KEGG   PATHWAY: oma03015
Entry
oma03015                    Pathway                                
Name
mRNA surveillance pathway - Oenanthe melanoleuca (Eastern black-eared wheatear)
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
oma03015  mRNA surveillance pathway
oma03015

Other DBs
GO: 0071028
Organism
Oenanthe melanoleuca (Eastern black-eared wheatear) [GN:oma]
Gene
130264809  NCBP1; nuclear cap-binding protein subunit 1 [KO:K12882]
130253267  NCBP2; nuclear cap-binding protein subunit 2 [KO:K12883]
130266569  UPF3A; regulator of nonsense transcripts 3A isoform X1 [KO:K14328]
130253143  UPF3B; regulator of nonsense transcripts 3B [KO:K14328]
130263455  RBM8A; RNA-binding protein 8A [KO:K12876]
130255948  MAGOH; protein mago nashi homolog [KO:K12877]
130263870  CASC3; protein CASC3 isoform X1 [KO:K14323]
130251131  EIF4A3; eukaryotic initiation factor 4A-III [KO:K13025] [EC:5.6.2.7]
130258183  SAP18; histone deacetylase complex subunit SAP18 [KO:K14324]
130253760  PNN; pinin [KO:K13114]
130259218  RNPS1; RNA-binding protein with serine-rich domain 1 [KO:K14325]
130260648  ALYREF; THO complex subunit 4 [KO:K12881]
130261622  ATP-dependent RNA helicase DDX19B [KO:K18655] [EC:5.6.2.7]
130260150  GLE1; mRNA export factor GLE1 [KO:K18723]
130253223  NXT2; NTF2-related export protein 2 isoform X1 [KO:K14285]
130262933  spliceosome RNA helicase DDX39B [KO:K12812] [EC:5.6.2.7]
130265735  PYM1; partner of Y14 and mago [KO:K14294]
130262202  SRRM1; serine/arginine repetitive matrix protein 1 isoform X1 [KO:K13171]
130250614  RNGTT; mRNA-capping enzyme [KO:K13917] [EC:2.7.7.50 3.6.1.74]
130250350  RNMT; mRNA cap guanine-N7 methyltransferase [KO:K00565] [EC:2.1.1.56]
130261839  TARDBP; TAR DNA-binding protein 43 [KO:K23600]
130257930  PABPN1L; embryonic polyadenylate-binding protein 2 isoform X1 [KO:K14396]
130257663  NUDT21; cleavage and polyadenylation specificity factor subunit 5 [KO:K14397]
130253994  CPSF7; cleavage and polyadenylation specificity factor subunit 7 isoform X1 [KO:K14398]
130264476  CPSF6; cleavage and polyadenylation specificity factor subunit 6 isoform X1 [KO:K14398]
130250960  PAPOLG; poly(A) polymerase gamma isoform X1 [KO:K14376] [EC:2.7.7.19]
130253791  PAPOLA; poly(A) polymerase alpha isoform X1 [KO:K14376] [EC:2.7.7.19]
130254143  CLP1; polyribonucleotide 5'-hydroxyl-kinase Clp1 [KO:K14399] [EC:2.7.1.78]
130248427  PCF11; pre-mRNA cleavage complex 2 protein Pcf11 [KO:K14400]
130262618  CPSF1; LOW QUALITY PROTEIN: cleavage and polyadenylation specificity factor subunit 1 [KO:K14401]
130266828  cleavage and polyadenylation specificity factor subunit 2 [KO:K14402]
130251688  CPSF3; cleavage and polyadenylation specificity factor subunit 3 isoform X1 [KO:K14403] [EC:3.1.27.-]
130260676  CPSF4L; putative cleavage and polyadenylation specificity factor subunit 4-like protein [KO:K14404]
130259012  CPSF4; cleavage and polyadenylation specificity factor subunit 4 isoform X1 [KO:K14404]
130252681  FIP1L1; pre-mRNA 3'-end-processing factor FIP1 isoform X1 [KO:K14405]
130253289  pre-mRNA 3'-end-processing factor FIP1-like isoform X1 [KO:K14405]
130256549  WDR33; pre-mRNA 3' end processing protein WDR33 [KO:K15542]
130258286  WDR82; WD repeat-containing protein 82 [KO:K14962]
130259893  PPP1CC; serine/threonine-protein phosphatase PP1-gamma catalytic subunit [KO:K06269] [EC:3.1.3.16]
