KEGG   PATHWAY: pale03015
Entry
pale03015                   Pathway                                
Name
mRNA surveillance pathway - Pteropus alecto (black flying fox)
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
pale03015  mRNA surveillance pathway
pale03015

Other DBs
GO: 0071028
Organism
Pteropus alecto (black flying fox) [GN:pale]
Gene
102877902  RNPS1; RNA-binding protein with serine-rich domain 1 isoform X1 [KO:K14325]
102878222  RNMT; mRNA cap guanine-N7 methyltransferase [KO:K00565] [EC:2.1.1.56]
102878529  [KO:K03267]
102879054  PPP2R5C; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit gamma isoform isoform X1 [KO:K11584]
102879117  [KO:K14285]
102879573  UPF3A; regulator of nonsense transcripts 3A isoform X9 [KO:K14328]
102880375  CSTF1; cleavage stimulation factor subunit 1 [KO:K14406]
102880388  MSI2; RNA-binding protein Musashi homolog 2 [KO:K14411]
102880505  GSPT1; eukaryotic peptide chain release factor GTP-binding subunit ERF3A isoform X1 [KO:K03267]
102880566  [KO:K12877]
102880742  CSTF3; cleavage stimulation factor subunit 3 [KO:K14408]
102880793  CSTF2; cleavage stimulation factor subunit 2 [KO:K14407]
102880885  PABPC1L; polyadenylate-binding protein 1-like [KO:K13126]
102881266  PPP2R5A; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit alpha isoform [KO:K11584]
102881448  PPP1CB; serine/threonine-protein phosphatase PP1-beta catalytic subunit [KO:K06269] [EC:3.1.3.16]
102881765  [KO:K15544] [EC:3.1.3.16]
102882095  [KO:K14284]
102882114  CASC3; protein CASC3 [KO:K14323]
102882309  WDR33; pre-mRNA 3' end processing protein WDR33 [KO:K15542]
102882824  PPP2R2A; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform isoform X1 [KO:K04354]
102882945  [KO:K13126]
102883211  PAPOLG; poly(A) polymerase gamma [KO:K14376] [EC:2.7.7.19]
102883822  CPSF4L; putative cleavage and polyadenylation specificity factor subunit 4-like protein [KO:K14404]
102883827  [KO:K12875]
102884320  NCBP1; nuclear cap-binding protein subunit 1 isoform X1 [KO:K12882]
102884453  UPF1; regulator of nonsense transcripts 1 [KO:K14326] [EC:5.6.2.5 5.6.2.3]
102884473  CSTF2T; cleavage stimulation factor subunit 2 tau variant [KO:K14407]
102884648  PPP2R3A; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit alpha isoform X1 [KO:K11583]
102884983  PCF11; pre-mRNA cleavage complex 2 protein Pcf11 isoform X1 [KO:K14400]
102885227  PAPOLB; poly(A) polymerase beta [KO:K14376] [EC:2.7.7.19]
102885289  PPP2CA; serine/threonine-protein phosphatase 2A catalytic subunit alpha isoform [KO:K04382] [EC:3.1.3.16]
102885487  NUDT21; cleavage and polyadenylation specificity factor subunit 5 [KO:K14397]
102885580  EIF4A3; eukaryotic initiation factor 4A-III isoform X1 [KO:K13025] [EC:5.6.2.7]
102885635  SRRM1; serine/arginine repetitive matrix protein 1 isoform X1 [KO:K13171]
102885945  PABPC4L; polyadenylate-binding protein 4-like [KO:K13126]
102885992  SMG1; serine/threonine-protein kinase SMG1 isoform X1 [KO:K08873] [EC:2.7.11.1]
102886005  TARDBP; TAR DNA-binding protein 43 [KO:K23600]
102886168  PNN; pinin [KO:K13114]
102886768  MAGOH; protein mago nashi homolog [KO:K12877]
102886868  SAP18; histone deacetylase complex subunit SAP18 [KO:K14324]
102887013  PPP2CB; serine/threonine-protein phosphatase 2A catalytic subunit beta isoform [KO:K04382] [EC:3.1.3.16]
102887035  PABPC5; polyadenylate-binding protein 5 [KO:K13126]
102887246  NXF1; nuclear RNA export factor 1 [KO:K14284]
102887305  NCBP2; LOW QUALITY PROTEIN: nuclear cap-binding protein subunit 2 [KO:K12883]
102887732  RNGTT; mRNA-capping enzyme isoform X1 [KO:K13917] [EC:2.7.7.50 3.6.1.74]
102887735  PABPN1L; embryonic polyadenylate-binding protein 2 [KO:K14396]
102887827  PPP1CC; serine/threonine-protein phosphatase PP1-gamma catalytic subunit [KO:K06269] [EC:3.1.3.16]
