KEGG   PATHWAY: ctul03015
Entry
ctul03015                   Pathway                                
Name
mRNA surveillance pathway - Cyprinodon tularosa (White Sands pupfish)
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
ctul03015  mRNA surveillance pathway
ctul03015

Other DBs
GO: 0071028
Organism
Cyprinodon tularosa (White Sands pupfish) [GN:ctul]
Gene
119798724  nuclear cap-binding protein subunit 1 [KO:K12882]
119772508  ncbp2; nuclear cap-binding protein subunit 2 [KO:K12883]
119783341  upf3a; regulator of nonsense transcripts 3A isoform X1 [KO:K14328]
119786305  upf3b; regulator of nonsense transcripts 3B isoform X1 [KO:K14328]
119796674  rbm8a; RNA-binding protein 8A isoform X1 [KO:K12876]
119787623  magoh; protein mago nashi homolog [KO:K12877]
119796890  casc3; protein CASC3 [KO:K14323]
119785553  eif4a3; eukaryotic initiation factor 4A-III [KO:K13025] [EC:5.6.2.7]
119790377  sap18; histone deacetylase complex subunit SAP18 [KO:K14324]
119774833  pnn; pinin [KO:K13114]
119773421  acin1b; apoptotic chromatin condensation inducer 1b isoform X1 [KO:K12875]
119793336  acin1a; apoptotic chromatin condensation inducer in the nucleus [KO:K12875]
119773180  RNA-binding protein with serine-rich domain 1-like isoform X1 [KO:K14325]
119781740  alyref; THO complex subunit 4 isoform X1 [KO:K12881]
119779365  aly/REF export factor 2-like [KO:K12881]
119791771  ddx19; ATP-dependent RNA helicase DDX19B [KO:K18655] [EC:5.6.2.7]
119799478  zgc:193690; ATP-dependent RNA helicase DDX19A [KO:K18655] [EC:5.6.2.7]
119797450  gle1; nucleoporin GLE1 [KO:K18723]
119784497  nxf1a; nuclear RNA export factor 1 isoform X1 [KO:K14284]
119778748  nxt2; NTF2-related export protein 2 [KO:K14285]
119773988  pym1; partner of Y14 and mago [KO:K14294]
119774184  srrm1; serine/arginine repetitive matrix protein 1 isoform X1 [KO:K13171]
119771567  rngtt; mRNA-capping enzyme [KO:K13917] [EC:2.7.7.50 3.6.1.74]
119778051  rnmt; mRNA cap guanine-N7 methyltransferase [KO:K00565] [EC:2.1.1.56]
119771784  taf15; TATA-binding protein-associated factor 2N isoform X1 [KO:K13098]
119775071  tardbpb; TAR DNA-binding protein 43 isoform X1 [KO:K23600]
119797067  tardbpa; TAR DNA binding protein, like isoform X1 [KO:K23600]
119782765  pabpn1l; embryonic polyadenylate-binding protein 2 [KO:K14396]
119776942  pabpn1; polyadenylate-binding protein 2 isoform X1 [KO:K14396]
119798971  nudt21; cleavage and polyadenylation specificity factor subunit 5 [KO:K14397]
119782704  cleavage and polyadenylation specificity factor subunit 7-like [KO:K14398]
119786204  cpsf6; cleavage and polyadenylation specificity factor subunit 6 isoform X1 [KO:K14398]
119792714  papolg; poly(A) polymerase gamma isoform X1 [KO:K14376] [EC:2.7.7.19]
119788302  clp1; polyribonucleotide 5'-hydroxyl-kinase Clp1 [KO:K14399] [EC:2.7.1.78]
119781170  pcf11; LOW QUALITY PROTEIN: pre-mRNA cleavage complex 2 protein Pcf11 [KO:K14400]
119785227  cpsf1; cleavage and polyadenylation specificity factor subunit 1 [KO:K14401]
119771558  cpsf2; cleavage and polyadenylation specificity factor subunit 2 [KO:K14402]
119797842  cleavage and polyadenylation specificity factor subunit 3-like [KO:K14403] [EC:3.1.27.-]
119773677  cleavage and polyadenylation specificity factor subunit 3 [KO:K14403] [EC:3.1.27.-]
119771317  cpsf4; cleavage and polyadenylation specificity factor subunit 4 [KO:K14404]
119788453  fip1l1b; pre-mRNA 3'-end-processing factor FIP1 [KO:K14405]
119779096  wdr33; pre-mRNA 3' end processing protein WDR33 isoform X1 [KO:K15542]
119772758  wdr82; WD repeat-containing protein 82 [KO:K14962]
119780028  WD repeat-containing protein 82-like [KO:K14962]
119775196  serine/threonine-protein phosphatase PP1-beta catalytic subunit-like [KO:K06269] [EC:3.1.3.16]
119795597  ppp1cc; serine/threonine-protein phosphatase PP1-gamma catalytic subunit A [KO:K06269] [EC:3.1.3.16]
119791293  ppp1caa; protein phosphatase 1, catalytic subunit, alpha isozyme a [KO:K06269] [EC:3.1.3.16]
