KEGG   PATHWAY: cery03015
Entry
cery03015                   Pathway                                
Name
mRNA surveillance pathway - Chanodichthys erythropterus (predatory carp)
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
cery03015  mRNA surveillance pathway
cery03015

Other DBs
GO: 0071028
Organism
Chanodichthys erythropterus (predatory carp) [GN:cery]
Gene
137002393  ppp2r3a; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit alpha isoform X1 [KO:K11583]
137002528  smg7; nonsense-mediated mRNA decay factor SMG7 isoform X1 [KO:K14409]
137002870  upf1; regulator of nonsense transcripts 1 isoform X1 [KO:K14326] [EC:5.6.2.5 5.6.2.3]
137003713  acin1a; apoptotic chromatin condensation inducer in the nucleus isoform X1 [KO:K12875]
137004441  msi2b; RNA-binding protein Musashi homolog 2b isoform X1 [KO:K14411]
137004892  taf15; TATA-binding protein-associated factor 2N isoform X1 [KO:K13098]
137004972  ppp2r1bb; serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A beta isoform [KO:K03456]
137006209  ppp2r5ca; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit gamma isoform isoform X1 [KO:K11584]
137006325  pabpc4; polyadenylate-binding protein 4 isoform X1 [KO:K13126]
137006332  ppp2r3c; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit gamma [KO:K11583]
137006362  pnn; pinin [KO:K13114]
137006570  ppp1cb; serine/threonine-protein phosphatase PP1-beta catalytic subunit [KO:K06269] [EC:3.1.3.16]
137007139  srrm1; serine/arginine repetitive matrix protein 1 isoform X1 [KO:K13171]
137007654  ppp2r2d; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B delta isoform isoform X1 [KO:K04354]
137007988  gspt1; eukaryotic peptide chain release factor GTP-binding subunit ERF3A isoform X1 [KO:K03267]
137008211  pelo; protein pelota homolog [KO:K06965]
137008213  ppp1cab; protein phosphatase 1, catalytic subunit, alpha isozyme b [KO:K06269] [EC:3.1.3.16]
137008700  hbs1l; HBS1-like protein isoform X1 [KO:K14416]
137009503  ppp2r2cb; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B beta isoform [KO:K04354]
137009540  ddx19a; ATP-dependent RNA helicase DDX19A isoform X1 [KO:K18655] [EC:5.6.2.7]
137009665  tardbpa; TAR DNA binding protein, like isoform X1 [KO:K23600]
137010748  tardbpb; TAR DNA-binding protein 43 [KO:K23600]
137010827  wdr82; WD repeat-containing protein 82 [KO:K14962]
137011793  upf3b; regulator of nonsense transcripts 3B [KO:K14328]
137012506  ppp2r2bb; protein phosphatase 2, regulatory subunit B, beta b isoform X1 [KO:K04354]
137013065  pcf11; pre-mRNA cleavage complex 2 protein Pcf11 [KO:K14400]
137013221  nxf1b; nuclear RNA export factor 1 [KO:K14284]
137013247  ppp2cab; serine/threonine-protein phosphatase 2A catalytic subunit alpha isoform [KO:K04382] [EC:3.1.3.16]
137013852  pabpn1; polyadenylate-binding protein 2 isoform X1 [KO:K14396]
137017275  [KO:K14325]
137017406  casc3; protein CASC3 isoform X1 [KO:K14323]
137017470  clp1; polyribonucleotide 5'-hydroxyl-kinase Clp1 [KO:K14399] [EC:2.7.1.78]
137017563  ppp1caa; protein phosphatase 1, catalytic subunit, alpha isozyme a [KO:K06269] [EC:3.1.3.16]
137017575  smg1; serine/threonine-protein kinase SMG1 isoform X1 [KO:K08873] [EC:2.7.11.1]
137017598  ppp2r2ba; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B beta isoform isoform X1 [KO:K04354]
137017625  fus; RNA-binding protein FUS isoform X1 [KO:K13098]
137017694  gspt1l; G1 to S phase transition 1, like [KO:K03267]
137017772  cpsf4; cleavage and polyadenylation specificity factor subunit 4 [KO:K14404]
137017944  alyref; THO complex subunit 4 isoform X1 [KO:K12881]
137018503  nxf1a; nuclear RNA export factor 1 [KO:K14284]
137018616  cpsf2; cleavage and polyadenylation specificity factor subunit 2 [KO:K14402]
137018839  rngtt; mRNA-capping enzyme isoform X1 [KO:K13917] [EC:2.7.7.50 3.6.1.74]
137018851  ppp2r5ea; protein phosphatase 2, regulatory subunit B', epsilon isoform X1 [KO:K11584]
137018890  fip1l1a; pre-mRNA 3'-end-processing factor FIP1 isoform X1 [KO:K14405]
137019013  cpsf3; cleavage and polyadenylation specificity factor subunit 3 [KO:K14403] [EC:3.1.27.-]
137019272  ppp2r5cb; protein phosphatase 2, regulatory subunit B', gamma b isoform X1 [KO:K11584]
137019302  ppp2r5a; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit alpha isoform isoform X1 [KO:K11584]