130250597  PPP1CB; serine/threonine-protein phosphatase PP1-beta catalytic subunit [KO:K06269] [EC:3.1.3.16]
130253394  PPP1CA; serine/threonine-protein phosphatase PP1-alpha catalytic subunit [KO:K06269] [EC:3.1.3.16]
130261651  SSU72; RNA polymerase II subunit A C-terminal domain phosphatase SSU72 [KO:K15544] [EC:3.1.3.16]
130261222  CSTF1; cleavage stimulation factor subunit 1 isoform X1 [KO:K14406]
130252986  CSTF2; cleavage stimulation factor subunit 2 isoform X1 [KO:K14407]
130254413  CSTF3; cleavage stimulation factor subunit 3 [KO:K14408]
130263355  SYMPK; symplekin [KO:K06100]
130259811  MSI1; RNA-binding protein Musashi homolog 1 isoform X1 [KO:K14411]
130260887  MSI2; RNA-binding protein Musashi homolog 2 isoform X1 [KO:K14411]
130264579  DAZAP1; DAZ-associated protein 1 isoform X1 [KO:K14411]
130261327  PABPC1L; polyadenylate-binding protein 1-like [KO:K13126]
130262210  PABPC4; polyadenylate-binding protein 4 isoform X1 [KO:K13126]
130248763  PABPC1; polyadenylate-binding protein 1 [KO:K13126]
130258627  ETF1; eukaryotic peptide chain release factor subunit 1 [KO:K03265]
130259184  GSPT1; eukaryotic peptide chain release factor GTP-binding subunit ERF3A [KO:K03267]
130264603  UPF1; regulator of nonsense transcripts 1 isoform X1 [KO:K14326] [EC:5.6.2.5 5.6.2.3]
130259141  SMG1; serine/threonine-protein kinase SMG1 [KO:K08873] [EC:2.7.11.1]
130256182  SMG7; nonsense-mediated mRNA decay factor SMG7 isoform X1 [KO:K14409]
130263200  SMG5; nonsense-mediated mRNA decay factor SMG5 isoform X1 [KO:K11125]
130260765  SMG6; telomerase-binding protein EST1A [KO:K11124] [EC:3.1.-.-]
130252394  PPP2CB; serine/threonine-protein phosphatase 2A catalytic subunit beta isoform [KO:K04382] [EC:3.1.3.16]
130258941  PPP2CA; serine/threonine-protein phosphatase 2A catalytic subunit alpha isoform [KO:K04382] [EC:3.1.3.16]
130262004  PPP2R2A; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform isoform X1 [KO:K04354]
130252707  PPP2R2C; protein phosphatase 2, regulatory subunit B, gamma isoform X1 [KO:K04354]
130254596  PPP2R2D; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B delta isoform isoform X1 [KO:K04354]
130258819  PPP2R2B; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B beta isoform isoform X1 [KO:K04354]
130251722  PPP2R3B; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit beta isoform X1 [KO:K11583]
130256990  serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit alpha-like isoform X1 [KO:K11583]
130253974  PPP2R3C; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit gamma isoform X1 [KO:K11583]
130251816  PPP2R5D; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit delta isoform isoform X1 [KO:K11584]
130251924  PPP2R5A; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit alpha isoform [KO:K11584]
130253500  PPP2R5E; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit epsilon isoform isoform X1 [KO:K11584]
130254445  PPP2R5C; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit gamma isoform isoform X1 [KO:K11584]
130250697  HBS1L; HBS1-like protein isoform X1 [KO:K14416]
130265635  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
oma03013  Nucleocytoplasmic transport
oma03018  RNA degradation
oma03040  Spliceosome
KO pathway
ko03015   
LinkDB

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