KEGG   PATHWAY: dord03015
Entry
dord03015                   Pathway                                
Name
mRNA surveillance pathway - Dipodomys ordii (Ord's 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
dord03015  mRNA surveillance pathway
dord03015

Other DBs
GO: 0071028
Organism
Dipodomys ordii (Ord's kangaroo rat) [GN:dord]
Gene
105980189  Fip1l1; pre-mRNA 3'-end-processing factor FIP1 [KO:K14405]
105980840  Ppp2r1b; LOW QUALITY PROTEIN: serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A beta isoform [KO:K03456]
105981577  Pabpc1l; polyadenylate-binding protein 1-like isoform X1 [KO:K13126]
105981978  Gspt1; eukaryotic peptide chain release factor GTP-binding subunit ERF3A [KO:K03267]
105982086  Smg1; serine/threonine-protein kinase SMG1 [KO:K08873] [EC:2.7.11.1]
105982131  Fus; RNA-binding protein FUS isoform X1 [KO:K13098]
105982176  Rnps1; RNA-binding protein with serine-rich domain 1 isoform X1 [KO:K14325]
105982573  Sap18; histone deacetylase complex subunit SAP18 [KO:K14324]
105982594  Ppp2r3c; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit gamma [KO:K11583]
105982658  [KO:K13114]
105982820  Pabpc1; polyadenylate-binding protein 1 [KO:K13126]
105983008  Pabpn1l; embryonic polyadenylate-binding protein 2 [KO:K14396]
105983110  [KO:K18655] [EC:5.6.2.7]
105983111  [KO:K18655] [EC:5.6.2.7]
105983690  Ppp1cb; serine/threonine-protein phosphatase PP1-beta catalytic subunit [KO:K06269] [EC:3.1.3.16]
105983730  Cpsf3; cleavage and polyadenylation specificity factor subunit 3 [KO:K14403] [EC:3.1.27.-]
105984038  Pcf11; pre-mRNA cleavage complex 2 protein Pcf11 isoform X1 [KO:K14400]
105984187  Msi1; RNA-binding protein Musashi homolog 1 [KO:K14411]
105984499  Upf2; regulator of nonsense transcripts 2 [KO:K14327]
105984698  Ppp2r5a; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit alpha isoform [KO:K11584]
105984813  Papola; poly(A) polymerase alpha isoform X1 [KO:K14376] [EC:2.7.7.19]
105985177  Ppp2r5c; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit gamma isoform isoform X1 [KO:K11584]
105985254  Smg7; protein SMG7 isoform X1 [KO:K14409]
105985502  Ppp2r5e; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit epsilon isoform [KO:K11584]
105985837  Smg6; telomerase-binding protein EST1A [KO:K11124] [EC:3.1.-.-]
105985878  Cpsf2; cleavage and polyadenylation specificity factor subunit 2 [KO:K14402]
105986148  Pabpc4; polyadenylate-binding protein 4 isoform X1 [KO:K13126]
105986322  Cstf2t; cleavage stimulation factor subunit 2 tau variant [KO:K14407]
105987138  Rbm8a; RNA-binding protein 8A isoform X1 [KO:K12876]
105987279  Pelo; protein pelota homolog [KO:K06965]
105987375  Cpsf6; cleavage and polyadenylation specificity factor subunit 6 [KO:K14398]
105987795  Ppp2r5d; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit delta isoform isoform X1 [KO:K11584]
105988005  Ncbp2; nuclear cap-binding protein subunit 2 [KO:K12883]
105988064  Cstf3; cleavage stimulation factor subunit 3 [KO:K14408]
105988276  Upf3b; regulator of nonsense transcripts 3B isoform X1 [KO:K14328]
105988710  Etf1; eukaryotic peptide chain release factor subunit 1 [KO:K03265]
105989093  Ppp2r5b; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit beta isoform [KO:K11584]
105989189  Ppp1ca; serine/threonine-protein phosphatase PP1-alpha catalytic subunit [KO:K06269] [EC:3.1.3.16]
105989285  Gle1; nucleoporin GLE1 [KO:K18723]
105989775  Ppp2r2d; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B delta isoform isoform X1 [KO:K04354]
105989959  Magoh; protein mago nashi homolog [KO:K12877]
105990192  Papolg; poly(A) polymerase gamma isoform X1 [KO:K14376] [EC:2.7.7.19]
105990327  Dazap1; DAZ-associated protein 1 [KO:K14411]
105990344  Upf3a; regulator of nonsense transcripts 3A [KO:K14328]
