KEGG   PATHWAY: cjc03015
Entry
cjc03015                    Pathway                                
Name
mRNA surveillance pathway - Callithrix jacchus (white-tufted-ear marmoset)
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
cjc03015  mRNA surveillance pathway
cjc03015

Other DBs
GO: 0071028
Organism
Callithrix jacchus (white-tufted-ear marmoset) [GN:cjc]
Gene
100398174  NCBP1; nuclear cap-binding protein subunit 1 isoform X1 [KO:K12882]
100404338  NCBP2; nuclear cap-binding protein subunit 2 isoform X1 [KO:K12883]
118150460  NCBP2L; LOW QUALITY PROTEIN: nuclear cap-binding protein subunit 2-like [KO:K12883]
100385275  UPF3A; regulator of nonsense transcripts 3A isoform X1 [KO:K14328]
100388330  UPF3B; regulator of nonsense transcripts 3B isoform X1 [KO:K14328]
100399389  RBM8A; RNA-binding protein 8A isoform X1 [KO:K12876]
100397294  MAGOHB; protein mago nashi homolog 2 isoform X1 [KO:K12877]
100414778  MAGOH; protein mago nashi homolog [KO:K12877]
100409366  CASC3; protein CASC3 [KO:K14323]
100414274  EIF4A3; eukaryotic initiation factor 4A-III [KO:K13025] [EC:5.6.2.7]
118143659  eukaryotic initiation factor 4A-III-like [KO:K13025] [EC:5.6.2.7]
100390014  SAP18; histone deacetylase complex subunit SAP18 [KO:K14324]
100385009  PNN; pinin [KO:K13114]
100395500  ACIN1; LOW QUALITY PROTEIN: apoptotic chromatin condensation inducer in the nucleus [KO:K12875]
100403592  RNPS1; RNA-binding protein with serine-rich domain 1 isoform X2 [KO:K14325]
118153902  ALYREF; THO complex subunit 4 [KO:K12881]
100414615  DDX19A; ATP-dependent RNA helicase DDX19A [KO:K18655] [EC:5.6.2.7]
103789493  ATP-dependent RNA helicase DDX19B isoform X6 [KO:K18655] [EC:5.6.2.7]
100407740  GLE1; mRNA export factor GLE1 [KO:K18723]
100399719  NXF1; nuclear RNA export factor 1 isoform X2 [KO:K14284]
100386998  nuclear RNA export factor 2-like [KO:K14284]
100414986  nuclear RNA export factor 2 isoform X1 [KO:K14284]
100397387  NXF3; nuclear RNA export factor 3 isoform X6 [KO:K14284]
103790736  nuclear RNA export factor 2 [KO:K14284]
100405107  NXT1; NTF2-related export protein 1 [KO:K14285]
100410924  NXT2; NTF2-related export protein 2 isoform X1 [KO:K14285]
100395064  DDX39B; spliceosome RNA helicase DDX39B [KO:K12812] [EC:5.6.2.7]
108587742  PYM1; partner of Y14 and mago isoform X1 [KO:K14294]
100385227  LOW QUALITY PROTEIN: serine/arginine repetitive matrix protein 1-like [KO:K13171]
100389073  SRRM1; serine/arginine repetitive matrix protein 1 isoform X5 [KO:K13171]
100394937  RNGTT; mRNA-capping enzyme isoform X1 [KO:K13917] [EC:2.7.7.50 3.6.1.74]
100407846  RNMT; mRNA cap guanine-N7 methyltransferase [KO:K00565] [EC:2.1.1.56]
100395517  FUS; RNA-binding protein FUS isoform X1 [KO:K13098]
100405373  TARDBP; TAR DNA-binding protein 43 [KO:K23600]
100396934  polyadenylate-binding protein 2 isoform X1 [KO:K14396]
100389399  PABPN1L; embryonic polyadenylate-binding protein 2 [KO:K14396]
100394109  NUDT21; cleavage and polyadenylation specificity factor subunit 5 isoform X2 [KO:K14397]
100387773  CPSF7; cleavage and polyadenylation specificity factor subunit 7 isoform X1 [KO:K14398]
