KEGG   PATHWAY: xla03015Help
Entry
xla03015                    Pathway                                

Name
mRNA surveillance pathway - Xenopus laevis (African clawed frog)
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
BRITE hierarchy
Pathway map
xla03015  mRNA surveillance pathway
xla03015

Ortholog table
Module
xla_M00399  Cap binding complex [PATH:xla03015]
xla_M00430  Exon junction complex (EJC) [PATH:xla03015]
Other DBs
BSID: 193317
GO: 0071028
Organism
Xenopus laevis (African clawed frog) [GN:xla]
Gene
443936  ncbp1.L; nuclear cap binding protein subunit 1 L homeolog [KO:K12882]
443898  ncbp1.S; nuclear cap binding protein subunit 1 S homeolog [KO:K12882]
100380998  ncbp2.L; nuclear cap binding protein subunit 2 L homeolog [KO:K12883]
108698441  upf3b.L; UPF3 regulator of nonsense transcripts homolog B L homeolog [KO:K14328]
108708417  upf3a.L; UPF3 regulator of nonsense transcripts homolog A L homeolog [KO:K14328]
100381118  upf3b.S; UPF3 regulator of nonsense transcripts homolog B S homeolog [KO:K14328]
108709716  upf3a.S; UPF3 regulator of nonsense transcripts homolog A S homeolog [KO:K14328]
379595  rbm8a.L; RNA binding motif protein 8A L homeolog [KO:K12876]
399167  rbm8a.S; RNA binding motif protein 8A S homeolog [KO:K12876]
379411  magoh.L; mago homolog, exon junction complex core component L homeolog [KO:K12877]
108715607  magoh.S; mago homolog, exon junction complex core component S homeolog [KO:K12877]
398567  casc3.S; cancer susceptibility candidate 3 S homeolog [KO:K14323]
503559  mln51; metastatic lymph node 51 [KO:K14323]
100189566  casc3; protein CASC3 [KO:K14323]
399362  eif4a3.S; eukaryotic translation initiation factor 4A3 S homeolog [KO:K13025] [EC:3.6.4.13]
108717398  eukaryotic initiation factor 4A-III-A-like [KO:K13025] [EC:3.6.4.13]
734321  sap18.S; Sin3A associated protein 18kDa S homeolog [KO:K14324]
108708722  histone deacetylase complex subunit SAP18 [KO:K14324]
394270  pnn.L; pinin, desmosome associated protein L homeolog [KO:K13114]
394335  pnn.S; pinin, desmosome associated protein S homeolog [KO:K13114]
734979  acin1.S; apoptotic chromatin condensation inducer 1 S homeolog [KO:K12875]
733423  apoptotic chromatin condensation inducer in the nucleus [KO:K12875]
495230  rnps1.L; RNA binding protein S1, serine-rich domain L homeolog [KO:K14325]
735191  rnps1.S; RNA binding protein S1, serine-rich domain S homeolog [KO:K14325]
734364  alyref.L; Aly/REF export factor L homeolog [KO:K12881]
444644  alyref-b; MGC84169 protein [KO:K12881]
432035  nxf1.S; nuclear RNA export factor 1 S homeolog [KO:K14284]
108717690  nuclear RNA export factor 1-like [KO:K14284]
108713918  nxf1.L; nuclear RNA export factor 1 L homeolog [KO:K14284]
379677  nxt2.L; nuclear transport factor 2-like export factor 2 L homeolog [KO:K14285]
447706  ddx39b.L; DEAD-box helicase 39B L homeolog [KO:K12812] [EC:3.6.4.13]
494688  pym1.L; PYM homolog 1, exon junction complex associated factor L homeolog [KO:K14294]
108709839  partner of Y14 and mago [KO:K14294]
445881  srrm1.S; serine/arginine repetitive matrix 1 S homeolog [KO:K13171]
494754  srrm1.L; serine/arginine repetitive matrix 1 L homeolog [KO:K13171]
399383  rngtt.S; RNA guanylyltransferase and 5'-phosphatase [KO:K13917] [EC:3.6.1.- 2.7.7.50]
398173  rnmt.L; RNA (guanine-7-) methyltransferase L homeolog [KO:K00565] [EC:2.1.1.56]
380411  pabpn1.L; poly(A) binding protein, nuclear 1 L homeolog [KO:K14396]
403372  pabpn1l.S; poly(A) binding protein, nuclear 1-like (cytoplasmic) S homeolog [KO:K14396]
398516  pabpn1l.L; poly(A) binding protein, nuclear 1-like (cytoplasmic) L homeolog [KO:K14396]
398201  pabpn1.S; poly(A) binding protein, nuclear 1 S homeolog [KO:K14396]
444830  nudt21.L; nudix hydrolase 21 L homeolog [KO:K14397]
446580  cpsf6.S; cleavage and polyadenylation specific factor 6 S homeolog [KO:K14398]
779278  MGC154500; pre-mRNA cleavage factor I, 59 kDa subunit [KO:K14398]
495008  cpsf7.L; cleavage and polyadenylation specific factor 7 L homeolog [KO:K14398]
733279  cpsf6.L; cleavage and polyadenylation specific factor 6 L homeolog [KO:K14398]
733387  papolg.L; poly(A) polymerase gamma L homeolog [KO:K14376] [EC:2.7.7.19]
