KEGG   PATHWAY: dsp03015
Entry
dsp03015                    Pathway                                
Name
mRNA surveillance pathway - Dipodomys spectabilis (banner-tailed kangaroo rat)
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
dsp03015  mRNA surveillance pathway
dsp03015

Other DBs
GO: 0071028
Organism
Dipodomys spectabilis (banner-tailed kangaroo rat) [GN:dsp]
Gene
122095370  Gspt2; eukaryotic peptide chain release factor GTP-binding subunit ERF3B isoform X1 [KO:K03267]
122095620  Wdr82; WD repeat-containing protein 82 [KO:K14962]
122096057  Nxt1; NTF2-related export protein 1 [KO:K14285]
122096207  Fus; RNA-binding protein FUS isoform X1 [KO:K13098]
122096395  [KO:K13126]
122096396  [KO:K13126]
122096746  Hbs1l; HBS1-like protein isoform X1 [KO:K14416]
122098133  Ncbp2; nuclear cap-binding protein subunit 2 [KO:K12883]
122098491  Ppp1cc; serine/threonine-protein phosphatase PP1-gamma catalytic subunit isoform X1 [KO:K06269] [EC:3.1.3.16]
122098853  Cpsf1; cleavage and polyadenylation specificity factor subunit 1 isoform X1 [KO:K14401]
122099043  Msi1; RNA-binding protein Musashi homolog 1 [KO:K14411]
122099369  Eif4a3; eukaryotic initiation factor 4A-III [KO:K13025] [EC:5.6.2.7]
122099414  Alyref; THO complex subunit 4 [KO:K12881]
122099750  Ppp2r2c; protein phosphatase 2, regulatory subunit B, gamma [KO:K04354]
122099862  Ppp2r3a; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit alpha [KO:K11583]
122100318  Msi2; RNA-binding protein Musashi homolog 2 isoform X1 [KO:K14411]
122100816  Upf1; regulator of nonsense transcripts 1 isoform X1 [KO:K14326] [EC:5.6.2.5 5.6.2.3]
122101032  Smg1; serine/threonine-protein kinase SMG1 isoform X1 [KO:K08873] [EC:2.7.11.1]
122101223  [KO:K11583]
122101491  Ppp2r5d; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit delta isoform isoform X1 [KO:K11584]
122101842  Ppp2r2d; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B delta isoform isoform X1 [KO:K04354]
122101901  Smg6; telomerase-binding protein EST1A isoform X1 [KO:K11124] [EC:3.1.-.-]
122102303  Pabpc1; polyadenylate-binding protein 1 [KO:K13126]
122102478  [KO:K11125]
122102869  [KO:K12877]
122102886  Ppp2r3b; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit beta [KO:K11583]
122103184  Casc3; protein CASC3 [KO:K14323]
122103674  Smg7; protein SMG7 isoform X1 [KO:K14409]
122104663  Ppp2r5b; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit beta isoform [KO:K11584]
122104665  Cpsf7; cleavage and polyadenylation specificity factor subunit 7 isoform X1 [KO:K14398]
122104673  Ppp1ca; serine/threonine-protein phosphatase PP1-alpha catalytic subunit [KO:K06269] [EC:3.1.3.16]
122104902  Nxf1; nuclear RNA export factor 1 [KO:K14284]
122104929  Clp1; polyribonucleotide 5'-hydroxyl-kinase Clp1 [KO:K14399] [EC:2.7.1.78]
122104951  Magoh; protein mago nashi homolog [KO:K12877]
122106164  Pabpc4; polyadenylate-binding protein 4 isoform X1 [KO:K13126]
122106294  [KO:K04382] [EC:3.1.3.16]
122106295  [KO:K04382] [EC:3.1.3.16]
122106455  Rbm8a; RNA-binding protein 8A isoform X1 [KO:K12876]
122106463  Pnn; pinin [KO:K13114]
122106534  Ppp2r3c; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit gamma [KO:K11583]
122106875  Fip1l1; pre-mRNA 3'-end-processing factor FIP1 isoform X1 [KO:K14405]
122107207  Pabpc5; polyadenylate-binding protein 5 [KO:K13126]
122107745  Rngtt; mRNA-capping enzyme isoform X1 [KO:K13917] [EC:2.7.7.50 3.6.1.74]
122108770  Cpsf3; cleavage and polyadenylation specificity factor subunit 3 isoform X1 [KO:K14403] [EC:3.1.27.-]
122109042  Gle1; nucleoporin GLE1 isoform X1 [KO:K18723]
122109339  Smg5; protein SMG5 isoform X1 [KO:K11125]
122109414  Ppp2r5a; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit alpha isoform [KO:K11584]
122110009  Ppp2r5e; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit epsilon isoform isoform X1 [KO:K11584]
122110283  Ppp2r1b; serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A beta isoform [KO:K03456]
