KEGG   PATHWAY: ssen03015
Entry
ssen03015                   Pathway                                
Name
mRNA surveillance pathway - Solea senegalensis (Senegalese sole)
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
ssen03015  mRNA surveillance pathway
ssen03015

Other DBs
GO: 0071028
Organism
Solea senegalensis (Senegalese sole) [GN:ssen]
Gene
122759145  ppp2r3b; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit beta isoform X1 [KO:K11583]
122759221  pelo; protein pelota homolog [KO:K06965]
122759222  ppp1cab; protein phosphatase 1, catalytic subunit, alpha isozyme b [KO:K06269] [EC:3.1.3.16]
122759381  gspt1; eukaryotic peptide chain release factor GTP-binding subunit ERF3A [KO:K03267]
122759650  [KO:K14325]
122760207  [KO:K06269] [EC:3.1.3.16]
122760338  fip1l1b; pre-mRNA 3'-end-processing factor FIP1 isoform X1 [KO:K14405]
122760548  cstf1; cleavage stimulation factor subunit 1 [KO:K14406]
122761254  srrm1; serine/arginine repetitive matrix protein 1 isoform X1 [KO:K13171]
122761256  pabpc4; polyadenylate-binding protein 4 isoform X1 [KO:K13126]
122761324  smg7; protein SMG7 isoform X1 [KO:K14409]
122761673  [KO:K03265]
122765060  sap18; histone deacetylase complex subunit SAP18 [KO:K14324]
122765229  upf3a; regulator of nonsense transcripts 3A isoform X1 [KO:K14328]
122765584  sympk; symplekin [KO:K06100]
122765921  [KO:K06269] [EC:3.1.3.16]
122766139  acin1b; apoptotic chromatin condensation inducer 1b isoform X1 [KO:K12875]
122766411  ppp2r5b; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit beta isoform [KO:K11584]
122766639  upf2; regulator of nonsense transcripts 2 isoform X1 [KO:K14327]
122766757  ppp1caa; protein phosphatase 1, catalytic subunit, alpha isozyme a [KO:K06269] [EC:3.1.3.16]
122767006  cpsf6; cleavage and polyadenylation specificity factor subunit 6 isoform X1 [KO:K14398]
122768127  [KO:K14411]
122768142  wdr82; WD repeat-containing protein 82 [KO:K14962]
122768263  [KO:K18655] [EC:5.6.2.7]
122768428  ssu72; RNA polymerase II subunit A C-terminal domain phosphatase SSU72 [KO:K15544] [EC:3.1.3.16]
122768593  tardbpb; TAR DNA-binding protein 43 isoform X1 [KO:K23600]
122768994  [KO:K04354]
122769565  gle1; nucleoporin GLE1 isoform X1 [KO:K18723]
122769700  [KO:K04382] [EC:3.1.3.16]
122769805  [KO:K06269] [EC:3.1.3.16]
122770210  msi1b; RNA-binding protein Musashi homolog 1b isoform X1 [KO:K14411]
122770534  [KO:K14326] [EC:5.6.2.5 5.6.2.3]
122770582  eif4a3; eukaryotic initiation factor 4A-III [KO:K13025] [EC:5.6.2.7]
122770784  ppp2r2ca; protein phosphatase 2, regulatory subunit B, gamma a [KO:K04354]
122770896  [KO:K12881]
122772256  cstf3; cleavage stimulation factor subunit 3 [KO:K14408]
122772360  [KO:K14398]
122772450  nudt21; cleavage and polyadenylation specificity factor subunit 5 [KO:K14397]
122772681  pabpn1l; embryonic polyadenylate-binding protein 2 isoform X1 [KO:K14396]
122773397  taf15; TATA-binding protein-associated factor 2N isoform X1 [KO:K13098]
122773647  [KO:K03456]
122773775  [KO:K12875]
122773856  acin1a; calponin homology domain-containing protein DDB_G0272472 isoform X1 [KO:K12875]
122774007  msi2b; RNA-binding protein Musashi homolog 2b isoform X1 [KO:K14411]
122774215  rbm8a; RNA-binding protein 8A [KO:K12876]
122774537  wdr33; pre-mRNA 3' end processing protein WDR33 [KO:K15542]
122774594  smg5; protein SMG5 [KO:K11125]
122774764  [KO:K13126]
122776824  tardbpa; TAR DNA binding protein, like isoform X1 [KO:K23600]