105990364  Wibg; partner of Y14 and mago isoform X1 [KO:K14294]
105990644  Ppp1cc; serine/threonine-protein phosphatase PP1-gamma catalytic subunit [KO:K06269] [EC:3.1.3.16]
105990823  Ncbp1; LOW QUALITY PROTEIN: nuclear cap-binding protein subunit 1 [KO:K12882]
105990849  Cpsf4; cleavage and polyadenylation specificity factor subunit 4 [KO:K14404]
105990934  Papolb; LOW QUALITY PROTEIN: poly(A) polymerase beta [KO:K14376] [EC:2.7.7.19]
105991307  Ppp2r2c; protein phosphatase 2, regulatory subunit B, gamma [KO:K04354]
105991686  Cstf1; cleavage stimulation factor subunit 1 isoform X1 [KO:K14406]
105992165  Pabpc5; polyadenylate-binding protein 5 [KO:K13126]
105992521  Acin1; apoptotic chromatin condensation inducer in the nucleus isoform X1 [KO:K12875]
105992522  Pabpn1; polyadenylate-binding protein 2 [KO:K14396]
105992581  Ppp2r2b; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B beta isoform isoform X1 [KO:K04354]
105992812  Nxt2; NTF2-related export protein 2 isoform X1 [KO:K14285]
105993351  Ppp2cb; serine/threonine-protein phosphatase 2A catalytic subunit beta isoform [KO:K04382] [EC:3.1.3.16]
105993572  Hbs1l; HBS1-like protein isoform X1 [KO:K14416]
105993685  Nxt1; NTF2-related export protein 1 [KO:K14285]
105993780  Rnmt; mRNA cap guanine-N7 methyltransferase [KO:K00565] [EC:2.1.1.56]
105994109  [KO:K14285]
105994205  [KO:K03456]
105994316  Ppp2r1a; serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A alpha isoform [KO:K03456]
105994478  Nudt21; cleavage and polyadenylation specificity factor subunit 5 [KO:K14397]
105994501  Wdr82; WD repeat-containing protein 82 [KO:K14962]
105994690  Upf1; regulator of nonsense transcripts 1 [KO:K14326] [EC:5.6.2.5 5.6.2.3]
105995160  Wdr33; pre-mRNA 3' end processing protein WDR33 isoform X1 [KO:K15542]
105995265  Nxf1; nuclear RNA export factor 1 [KO:K14284]
105995524  Cpsf7; cleavage and polyadenylation specificity factor subunit 7 isoform X1 [KO:K14398]
105996525  Smg5; protein SMG5 isoform X1 [KO:K11125]
105996781  Ppp2ca; serine/threonine-protein phosphatase 2A catalytic subunit alpha isoform [KO:K04382] [EC:3.1.3.16]
105996855  [KO:K12812] [EC:5.6.2.7]
105996861  Ddx39b; spliceosome RNA helicase DDX39B [KO:K12812] [EC:5.6.2.7]
105997846  Srrm1; serine/arginine repetitive matrix protein 1 [KO:K13171]
105997989  Sympk; symplekin [KO:K06100]
105998216  Rngtt; mRNA-capping enzyme isoform X1 [KO:K13917] [EC:2.7.7.50 3.6.1.74]
105998400  Alyref; THO complex subunit 4 [KO:K12881]
105998997  Cpsf1; cleavage and polyadenylation specificity factor subunit 1 [KO:K14401]
105999208  Tardbp; TAR DNA-binding protein 43 isoform X1 [KO:K23600]
105999392  Ppp2r2a; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform [KO:K04354]
105999592  Ppp2r3a; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit alpha [KO:K11583]
105999932  Cstf2; cleavage stimulation factor subunit 2 isoform X1 [KO:K14407]
106000456  Ssu72; RNA polymerase II subunit A C-terminal domain phosphatase SSU72 [KO:K15544] [EC:3.1.3.16]
106001098  Magohb; protein mago nashi homolog 2 isoform X1 [KO:K12877]
106001209  Gspt2; eukaryotic peptide chain release factor GTP-binding subunit ERF3B isoform X1 [KO:K03267]
106001490  Nxf3; nuclear RNA export factor 3 [KO:K14284]
106001687  [KO:K13126]
106002214  Casc3; protein CASC3 [KO:K14323]
106002502  Clp1; polyribonucleotide 5'-hydroxyl-kinase Clp1 [KO:K14399] [EC:2.7.1.78]
106003119  Msi2; RNA-binding protein Musashi homolog 2 isoform X1 [KO:K14411]
106003123  Eif4a3; eukaryotic initiation factor 4A-III [KO:K13025] [EC:5.6.2.7]
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
dord03013  Nucleocytoplasmic transport
dord03018  RNA degradation
dord03040  Spliceosome
KO pathway
ko03015   

DBGET integrated database retrieval system