119798206  ppp1cab; protein phosphatase 1, catalytic subunit, alpha isozyme b [KO:K06269] [EC:3.1.3.16]
119772148  serine/threonine-protein phosphatase PP1-beta catalytic subunit [KO:K06269] [EC:3.1.3.16]
119780047  ssu72; RNA polymerase II subunit A C-terminal domain phosphatase SSU72 [KO:K15544] [EC:3.1.3.16]
119786093  cstf1; cleavage stimulation factor subunit 1 [KO:K14406]
119786292  cstf2; cleavage stimulation factor subunit 2 isoform X1 [KO:K14407]
119797580  cstf3; cleavage stimulation factor subunit 3 [KO:K14408]
119779496  sympk; symplekin [KO:K06100]
119782372  msi1b; RNA-binding protein Musashi homolog 1b isoform X1 [KO:K14411]
119783817  dazap1; DAZ-associated protein 1 isoform X1 [KO:K14411]
119786222  RNA-binding protein Musashi homolog 2 isoform X1 [KO:K14411]
119780111  RNA-binding protein Musashi homolog 1-like [KO:K14411]
119784825  pabpc1b; polyadenylate-binding protein 1b [KO:K13126]
119773007  polyadenylate-binding protein 1A [KO:K13126]
119774080  embryonic polyadenylate-binding protein B-like [KO:K13126]
119774190  pabpc4; polyadenylate-binding protein 4 isoform X1 [KO:K13126]
119794330  eukaryotic peptide chain release factor subunit 1 [KO:K03265]
119782481  gspt1; eukaryotic peptide chain release factor GTP-binding subunit ERF3A [KO:K03267]
119797254  gspt1l; G1 to S phase transition 1, like [KO:K03267]
119794399  upf1; regulator of nonsense transcripts 1 isoform X1 [KO:K14326] [EC:5.6.2.5 5.6.2.3]
119771290  upf2; regulator of nonsense transcripts 2 isoform X1 [KO:K14327]
119793632  smg1; serine/threonine-protein kinase SMG1 [KO:K08873] [EC:2.7.11.1]
119798156  smg7; protein SMG7 isoform X1 [KO:K14409]
119774762  smg5; protein SMG5 [KO:K11125]
119790279  smg6; telomerase-binding protein EST1A isoform X1 [KO:K11124] [EC:3.1.-.-]
119782310  serine/threonine-protein phosphatase 2A catalytic subunit beta isoform [KO:K04382] [EC:3.1.3.16]
119797963  ppp2cab; serine/threonine-protein phosphatase 2A catalytic subunit alpha isoform [KO:K04382] [EC:3.1.3.16]
119792089  ppp2r1bb; serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A beta isoform [KO:K03456]
119783921  ppp2r2aa; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform isoform X1 [KO:K04354]
119796543  serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B beta isoform isoform X1 [KO:K04354]
119797029  ppp2r2d; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B delta isoform [KO:K04354]
119772060  serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform-like [KO:K04354]
119773232  serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B beta isoform isoform X1 [KO:K04354]
119773837  ppp2r2ca; protein phosphatase 2, regulatory subunit B, gamma a [KO:K04354]
119774711  ppp2r3c; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit gamma [KO:K11583]
119788177  ppp2r3a; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit alpha isoform X1 [KO:K11583]
119783327  ppp2r3b; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit beta isoform X1 [KO:K11583]
119787836  ppp2r5a; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit alpha isoform [KO:K11584]
119794782  ppp2r5cb; protein phosphatase 2, regulatory subunit B', gamma b isoform X1 [KO:K11584]
119776390  ppp2r5b; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit beta isoform [KO:K11584]
119791930  ppp2r5d; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit delta isoform [KO:K11584]
119792149  serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit epsilon isoform [KO:K11584]
119773682  serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit gamma isoform isoform X1 [KO:K11584]
119788354  hbs1l; HBS1-like protein isoform X1 [KO:K14416]
119798217  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
ctul03013  Nucleocytoplasmic transport
ctul03018  RNA degradation
ctul03040  Spliceosome
KO pathway
ko03015   
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