122777226  ddx19a; ATP-dependent RNA helicase DDX19A [KO:K18655] [EC:5.6.2.7]
122777268  pabpn1; polyadenylate-binding protein 2 isoform X1 [KO:K14396]
122777415  pym1; partner of Y14 and mago [KO:K14294]
122777457  [KO:K13171]
122777969  upf3b; regulator of nonsense transcripts 3B [KO:K14328]
122778254  cstf2; cleavage stimulation factor subunit 2 isoform X1 [KO:K14407]
122778392  ppp2r2ba; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B beta isoform isoform X1 [KO:K04354]
122778482  [KO:K04354]
122778498  nxt2; NTF2-related export protein 2 [KO:K14285]
122778712  [KO:K12882]
122778823  [KO:K04382] [EC:3.1.3.16]
122778940  clp1; polyribonucleotide 5'-hydroxyl-kinase Clp1 [KO:K14399] [EC:2.7.1.78]
122778964  nxf1a; nuclear RNA export factor 1 isoform X1 [KO:K14284]
122779366  [KO:K14411]
122779651  smg6; telomerase-binding protein EST1A isoform X1 [KO:K11124] [EC:3.1.-.-]
122779991  ppp2cab; serine/threonine-protein phosphatase 2A catalytic subunit alpha isoform [KO:K04382] [EC:3.1.3.16]
122780068  pcf11; pre-mRNA cleavage complex 2 protein Pcf11 [KO:K14400]
122780336  magoh; protein mago nashi homolog [KO:K12877]
122780406  ncbp2; nuclear cap-binding protein subunit 2 [KO:K12883]
122780615  upf1; regulator of nonsense transcripts 1 isoform X1 [KO:K14326] [EC:5.6.2.5 5.6.2.3]
122781333  dazap1; DAZ-associated protein 1 isoform X1 [KO:K14411]
122781603  ppp2r5d; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit delta isoform isoform X1 [KO:K11584]
122781739  papolg; poly(A) polymerase gamma isoform X1 [KO:K14376] [EC:2.7.7.19]
122781785  ppp2r2d; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B delta isoform [KO:K04354]
122782545  [KO:K14403] [EC:3.1.27.-]
122782681  [KO:K11584]
122782788  ppp2r3a; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit alpha isoform X1 [KO:K11583]
122782833  pnn; pinin [KO:K13114]
122782967  ppp2r5eb; protein phosphatase 2, regulatory subunit B', epsilon isoform X1 [KO:K11584]
122783022  ppp1cb; serine/threonine-protein phosphatase PP1-beta catalytic subunit [KO:K06269] [EC:3.1.3.16]
122783394  ppp2r3c; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit gamma [KO:K11583]
122783636  ppp2r5cb; protein phosphatase 2, regulatory subunit B', gamma b isoform X1 [KO:K11584]
122783760  ppp2r5a; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit alpha isoform [KO:K11584]
122783773  hbs1l; HBS1-like protein isoform X1 [KO:K14416]
122784009  rngtt; mRNA-capping enzyme [KO:K13917] [EC:2.7.7.50 3.6.1.74]
122784345  [KO:K14403] [EC:3.1.27.-]
122784422  cpsf2; cleavage and polyadenylation specificity factor subunit 2 [KO:K14402]
122784478  [KO:K14376] [EC:2.7.7.19]
122784701  [KO:K14325]
122784718  cpsf4; cleavage and polyadenylation specificity factor subunit 4 [KO:K14404]
122784903  gspt1l; G1 to S phase transition 1, like [KO:K03267]
122785142  casc3; protein CASC3 [KO:K14323]
122785313  fus; RNA-binding protein FUS [KO:K13098]
122785676  smg1; serine/threonine-protein kinase SMG1 isoform X1 [KO:K08873] [EC:2.7.11.1]
122785788  alyref; THO complex subunit 4 isoform X1 [KO:K12881]
122786804  [KO:K13126]
122786853  rnmt; mRNA cap guanine-N7 methyltransferase isoform X1 [KO:K00565] [EC:2.1.1.56]
122786863  cpsf1; cleavage and polyadenylation specificity factor subunit 1 [KO:K14401]
122787121  [KO:K04354]
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
ssen03013  Nucleocytoplasmic transport
ssen03018  RNA degradation
ssen03040  Spliceosome
KO pathway
ko03015   

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