KEGG   PATHWAY: pprl03015
Entry
pprl03015                   Pathway                                
Name
mRNA surveillance pathway - Poeciliopsis prolifica (blackstripe livebearer)
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
pprl03015  mRNA surveillance pathway
pprl03015

Other DBs
GO: 0071028
Organism
Poeciliopsis prolifica (blackstripe livebearer) [GN:pprl]
Gene
129351166  hbs1l; HBS1-like protein isoform X1 [KO:K14416]
129351673  [KO:K15542]
129351902  upf2; regulator of nonsense transcripts 2 isoform X1 [KO:K14327]
129353310  tardbpb; TAR DNA-binding protein 43 isoform X1 [KO:K23600]
129354175  [KO:K00565] [EC:2.1.1.56]
129354527  cpsf3; cleavage and polyadenylation specificity factor subunit 3 [KO:K14403] [EC:3.1.27.-]
129354872  cstf1; cleavage stimulation factor subunit 1 [KO:K14406]
129355294  [KO:K04382] [EC:3.1.3.16]
129355342  wdr82; WD repeat-containing protein 82 [KO:K14962]
129355991  [KO:K06100]
129356037  ssu72; RNA polymerase II subunit A C-terminal domain phosphatase SSU72 [KO:K15544] [EC:3.1.3.16]
129356043  [KO:K13025] [EC:5.6.2.7]
129356089  [KO:K11584]
129356302  [KO:K14962]
129356424  [KO:K13025] [EC:5.6.2.7]
129356425  ddx19b; ATP-dependent RNA helicase DDX19B [KO:K18655] [EC:5.6.2.7]
129356565  [KO:K00565] [EC:2.1.1.56]
129358164  [KO:K14411]
129358736  taf15; TATA-binding protein-associated factor 2N [KO:K13098]
129359401  ppp2r1bb; serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A beta isoform [KO:K03456]
129359839  papolg; poly(A) polymerase gamma isoform X1 [KO:K14376] [EC:2.7.7.19]
129359934  ppp2r2d; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B delta isoform [KO:K04354]
129360242  [KO:K14407]
129360649  [KO:K12882]
129360652  [KO:K12882]
129360754  [KO:K14328]
129360763  [KO:K14328]
129360824  [KO:K14407]
129360989  ppp2r3b; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit beta isoform X1 [KO:K11583]
129361504  upf3a; regulator of nonsense transcripts 3A isoform X1 [KO:K14328]
129361708  acin1a; LOW QUALITY PROTEIN: apoptotic chromatin condensation inducer in the nucleus [KO:K12875]
129362425  nxt2; NTF2-related export protein 2 [KO:K14285]
129362455  nxf1a; nuclear RNA export factor 1 isoform X1 [KO:K14284]
129362618  [KO:K04354]
129362688  clp1; polyribonucleotide 5'-hydroxyl-kinase Clp1 [KO:K14399] [EC:2.7.1.78]
129362776  [KO:K04354]
129362790  [KO:K03265]
129362883  [KO:K04382] [EC:3.1.3.16]
129363317  smg1; serine/threonine-protein kinase SMG1 isoform X1 [KO:K08873] [EC:2.7.11.1]
129363322  gspt1l; G1 to S phase transition 1, like isoform X1 [KO:K03267]
129363542  [KO:K14325]
129363545  cpsf4; cleavage and polyadenylation specificity factor subunit 4 [KO:K14404]
129363707  alyref; THO complex subunit 4 isoform X1 [KO:K12881]
129363959  nudt21; cleavage and polyadenylation specificity factor subunit 5 [KO:K14397]
129364439  cstf3; cleavage stimulation factor subunit 3 [KO:K14408]
129364649  pabpn1; polyadenylate-binding protein 2 isoform X1 [KO:K14396]
129365114  srrm1; serine/arginine repetitive matrix protein 1 isoform X1 [KO:K13171]
129365198  ppp2r3a; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit alpha isoform X1 [KO:K11583]
129365223  pabpc4; polyadenylate-binding protein 4 [KO:K13126]
129365291  ppp2r3c; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit gamma [KO:K11583]
