KEGG   PATHWAY: cabi03015
Entry
cabi03015                   Pathway                                
Name
mRNA surveillance pathway - Chelonoidis abingdonii (Abingdon island giant tortoise)
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
cabi03015  mRNA surveillance pathway
cabi03015

Other DBs
GO: 0071028
Organism
Chelonoidis abingdonii (Abingdon island giant tortoise) [GN:cabi]
Gene
116814879  PPP2R3C; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit gamma isoform X1 [KO:K11583]
116815356  [KO:K11583]
116815677  PABPN1L; embryonic polyadenylate-binding protein 2 [KO:K14396]
116815839  ALYREF; THO complex subunit 4 [KO:K12881]
116815944  WDR33; pre-mRNA 3' end processing protein WDR33 isoform X1 [KO:K15542]
116816996  NCBP1; nuclear cap-binding protein subunit 1 [KO:K12882]
116817016  PAPOLG; poly(A) polymerase gamma [KO:K14376] [EC:2.7.7.19]
116817179  UPF3B; regulator of nonsense transcripts 3B [KO:K14328]
116817320  PABPC1L; polyadenylate-binding protein 1-like isoform X1 [KO:K13126]
116817929  MAGOH; protein mago nashi homolog [KO:K12877]
116818018  [KO:K13917] [EC:2.7.7.50 3.6.1.74]
116818063  ETF1; eukaryotic peptide chain release factor subunit 1 [KO:K03265]
116818529  PAPOLA; poly(A) polymerase alpha isoform X1 [KO:K14376] [EC:2.7.7.19]
116819155  PCF11; pre-mRNA cleavage complex 2 protein Pcf11 [KO:K14400]
116819812  [KO:K14405]
116819981  CSTF2; cleavage stimulation factor subunit 2 isoform X1 [KO:K14407]
116820471  SMG7; protein SMG7 isoform X1 [KO:K14409]
116820619  [KO:K14405]
116821088  GSPT1; eukaryotic peptide chain release factor GTP-binding subunit ERF3A isoform X1 [KO:K03267]
116821236  FIP1L1; pre-mRNA 3'-end-processing factor FIP1 [KO:K14405]
116821927  TARDBP; TAR DNA-binding protein 43 [KO:K23600]
116822150  CLP1; polyribonucleotide 5'-hydroxyl-kinase Clp1 [KO:K14399] [EC:2.7.1.78]
116822484  CPSF7; cleavage and polyadenylation specificity factor subunit 7 [KO:K14398]
116822767  CPSF1; cleavage and polyadenylation specificity factor subunit 1 isoform X1 [KO:K14401]
116822915  [KO:K12883]
116823043  CPSF2; cleavage and polyadenylation specificity factor subunit 2 [KO:K14402]
116823071  PPP2R5C; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit gamma isoform [KO:K11584]
116823095  SAP18; histone deacetylase complex subunit SAP18 [KO:K14324]
116823334  UPF3A; LOW QUALITY PROTEIN: regulator of nonsense transcripts 3A [KO:K14328]
116824132  EIF4A3; eukaryotic initiation factor 4A-III [KO:K13025] [EC:5.6.2.7]
116824239  MSI2; RNA-binding protein Musashi homolog 2 isoform X1 [KO:K14411]
116824367  [KO:K18655] [EC:5.6.2.7]
116824622  SSU72; RNA polymerase II subunit A C-terminal domain phosphatase SSU72 [KO:K15544] [EC:3.1.3.16]
116824867  PPP2R5D; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit delta isoform [KO:K11584]
116826067  CSTF1; cleavage stimulation factor subunit 1 isoform X1 [KO:K14406]
116826195  UPF1; regulator of nonsense transcripts 1 [KO:K14326] [EC:5.6.2.5 5.6.2.3]
116826317  CPSF4; cleavage and polyadenylation specificity factor subunit 4 isoform X1 [KO:K14404]
116827471  FUS; RNA-binding protein FUS [KO:K13098]
116827541  HBS1L; HBS1-like protein isoform X1 [KO:K14416]
116827765  PYM1; partner of Y14 and mago isoform X1 [KO:K14294]
116827906  NUDT21; cleavage and polyadenylation specificity factor subunit 5 [KO:K14397]
116828968  NCBP2; nuclear cap-binding protein subunit 2 [KO:K12883]