122110440  Cstf2; cleavage stimulation factor subunit 2 isoform X1 [KO:K14407]
122110678  [KO:K03456]
122110961  Rnmt; mRNA cap guanine-N7 methyltransferase [KO:K00565] [EC:2.1.1.56]
122111063  Ddx39b; spliceosome RNA helicase DDX39B isoform X1 [KO:K12812] [EC:5.6.2.7]
122111756  [KO:K15544] [EC:3.1.3.16]
122112325  Wdr33; pre-mRNA 3' end processing protein WDR33 isoform X1 [KO:K15542]
122112576  Sap18; histone deacetylase complex subunit SAP18 [KO:K14324]
122113061  Upf2; regulator of nonsense transcripts 2 isoform X1 [KO:K14327]
122113476  Acin1; apoptotic chromatin condensation inducer in the nucleus isoform X1 [KO:K12875]
122113496  [KO:K14396]
122113736  Cpsf4; cleavage and polyadenylation specificity factor subunit 4 isoform X1 [KO:K14404]
122113742  Papolb; LOW QUALITY PROTEIN: poly(A) polymerase beta [KO:K14376] [EC:2.7.7.19]
122114314  [KO:K14285]
122114755  Pcf11; pre-mRNA cleavage complex 2 protein Pcf11 isoform X1 [KO:K14400]
122114924  Nxf3; nuclear RNA export factor 3 [KO:K14284]
122115179  Srrm1; serine/arginine repetitive matrix protein 1 isoform X1 [KO:K13171]
122115382  Ppp2ca; serine/threonine-protein phosphatase 2A catalytic subunit alpha isoform [KO:K04382] [EC:3.1.3.16]
122115722  Cstf2t; cleavage stimulation factor subunit 2 tau variant [KO:K14407]
122116290  Nudt21; cleavage and polyadenylation specificity factor subunit 5 [KO:K14397]
122116399  Nxt2; NTF2-related export protein 2 isoform X1 [KO:K14285]
122116968  Pelo; protein pelota homolog [KO:K06965]
122117462  Papolg; poly(A) polymerase gamma isoform X1 [KO:K14376] [EC:2.7.7.19]
122117675  Cstf3; cleavage stimulation factor subunit 3 [KO:K14408]
122118069  Etf1; eukaryotic peptide chain release factor subunit 1 [KO:K03265]
122118146  Ppp2r2b; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B beta isoform [KO:K04354]
122118713  Cpsf2; cleavage and polyadenylation specificity factor subunit 2 [KO:K14402]
122118794  Papola; poly(A) polymerase alpha isoform X1 [KO:K14376] [EC:2.7.7.19]
122120311  Pabpc1l; polyadenylate-binding protein 1-like isoform X1 [KO:K13126]
122121407  [KO:K23600]
122121864  Ncbp1; nuclear cap-binding protein subunit 1 [KO:K12882]
122122432  Ppp1cb; serine/threonine-protein phosphatase PP1-beta catalytic subunit [KO:K06269] [EC:3.1.3.16]
122122586  Ppp2r5c; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit gamma isoform isoform X1 [KO:K11584]
122122680  Dazap1; DAZ-associated protein 1 isoform X1 [KO:K14411]
122122798  Upf3a; regulator of nonsense transcripts 3A [KO:K14328]
122123494  Ppp2r2a; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform [KO:K04354]
122123815  Rnps1; RNA-binding protein with serine-rich domain 1 isoform X1 [KO:K14325]
122123914  Gspt1; eukaryotic peptide chain release factor GTP-binding subunit ERF3A isoform X1 [KO:K03267]
122124051  Pym1; partner of Y14 and mago isoform X1 [KO:K14294]
122124397  Cpsf6; cleavage and polyadenylation specificity factor subunit 6 isoform X1 [KO:K14398]
122124574  Cstf1; cleavage stimulation factor subunit 1 isoform X1 [KO:K14406]
122125515  [KO:K03456]
122125518  [KO:K03456]
122125535  [KO:K03456]
122125543  [KO:K03456]
122125547  [KO:K03456]
122125791  Sympk; symplekin isoform X1 [KO:K06100]
122126213  [KO:K18655] [EC:5.6.2.7]
122126239  Ddx19b; ATP-dependent RNA helicase DDX19B [KO:K18655] [EC:5.6.2.7]
122126971  Ppp2cb; serine/threonine-protein phosphatase 2A catalytic subunit beta isoform [KO:K04382] [EC:3.1.3.16]
122127339  Ssu72; RNA polymerase II subunit A C-terminal domain phosphatase SSU72 [KO:K15544] [EC:3.1.3.16]
122127947  Pabpn1l; embryonic polyadenylate-binding protein 2 [KO:K14396]
122128213  Upf3b; regulator of nonsense transcripts 3B isoform X1 [KO:K14328]
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
dsp03013  Nucleocytoplasmic transport
dsp03018  RNA degradation
dsp03040  Spliceosome
KO pathway
ko03015   

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