129365452  [KO:K06269] [EC:3.1.3.16]
129365514  pnn; pinin [KO:K13114]
129365993  [KO:K04382] [EC:3.1.3.16]
129366092  gle1; LOW QUALITY PROTEIN: mRNA export factor GLE1 [KO:K18723]
129366632  ppp2r2ab; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform [KO:K04354]
129367013  [KO:K12881]
129367616  [KO:K13126]
129368699  msi2b; RNA-binding protein Musashi homolog 2b isoform X1 [KO:K14411]
129369095  ppp2r5cb; protein phosphatase 2, regulatory subunit B', gamma b isoform X1 [KO:K11584]
129369645  [KO:K14398]
129369661  pabpn1l; embryonic polyadenylate-binding protein 2 [KO:K14396]
129370107  fip1l1a; pre-mRNA 3'-end-processing factor FIP1 isoform X1 [KO:K14405]
129370119  pym1; partner of Y14 and mago [KO:K14294]
129370332  [KO:K13126]
129370662  pcf11; LOW QUALITY PROTEIN: pre-mRNA cleavage complex 2 protein Pcf11 [KO:K14400]
129370798  rbm8a; RNA-binding protein 8A isoform X1 [KO:K12876]
129370981  smg5; nonsense-mediated mRNA decay factor SMG5 [KO:K11125]
129371938  dazap1; DAZ-associated protein 1 isoform X1 [KO:K14411]
129372360  upf1; regulator of nonsense transcripts 1 isoform X1 [KO:K14326] [EC:5.6.2.5 5.6.2.3]
129372462  tardbpa; TAR DNA binding protein, like isoform X1 [KO:K23600]
129372954  ppp1cc; serine/threonine-protein phosphatase PP1-gamma catalytic subunit A [KO:K06269] [EC:3.1.3.16]
129372985  ppp2r2aa; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform isoform X1 [KO:K04354]
129372991  [KO:K14411]
129373212  ncbp2; nuclear cap-binding protein subunit 2 [KO:K12883]
129373225  ppp2r5b; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit beta isoform [KO:K11584]
129373621  smg6; telomerase-binding protein EST1A isoform X1 [KO:K11124] [EC:3.1.-.-]
129373720  ppp1caa; protein phosphatase 1, catalytic subunit, alpha isozyme a [KO:K06269] [EC:3.1.3.16]
129374034  casc3; protein CASC3 [KO:K14323]
129374429  [KO:K06100]
129374671  [KO:K14403] [EC:3.1.27.-]
129374767  ppp2r5ca; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit gamma isoform isoform X1 [KO:K11584]
129375013  [KO:K13126]
129375303  ppp2r5a; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit alpha isoform [KO:K11584]
129375345  cpsf2; cleavage and polyadenylation specificity factor subunit 2 [KO:K14402]
129375384  rngtt; mRNA-capping enzyme [KO:K13917] [EC:2.7.7.50 3.6.1.74]
129375482  cpsf6; cleavage and polyadenylation specificity factor subunit 6 isoform X1 [KO:K14398]
129376276  cpsf1; cleavage and polyadenylation specificity factor subunit 1 [KO:K14401]
129377212  ddx19a; ATP-dependent RNA helicase DDX19A [KO:K18655] [EC:5.6.2.7]
129377256  ppp2r5eb; protein phosphatase 2, regulatory subunit B', epsilon isoform X1 [KO:K11584]
129377702  pelo; protein pelota homolog [KO:K06965]
129377703  [KO:K06269] [EC:3.1.3.16]
129377873  gspt1; eukaryotic peptide chain release factor GTP-binding subunit ERF3A [KO:K03267]
129378346  [KO:K06269] [EC:3.1.3.16]
129379062  sap18; histone deacetylase complex subunit SAP18 [KO:K14324]
129379389  acin1b; apoptotic chromatin condensation inducer 1b [KO:K12875]
129379700  magoh; protein mago nashi homolog [KO:K12877]
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
pprl03013  Nucleocytoplasmic transport
pprl03018  RNA degradation
pprl03040  Spliceosome
KO pathway
ko03015   

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