137019310  papola; poly(A) polymerase alpha [KO:K14376] [EC:2.7.7.19]
137019441  [KO:K06269] [EC:3.1.3.16]
137020353  nxt2; NTF2-related export protein 2 isoform X1 [KO:K14285]
137020573  papolg; poly(A) polymerase gamma isoform X1 [KO:K14376] [EC:2.7.7.19]
137020763  ppp2r5d; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit delta isoform isoform X1 [KO:K11584]
137020844  ppp2r5eb; protein phosphatase 2, regulatory subunit B', epsilon isoform X1 [KO:K11584]
137020910  eif4a3; eukaryotic initiation factor 4A-III [KO:K13025] [EC:5.6.2.7]
137021059  cstf1; cleavage stimulation factor subunit 1 [KO:K14406]
137021227  ddx19b; ATP-dependent RNA helicase DDX19B [KO:K18655] [EC:5.6.2.7]
137021700  cstf2; cleavage stimulation factor subunit 2 isoform X1 [KO:K14407]
137021727  dazap1; DAZ-associated protein 1 isoform X1 [KO:K14411]
137022242  etf1a; eukaryotic peptide chain release factor subunit 1-like isoform X1 [KO:K03265]
137022548  ppp2caa; protein phosphatase 2 catalytic subunit alpha a [KO:K04382] [EC:3.1.3.16]
137022852  nudt21; cleavage and polyadenylation specificity factor subunit 5 isoform X1 [KO:K14397]
137023071  cstf3; cleavage stimulation factor subunit 3 isoform X1 [KO:K14408]
137023204  [KO:K12882]
137024152  upf2; regulator of nonsense transcripts 2 [KO:K14327]
137024203  cpsf6; cleavage and polyadenylation specificity factor subunit 6 isoform X1 [KO:K14398]
137026166  pym1; partner of Y14 and mago [KO:K14294]
137026202  gle1; mRNA export factor GLE1 [KO:K18723]
137026735  pabpc1l; polyadenylate-binding protein 1-like [KO:K13126]
137026819  ppp2r2aa; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform [KO:K04354]
137027004  magoh; protein mago nashi homolog [KO:K12877]
137027230  msi1b; RNA-binding protein Musashi homolog 1b [KO:K14411]
137028159  rbm8a; RNA-binding protein 8A [KO:K12876]
137028422  ssu72; RNA polymerase II subunit A C-terminal domain phosphatase SSU72 [KO:K15544] [EC:3.1.3.16]
137028626  msi2a; RNA-binding protein Musashi homolog 2a isoform X1 [KO:K14411]
137028647  smg6; telomerase-binding protein EST1A isoform X1 [KO:K11124] [EC:3.1.-.-]
137028797  etf1b; eukaryotic peptide chain release factor subunit 1b isoform X1 [KO:K03265]
137028821  ppp2r2ab; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform [KO:K04354]
137028965  ppp2cb; serine/threonine-protein phosphatase 2A catalytic subunit beta isoform [KO:K04382] [EC:3.1.3.16]
137028985  ncbp2; nuclear cap-binding protein subunit 2 [KO:K12883]
137029647  [KO:K13126]
137030113  pabpn1l; embryonic polyadenylate-binding protein 2 [KO:K14396]
137030143  [KO:K06269] [EC:3.1.3.16]
137030218  ppp2r5b; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit beta isoform [KO:K11584]
137030943  acin1b; apoptotic chromatin condensation inducer 1b [KO:K12875]
137031987  ppp2r2ca; protein phosphatase 2, regulatory subunit B, gamma a [KO:K04354]
137032107  fip1l1b; pre-mRNA 3'-end-processing factor FIP1 isoform X1 [KO:K14405]
137032744  wdr33; pre-mRNA 3' end processing protein WDR33 isoform X1 [KO:K15542]
137033733  sympk; symplekin isoform X1 [KO:K06100]
137034083  [KO:K14411]
137034238  ppp2r1ba; protein phosphatase 2, regulatory subunit A, beta a [KO:K03456]
137034415  ppp1cc; serine/threonine-protein phosphatase PP1-gamma catalytic subunit A [KO:K06269] [EC:3.1.3.16]
137035674  sap18; histone deacetylase complex subunit SAP18 [KO:K14324]
137035824  ppp2r3b; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit beta isoform X1 [KO:K11583]
137035861  upf3a; regulator of nonsense transcripts 3A isoform X1 [KO:K14328]
137036843  smg5; nonsense-mediated mRNA decay factor SMG5 [KO:K11125]
137037241  pabpc1a; polyadenylate-binding protein 1A [KO:K13126]
137037305  ddx39b; DEAD (Asp-Glu-Ala-Asp) box polypeptide 39B [KO:K12812] [EC:5.6.2.7]
137037327  rnmt; mRNA cap guanine-N7 methyltransferase isoform X1 [KO:K00565] [EC:2.1.1.56]
137037415  pabpc1b; polyadenylate-binding protein 1b [KO:K13126]
137037698  cpsf1; cleavage and polyadenylation specificity factor subunit 1 [KO:K14401]
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
cery03013  Nucleocytoplasmic transport
cery03018  RNA degradation
cery03040  Spliceosome
KO pathway
ko03015   

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