100393328  CPSF6; cleavage and polyadenylation specificity factor subunit 6 isoform X4 [KO:K14398]
100400674  PAPOLA; poly(A) polymerase alpha isoform X3 [KO:K14376] [EC:2.7.7.19]
100413972  PAPOLG; poly(A) polymerase gamma isoform X1 [KO:K14376] [EC:2.7.7.19]
100411243  PAPOLB; poly(A) polymerase beta [KO:K14376] [EC:2.7.7.19]
100386802  CLP1; polyribonucleotide 5'-hydroxyl-kinase Clp1 [KO:K14399] [EC:2.7.1.78]
100392833  PCF11; pre-mRNA cleavage complex 2 protein Pcf11 isoform X2 [KO:K14400]
100401197  CPSF1; cleavage and polyadenylation specificity factor subunit 1 isoform X1 [KO:K14401]
100395136  CPSF2; cleavage and polyadenylation specificity factor subunit 2 isoform X2 [KO:K14402]
100407252  CPSF3; cleavage and polyadenylation specificity factor subunit 3 isoform X1 [KO:K14403] [EC:3.1.27.-]
103788604  CPSF4; cleavage and polyadenylation specificity factor subunit 4 isoform X1 [KO:K14404]
100895892  FIP1L1; pre-mRNA 3'-end-processing factor FIP1 [KO:K14405]
100405131  WDR33; pre-mRNA 3' end processing protein WDR33 isoform X1 [KO:K15542]
100388760  WDR82; WD repeat-containing protein 82 isoform X1 [KO:K14962]
100386375  WD repeat-containing protein 82-like [KO:K14962]
100410496  serine/threonine-protein phosphatase PP1-gamma catalytic subunit-like [KO:K06269] [EC:3.1.3.16]
100396453  PPP1CA; serine/threonine-protein phosphatase PP1-alpha catalytic subunit [KO:K06269] [EC:3.1.3.16]
100394435  PPP1CB; serine/threonine-protein phosphatase PP1-beta catalytic subunit isoform X1 [KO:K06269] [EC:3.1.3.16]
100391612  serine/threonine-protein phosphatase PP1-gamma catalytic subunit-like [KO:K06269] [EC:3.1.3.16]
100402258  PPP1CC; serine/threonine-protein phosphatase PP1-gamma catalytic subunit [KO:K06269] [EC:3.1.3.16]
100411906  SSU72; RNA polymerase II subunit A C-terminal domain phosphatase SSU72 isoform X2 [KO:K15544] [EC:3.1.3.16]
100398694  CSTF1; cleavage stimulation factor subunit 1 [KO:K14406]
100395529  LOW QUALITY PROTEIN: cleavage stimulation factor subunit 1-like [KO:K14406]
103796738  CSTF2T; cleavage stimulation factor subunit 2 tau variant [KO:K14407]
100402701  CSTF2; cleavage stimulation factor subunit 2 isoform X6 [KO:K14407]
100397369  LOW QUALITY PROTEIN: cleavage stimulation factor subunit 2 tau variant-like [KO:K14407]
100408807  CSTF3; cleavage stimulation factor subunit 3 isoform X1 [KO:K14408]
100412467  SYMPK; symplekin isoform X1 [KO:K06100]
100390978  MSI2; RNA-binding protein Musashi homolog 2 isoform X1 [KO:K14411]
100395069  DAZAP1; DAZ-associated protein 1 isoform X1 [KO:K14411]
100412167  MSI1; RNA-binding protein Musashi homolog 1 isoform X1 [KO:K14411]
100389746  PABPC4L; polyadenylate-binding protein 4-like [KO:K13126]
100413032  PABPC1; polyadenylate-binding protein 1 isoform X1 [KO:K13126]
100395684  PABPC3; polyadenylate-binding protein 3 [KO:K13126]
100406206  PABPC1L; polyadenylate-binding protein 1-like [KO:K13126]
100399096  PABPC4; polyadenylate-binding protein 4 isoform X1 [KO:K13126]
100399785  polyadenylate-binding protein 1-like 2 [KO:K13126]
100385809  PABPC5; polyadenylate-binding protein 5 [KO:K13126]
100403792  LOW QUALITY PROTEIN: polyadenylate-binding protein 4-like [KO:K13126]