399024  papola.L; poly(A) polymerase alpha L homeolog [KO:K14376] [EC:2.7.7.19]
779055  papola.S; poly(A) polymerase alpha S homeolog [KO:K14376] [EC:2.7.7.19]
431824  clp1.L; cleavage and polyadenylation factor I subunit 1 L homeolog [KO:K14399] [EC:2.7.1.78]
446483  pcf11.S; PCF11 cleavage and polyadenylation factor subunit S homeolog [KO:K14400]
108719780  cleavage and polyadenylation specificity factor subunit 1-like [KO:K14401]
398931  cpsf1.L; cleavage and polyadenylation specific factor 1 L homeolog [KO:K14401]
394394  cpsf2.S; cleavage and polyadenylation specific factor 2 S homeolog [KO:K14402]
108698719  cleavage and polyadenylation specificity factor subunit 2-like [KO:K14402]
495111  cpsf3.L; cleavage and polyadenylation specific factor 3 L homeolog [KO:K14403] [EC:3.1.27.-]
108718236  cpsf3.S; cleavage and polyadenylation specific factor 3 S homeolog [KO:K14403] [EC:3.1.27.-]
444766  cpsf4.S; cleavage and polyadenylation specific factor 4 S homeolog [KO:K14404]
108702698  cpsf4l.S; cleavage and polyadenylation specific factor 4-like S homeolog [KO:K14404]
108701503  cpsf4.L; cleavage and polyadenylation specific factor 4 L homeolog [KO:K14404]
494780  fip1l1.S; factor interacting with PAPOLA and CPSF1 S homeolog [KO:K14405]
108698897  pre-mRNA 3'-end-processing factor FIP1-like [KO:K14405]
108698398  fip1l1.L; factor interacting with PAPOLA and CPSF1 L homeolog [KO:K14405]
108718157  pre-mRNA 3' end processing protein WDR33-like [KO:K15542]
100127314  wdr33.L; WD repeat domain 33 L homeolog [KO:K15542]
735072  wdr82.S; WD repeat domain 82 S homeolog [KO:K14962]
494657  wdr82.L; WD repeat domain 82 L homeolog [KO:K14962]
443852  ppp1cb.L; protein phosphatase 1, catalytic subunit, beta isozyme L homeolog [KO:K06269] [EC:3.1.3.16]
379914  ppp1ca.L; protein phosphatase 1, catalytic subunit, alpha isozyme L homeolog [KO:K06269] [EC:3.1.3.16]
380598  ppp1cc; protein phosphatase 1, catalytic subunit, gamma isoform [KO:K06269] [EC:3.1.3.16]
397767  ppp1cc.L; protein phosphatase 1, catalytic subunit, gamma isozyme L homeolog [KO:K06269] [EC:3.1.3.16]
108717671  serine/threonine-protein phosphatase PP1-beta catalytic subunit [KO:K06269] [EC:3.1.3.16]
108704179  serine/threonine-protein phosphatase PP1-alpha catalytic subunit-like [KO:K06269] [EC:3.1.3.16]
431913  ssu72.L; SSU72 homolog, RNA polymerase II CTD phosphatase L homeolog [KO:K15544] [EC:3.1.3.16]
734628  ssu72.S; SSU72 homolog, RNA polymerase II CTD phosphatase S homeolog [KO:K15544] [EC:3.1.3.16]
380171  cstf1.S; cleavage stimulation factor, 3' pre-RNA, subunit 1 [KO:K14406]
447785  cstf1.L; cleavage stimulation factor, 3' pre-RNA, subunit 1, 50kDa [KO:K14406]
379871  cstf2.L; cleavage stimulation factor, 3' pre-RNA, subunit 2 [KO:K14407]
446667  cstf3.S; cleavage stimulation factor, 3' pre-RNA, subunit 3 [KO:K14408]
100335148  LOC100493745.L; cleavage stimulation factor subunit 3-like L homeolog [KO:K14408]
379378  sympk.S; symplekin S homeolog [KO:K06100]
397764  msi1.L; musashi RNA binding protein 1 L homeolog [KO:K14411]
399271  msi1.S; musashi RNA binding protein 1 S homeolog [KO:K14411]
399260  msi2.S; musashi RNA binding protein 2 S homeolog [KO:K14411]
398218  dazap1.L; DAZ associated protein 1 L homeolog [KO:K14411]
108712502  DAZ-associated protein 1-like [KO:K14411]
108708366  RNA-binding protein Musashi homolog 2 [KO:K14411]
432140  pabpc1.S; poly(A) binding protein, cytoplasmic 1 S homeolog [KO:K13126]
379896  pabpc1.L; poly(A) binding protein, cytoplasmic 1 L homeolog [KO:K13126]
443777  pabpc1l.S; poly(A) binding protein, cytoplasmic 1-like S homeolog [KO:K13126]
398221  pabpc1l.L; poly(A) binding protein, cytoplasmic 1-like L homeolog [KO:K13126]
444284  pabpc4.L; poly(A) binding protein, cytoplasmic 4 (inducible form) L homeolog [KO:K13126]
495336  uncharacterized LOC495336 [KO:K13126]
399462  etf1.S; eukaryotic translation termination factor 1 S homeolog [KO:K03265]
446795  gspt1.L; G1 to S phase transition 1 L homeolog [KO:K03267]
399269  gspt1.S; G1 to S phase transition 1 S homeolog [KO:K03267]
444289  upf1.S; UPF1 regulator of nonsense transcripts homolog S homeolog [KO:K14326] [EC:3.6.4.-]
