] [EC:2.7.7.19]
101804019  PAPOLG; poly(A) polymerase gamma isoform X2 [KO:K14376] [EC:2.7.7.19]
119717231  CLP1; LOW QUALITY PROTEIN: polyribonucleotide 5'-hydroxyl-kinase Clp1 [KO:K14399] [EC:2.7.1.78]
119717123  pre-mRNA cleavage complex 2 protein Pcf11-like [KO:K14400]
101796454  pre-mRNA cleavage complex 2 protein Pcf11 isoform X1 [KO:K14400]
101800700  CPSF2; cleavage and polyadenylation specificity factor subunit 2 [KO:K14402]
101803425  CPSF3; cleavage and polyadenylation specificity factor subunit 3 isoform X1 [KO:K14403] [EC:3.1.27.-]
101804883  CPSF4; cleavage and polyadenylation specificity factor subunit 4 [KO:K14404]
101795560  pre-mRNA 3'-end-processing factor FIP1 [KO:K14405]
101797106  FIP1L1; pre-mRNA 3'-end-processing factor FIP1 isoform X1 [KO:K14405]
101793678  WDR33; pre-mRNA 3' end processing protein WDR33 isoform X1 [KO:K15542]
101794026  WDR82; WD repeat-containing protein 82 [KO:K14962]
101798783  PPP1CB; serine/threonine-protein phosphatase PP1-beta catalytic subunit [KO:K06269] [EC:3.1.3.16]
119717225  PPP1CA; serine/threonine-protein phosphatase PP1-alpha catalytic subunit [KO:K06269] [EC:3.1.3.16]
119718491  PPP1CC; serine/threonine-protein phosphatase PP1-gamma catalytic subunit [KO:K06269] [EC:3.1.3.16]
101797682  SSU72; RNA polymerase II subunit A C-terminal domain phosphatase SSU72 [KO:K15544] [EC:3.1.3.16]
101795508  CSTF1; cleavage stimulation factor subunit 1 isoform X2 [KO:K14406]
101799783  CSTF2; cleavage stimulation factor subunit 2 isoform X1 [KO:K14407]
101797481  CSTF3; cleavage stimulation factor subunit 3 [KO:K14408]
101804389  DAZAP1; DAZ-associated protein 1 isoform X1 [KO:K14411]
101801167  MSI1; RNA-binding protein Musashi homolog 1 isoform X1 [KO:K14411]
101797149  MSI2; RNA-binding protein Musashi homolog 2 isoform X1 [KO:K14411]
101802732  PABPC4; polyadenylate-binding protein 4 isoform X2 [KO:K13126]
101794091  PABPC1; polyadenylate-binding protein 1 isoform X1 [KO:K13126]
101790139  PABPC1L; polyadenylate-binding protein 1-like isoform X1 [KO:K13126]
101796761  ETF1; eukaryotic peptide chain release factor subunit 1 [KO:K03265]
101800945  GSPT1; eukaryotic peptide chain release factor GTP-binding subunit ERF3A isoform X1 [KO:K03267]
101804967  UPF1; regulator of nonsense transcripts 1 isoform X1 [KO:K14326] [EC:5.6.2.5 5.6.2.3]
101798229  UPF2; regulator of nonsense transcripts 2 isoform X1 [KO:K14327]
101804814  SMG1; serine/threonine-protein kinase SMG1 isoform X1 [KO:K08873] [EC:2.7.11.1]
101800923  SMG7; protein SMG7 isoform X1 [KO:K14409]
101798513  SMG5; protein SMG5 isoform X1 [KO:K11125]
101800071  SMG6; LOW QUALITY PROTEIN: telomerase-binding protein EST1A [KO:K11124] [EC:3.1.-.-]
101799879  PPP2CB; serine/threonine-protein phosphatase 2A catalytic subunit beta isoform [KO:K04382] [EC:3.1.3.16]
101803206  PPP2CA; serine/threonine-protein phosphatase 2A catalytic subunit alpha isoform [KO:K04382] [EC:3.1.3.16]
101798527  PPP2R2D; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B delta isoform isoform X2 [KO:K04354]
101801149  PPP2R2C; protein phosphatase 2, regulatory subunit B, gamma isoform X1 [KO:K04354]
101797307  PPP2R2B; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B beta isoform isoform X1 [KO:K04354]
119713486  PPP2R2A; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform isoform X1 [KO:K04354]
101799318  PPP2R3B; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit beta isoform X1 [KO:K11583]
101790145  PPP2R3A; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit alpha isoform X5 [KO:K11583]
101791033  PPP2R3C; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit gamma isoform X1 [KO:K11583]
101800061  PPP2R5E; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit epsilon isoform isoform X3 [KO:K11584]
101804035  PPP2R5D; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit delta isoform isoform X1 [KO:K11584]
101800824  PPP2R5C; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit gamma isoform isoform X3 [KO:K11584]
101801968  PPP2R5A; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit alpha isoform [KO:K11584]
101802923  HBS1L; HBS1-like protein [KO:K14416]
119714365  PELO; protein pelota homolog [KO:K06965]
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
apla03013  Nucleocytoplasmic transport
apla03018  RNA degradation
apla03040  Spliceosome
KO pathway
ko03015   
LinkDB

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