100406124  polyadenylate-binding protein 1-like [KO:K13126]
100411130  polyadenylate-binding protein 1-like [KO:K13126]
108589964  PABPC1L2B; polyadenylate-binding protein 1-like 2 [KO:K13126]
100407263  ETF1; eukaryotic peptide chain release factor subunit 1 isoform X1 [KO:K03265]
100413998  GSPT1; eukaryotic peptide chain release factor GTP-binding subunit ERF3A isoform X1 [KO:K03267]
100396166  GSPT2; eukaryotic peptide chain release factor GTP-binding subunit ERF3B [KO:K03267]
118155343  eukaryotic peptide chain release factor GTP-binding subunit ERF3A [KO:K03267]
100388434  UPF1; regulator of nonsense transcripts 1 isoform X1 [KO:K14326] [EC:5.6.2.5 5.6.2.3]
100394499  UPF2; regulator of nonsense transcripts 2 isoform X1 [KO:K14327]
100410734  SMG1; serine/threonine-protein kinase SMG1 isoform X4 [KO:K08873] [EC:2.7.11.1]
100399275  SMG7; nonsense-mediated mRNA decay factor SMG7 isoform X7 [KO:K14409]
100403998  SMG5; nonsense-mediated mRNA decay factor SMG5 isoform X1 [KO:K11125]
100395317  SMG6; telomerase-binding protein EST1A isoform X1 [KO:K11124] [EC:3.1.-.-]
100395261  PPP2CB; serine/threonine-protein phosphatase 2A catalytic subunit beta isoform [KO:K04382] [EC:3.1.3.16]
100398536  PPP2CA; serine/threonine-protein phosphatase 2A catalytic subunit alpha isoform [KO:K04382] [EC:3.1.3.16]
100408674  PPP2R1B; serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A beta isoform isoform X3 [KO:K03456]
100413664  PPP2R1A; serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A alpha isoform [KO:K03456]
100385385  PPP2R2D; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B delta isoform isoform X1 [KO:K04354]
100407485  PPP2R2A; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform isoform X3 [KO:K04354]
100407627  PPP2R2B; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B beta isoform isoform X6 [KO:K04354]
100386371  PPP2R2C; protein phosphatase 2, regulatory subunit B, gamma isoform X3 [KO:K04354]
100399834  PPP2R3C; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit gamma isoform X1 [KO:K11583]
100398540  PPP2R3A; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit alpha isoform X1 [KO:K11583]
100404394  PPP2R3B; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit beta isoform X1 [KO:K11583]
128928017  serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit beta isoform X1 [KO:K11583]
100415024  PPP2R5C; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit gamma isoform [KO:K11584]
100413827  PPP2R5E; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit epsilon isoform isoform X1 [KO:K11584]
100407360  PPP2R5B; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit beta isoform isoform X1 [KO:K11584]
100411858  PPP2R5A; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit alpha isoform isoform X1 [KO:K11584]
100414007  PPP2R5D; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit delta isoform [KO:K11584]
100404628  HBS1L; HBS1-like protein isoform X1 [KO:K14416]
100414352  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
cjc03013  Nucleocytoplasmic transport
cjc03018  RNA degradation
cjc03040  Spliceosome
KO pathway
ko03015   
LinkDB

DBGET integrated database retrieval system