116829051  MSI1; RNA-binding protein Musashi homolog 1 isoform X1 [KO:K14411]
116829392  NXT2; NTF2-related export protein 2 [KO:K14285]
116829458  SMG6; telomerase-binding protein EST1A isoform X1 [KO:K11124] [EC:3.1.-.-]
116829878  CASC3; protein CASC3 [KO:K14323]
116829895  [KO:K12812] [EC:5.6.2.7]
116830010  PPP2R5E; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit epsilon isoform isoform X1 [KO:K11584]
116830159  PPP2R3B; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit beta [KO:K11583]
116830201  SRRM1; serine/arginine repetitive matrix protein 1 isoform X1 [KO:K13171]
116830236  PABPC4; polyadenylate-binding protein 4 isoform X1 [KO:K13126]
116830629  PPP1CB; serine/threonine-protein phosphatase PP1-beta catalytic subunit [KO:K06269] [EC:3.1.3.16]
116830631  DAZAP1; DAZ-associated protein 1 isoform X1 [KO:K14411]
116831576  CSTF3; cleavage stimulation factor subunit 3 [KO:K14408]
116831742  PPP2R2C; protein phosphatase 2, regulatory subunit B, gamma isoform X1 [KO:K04354]
116831757  RNMT; mRNA cap guanine-N7 methyltransferase [KO:K00565] [EC:2.1.1.56]
116831833  SMG5; protein SMG5 isoform X1 [KO:K11125]
116831856  RBM8A; RNA-binding protein 8A [KO:K12876]
116833423  PPP1CA; serine/threonine-protein phosphatase PP1-alpha catalytic subunit isoform X1 [KO:K06269] [EC:3.1.3.16]
116833589  CPSF3; cleavage and polyadenylation specificity factor subunit 3 isoform X1 [KO:K14403] [EC:3.1.27.-]
116833686  PPP2R2A; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform isoform X1 [KO:K04354]
116834450  CPSF6; cleavage and polyadenylation specificity factor subunit 6 isoform X1 [KO:K14398]
116834470  PPP2CB; serine/threonine-protein phosphatase 2A catalytic subunit beta isoform [KO:K04382] [EC:3.1.3.16]
116834643  RNPS1; RNA-binding protein with serine-rich domain 1 isoform X1 [KO:K14325]
116834873  CPSF4L; putative cleavage and polyadenylation specificity factor subunit 4-like protein [KO:K14404]
116835125  GLE1; nucleoporin GLE1 [KO:K18723]
116835144  PPP2R5B; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit beta isoform [KO:K11584]
116835265  SYMPK; symplekin isoform X1 [KO:K06100]
116835452  UPF2; regulator of nonsense transcripts 2 isoform X1 [KO:K14327]
116835737  NXF1; nuclear RNA export factor 1 isoform X1 [KO:K14284]
116835770  PELO; protein pelota homolog [KO:K06965]
116836220  PPP2R2D; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B delta isoform isoform X1 [KO:K04354]
116836519  [KO:K08873] [EC:2.7.11.1]
116836730  PPP1CC; serine/threonine-protein phosphatase PP1-gamma catalytic subunit [KO:K06269] [EC:3.1.3.16]
116837237  PPP2R2B; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B beta isoform isoform X1 [KO:K04354]
116837310  PABPC1; polyadenylate-binding protein 1 isoform X1 [KO:K13126]
116837478  PNN; pinin [KO:K13114]
116838268  PPP2R1A; serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A alpha isoform isoform X1 [KO:K03456]
116838301  [KO:K14396]
116838307  ACIN1; LOW QUALITY PROTEIN: apoptotic chromatin condensation inducer in the nucleus [KO:K12875]
116838610  [KO:K13126]
116839291  PPP2R5A; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit alpha isoform [KO:K11584]
116839717  WDR82; WD repeat-containing protein 82 [KO:K14962]
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
cabi03013  Nucleocytoplasmic transport
cabi03018  RNA degradation
cabi03040  Spliceosome
KO pathway
ko03015   

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