102888091  FUS; RNA-binding protein FUS isoform X1 [KO:K13098]
102888158  [KO:K14284]
102888227  CPSF2; cleavage and polyadenylation specificity factor subunit 2 [KO:K14402]
102888540  DDX39B; spliceosome RNA helicase DDX39B [KO:K12812] [EC:5.6.2.7]
102888692  PPP2R2B; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B beta isoform isoform X1 [KO:K04354]
102888699  PPP2R1A; serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A alpha isoform [KO:K03456]
102888897  ALYREF; THO complex subunit 4 [KO:K12881]
102890325  CPSF1; cleavage and polyadenylation specificity factor subunit 1 isoform X1 [KO:K14401]
102890688  SSU72; RNA polymerase II subunit A C-terminal domain phosphatase SSU72 [KO:K15544] [EC:3.1.3.16]
102890706  CLP1; polyribonucleotide 5'-hydroxyl-kinase Clp1 [KO:K14399] [EC:2.7.1.78]
102890793  SMG7; protein SMG7 isoform X2 [KO:K14409]
102891022  SMG6; telomerase-binding protein EST1A isoform X2 [KO:K11124] [EC:3.1.-.-]
102891063  HBS1L; HBS1-like protein isoform X1 [KO:K14416]
102891533  PPP2R3C; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit gamma [KO:K11583]
102891650  DAZAP1; DAZ-associated protein 1 [KO:K14411]
102892254  PPP1CA; serine/threonine-protein phosphatase PP1-alpha catalytic subunit [KO:K06269] [EC:3.1.3.16]
102892297  ETF1; eukaryotic peptide chain release factor subunit 1 isoform X1 [KO:K03265]
102892419  MSI1; RNA-binding protein Musashi homolog 1 [KO:K14411]
102892473  UPF3B; regulator of nonsense transcripts 3B isoform X1 [KO:K14328]
102892945  PPP2R2C; protein phosphatase 2, regulatory subunit B, gamma [KO:K04354]
102892994  PYM1; partner of Y14 and mago isoform X1 [KO:K14294]
102893535  FIP1L1; pre-mRNA 3'-end-processing factor FIP1 isoform X4 [KO:K14405]
102893757  PABPC1; polyadenylate-binding protein 1 isoform X3 [KO:K13126]
102894311  CPSF3; cleavage and polyadenylation specificity factor subunit 3 isoform X1 [KO:K14403] [EC:3.1.27.-]
102894458  UPF2; regulator of nonsense transcripts 2 isoform X2 [KO:K14327]
102894487  PPP2R1B; serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A beta isoform [KO:K03456]
102895039  PABPC4; polyadenylate-binding protein 4 isoform X1 [KO:K13126]
102895083  SYMPK; symplekin [KO:K06100]
102895116  CPSF6; cleavage and polyadenylation specificity factor subunit 6 [KO:K14398]
102895399  PPP2R5B; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit beta isoform [KO:K11584]
102895835  DDX19A; ATP-dependent RNA helicase DDX19A isoform X1 [KO:K18655] [EC:5.6.2.7]
102895876  SMG5; protein SMG5 [KO:K11125]
102896096  [KO:K18655] [EC:5.6.2.7]
102896098  CPSF7; cleavage and polyadenylation specificity factor subunit 7 isoform X1 [KO:K14398]
102896797  NCBP2L; LOW QUALITY PROTEIN: nuclear cap-binding protein subunit 2-like [KO:K12883]
102896806  PPP2R3B; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit beta isoform X1 [KO:K11583]
102896820  RBM8A; RNA-binding protein 8A isoform X1 [KO:K12876]
102896944  PELO; protein pelota homolog [KO:K06965]
102897103  NXT1; NTF2-related export protein 1 [KO:K14285]
102897158  PAPOLA; poly(A) polymerase alpha isoform X1 [KO:K14376] [EC:2.7.7.19]
102897902  PPP2R5D; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit delta isoform isoform X1 [KO:K11584]
102898259  CPSF4; cleavage and polyadenylation specificity factor subunit 4 isoform X4 [KO:K14404]
102898356  NXF3; nuclear RNA export factor 3 [KO:K14284]
102898938  PPP2R5E; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit epsilon isoform isoform X1 [KO:K11584]
102898949  WDR82; WD repeat-containing protein 82 [KO:K14962]
102899018  GLE1; nucleoporin GLE1 [KO:K18723]
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
pale03013  Nucleocytoplasmic transport
pale03018  RNA degradation
pale03040  Spliceosome
KO pathway
ko03015   

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