108712392  regulator of nonsense transcripts 1 [KO:K14326] [EC:3.6.4.-]
734721  upf2.S; UPF2 regulator of nonsense transcripts homolog S homeolog [KO:K14327]
108711221  upf2.L; UPF2 regulator of nonsense transcripts homolog L homeolog [KO:K14327]
779188  smg1.L; SMG1 phosphatidylinositol 3-kinase-related kinase L homeolog [KO:K08873] [EC:2.7.11.1]
108703118  smg1.S; SMG1 phosphatidylinositol 3-kinase-related kinase S homeolog [KO:K08873] [EC:2.7.11.1]
444808  smg7.L; SMG7 nonsense mediated mRNA decay factor L homeolog [KO:K14409]
108715633  smg7.S; SMG7 nonsense mediated mRNA decay factor S homeolog [KO:K14409]
108700391  protein SMG5-like [KO:K11125]
100137701  smg5.L; SMG5 nonsense mediated mRNA decay factor L homeolog [KO:K11125]
108707965  smg6.L; SMG6 nonsense mediated mRNA decay factor L homeolog [KO:K11124] [EC:3.1.-.-]
399343  ppp2cb.L; protein phosphatase 2, catalytic subunit, beta isozyme L homeolog [KO:K04382] [EC:3.1.3.16]
380045  ppp2ca.L; protein phosphatase 2, catalytic subunit, alpha isozyme L homeolog [KO:K04382] [EC:3.1.3.16]
108706827  serine/threonine-protein phosphatase 2A catalytic subunit beta isoform [KO:K04382] [EC:3.1.3.16]
108712618  serine/threonine-protein phosphatase 2A catalytic subunit alpha isoform [KO:K04382] [EC:3.1.3.16]
398563  serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A beta isoform-like [KO:K03456]
379827  ppp2r1a.L; protein phosphatase 2 regulatory subunit A, alpha L homeolog [KO:K03456]
380100  ppp2r1b.S; protein phosphatase 2 regulatory subunit A, beta S homeolog [KO:K03456]
394339  ppp2r1a.S; protein phosphatase 2 regulatory subunit A, alpha S homeolog [KO:K03456]
108705486  serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A alpha isoform-like [KO:K03456]
379305  ppp2r2d.S; protein phosphatase 2 regulatory subunit B, delta S homeolog [KO:K04354]
399328  ppp2r2a.S; protein phosphatase 2 regulatory subunit B, alpha S homeolog [KO:K04354]
394301  ppp2r2b.L; protein phosphatase 2 regulatory subunit B, beta L homeolog [KO:K04354]
108713256  serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B beta isoform-like [KO:K04354]
108706535  serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B gamma isoform [KO:K04354]
108696111  serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B delta isoform [KO:K04354]
108698023  serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B gamma isoform-like [KO:K04354]
108711598  serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform [KO:K04354]
398611  ppp2r3a.S; protein phosphatase 2 regulatory subunit B, alpha S homeolog [KO:K11583]
398610  ppp2r3b.L; protein phosphatase 2 regulatory subunit B', beta L homeolog [KO:K11583]
398847  ppp2r3c.L; protein phosphatase 2 regulatory subunit B', gamma L homeolog [KO:K11583]
398609  PP2A B'' subunit PR130 [KO:K11583]
734216  serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit beta [KO:K11583]
446335  ppp2r5b.L; protein phosphatase 2 regulatory subunit B', beta [KO:K11584]
495076  ppp2r5e.S; protein phosphatase 2 regulatory subunit B', epsilon [KO:K11584]
447462  ppp2r5c.L; protein phosphatase 2 regulatory subunit B', gamma [KO:K11584]
399166  ppp2r5e1; protein phosphatase-2A B'epsilon subunit [KO:K11584]
100137719  ppp2r5a.S; protein phosphatase 2 regulatory subunit B', alpha [KO:K11584]
108713484  serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit beta isoform-like [KO:K11584]
108699778  ppp2r5c.S; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit gamma isoform-like [KO:K11584]
108715166  serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit beta isoform [KO:K11584]
444278  hbs1l.L; HBS1 like translational GTPase L homeolog [KO:K14416]
495353  pelo.L; pelota homolog L homeolog [KO:K06965]
Reference
  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
  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
  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
  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
  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
KO pathway
ko03015   
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