KEGG   PATHWAY: mlx03015
Entry
mlx03015                    Pathway                                
Name
mRNA surveillance pathway - Mirounga leonina (Southern elephant seal)
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
mlx03015  mRNA surveillance pathway
mlx03015

Other DBs
GO: 0071028
Organism
Mirounga leonina (Southern elephant seal) [GN:mlx]
Gene
117997823  PPP2R2D; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B delta isoform isoform X1 [KO:K04354]
117998149  SYMPK; symplekin isoform X1 [KO:K06100]
117998379  PPP2R1A; serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A alpha isoform isoform X1 [KO:K03456]
117998978  NXF3; LOW QUALITY PROTEIN: nuclear RNA export factor 3 [KO:K14284]
117998980  [KO:K13126]
117999309  PAPOLB; poly(A) polymerase beta [KO:K14376] [EC:2.7.7.19]
117999368  CPSF4; cleavage and polyadenylation specificity factor subunit 4 isoform X1 [KO:K14404]
117999562  FUS; RNA-binding protein FUS isoform X1 [KO:K13098]
118000270  RBM8A; RNA-binding protein 8A isoform X1 [KO:K12876]
118000816  HBS1L; HBS1-like protein isoform X1 [KO:K14416]
118001186  PPP2R5D; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit delta isoform [KO:K11584]
118001301  RNGTT; mRNA-capping enzyme [KO:K13917] [EC:2.7.7.50 3.6.1.74]
118002194  PAPOLA; poly(A) polymerase alpha isoform X1 [KO:K14376] [EC:2.7.7.19]
118002322  PPP2R5E; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit epsilon isoform [KO:K11584]
118002344  PPP2R5C; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit gamma isoform isoform X1 [KO:K11584]
118002423  PNN; pinin [KO:K13114]
118002673  CPSF2; cleavage and polyadenylation specificity factor subunit 2 [KO:K14402]
118002828  [KO:K11583]
118002870  [KO:K11583]
118003365  PABPN1; polyadenylate-binding protein 2 isoform X1 [KO:K14396]
118003463  ACIN1; apoptotic chromatin condensation inducer in the nucleus [KO:K12875]
118004050  PPP2R3A; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit alpha isoform X1 [KO:K11583]
118004080  [KO:K14325]
118004188  [KO:K15544] [EC:3.1.3.16]
118004323  PCF11; LOW QUALITY PROTEIN: pre-mRNA cleavage complex 2 protein Pcf11 [KO:K14400]
118005640  UPF1; regulator of nonsense transcripts 1 isoform X1 [KO:K14326] [EC:5.6.2.5 5.6.2.3]
118005718  WDR82; WD repeat-containing protein 82 [KO:K14962]
118005992  DAZAP1; DAZ-associated protein 1 isoform X1 [KO:K14411]
118006651  [KO:K06965]
118006777  [KO:K06965]
118006970  NCBP2; nuclear cap-binding protein subunit 2 [KO:K12883]
118007301  [KO:K14403] [EC:3.1.27.-]
118007357  [KO:K14403] [EC:3.1.27.-]
118007723  PPP1CB; serine/threonine-protein phosphatase PP1-beta catalytic subunit [KO:K06269] [EC:3.1.3.16]
118008092  PAPOLG; poly(A) polymerase gamma isoform X1 [KO:K14376] [EC:2.7.7.19]
118008587  CPSF6; cleavage and polyadenylation specificity factor subunit 6 isoform X1 [KO:K14398]
118008658  [KO:K15544] [EC:3.1.3.16]
118008737  PYM1; partner of Y14 and mago isoform X1 [KO:K14294]
118009206  UPF3A; regulator of nonsense transcripts 3A isoform X1 [KO:K14328]
118009594  SAP18; histone deacetylase complex subunit SAP18 [KO:K14324]
118009990  PPP2CB; serine/threonine-protein phosphatase 2A catalytic subunit beta isoform [KO:K04382] [EC:3.1.3.16]
118010189  [KO:K14324]
118010483  GSPT2; eukaryotic peptide chain release factor GTP-binding subunit ERF3B isoform X1 [KO:K03267]
118010523  FIP1L1; pre-mRNA 3'-end-processing factor FIP1 isoform X1 [KO:K14405]
118010733  PPP2R2C; protein phosphatase 2, regulatory subunit B, gamma [KO:K04354]
118011179  NXT1; NTF2-related export protein 1 [KO:K14285]
118011300  NCBP2L; LOW QUALITY PROTEIN: nuclear cap-binding protein subunit 2-like [KO:K12883]
118011522  PABPC1L; polyadenylate-binding protein 1-like [KO:K13126]
118012009  NXT2; NTF2-related export protein 2 isoform X1 [KO:K14285]
118012405  UPF3B; regulator of nonsense transcripts 3B isoform X1 [KO:K14328]
118012575  WDR33; pre-mRNA 3' end processing protein WDR33 isoform X1 [KO:K15542]
118012978  CSTF2T; cleavage stimulation factor subunit 2 tau variant [KO:K14407]
118013220  PPP2R1B; serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A beta isoform isoform X1 [KO:K03456]
118013904  SMG5; protein SMG5 isoform X1 [KO:K11125]
118014309  PPP2R5A; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit alpha isoform isoform X1 [KO:K11584]
118014373  SMG7; protein SMG7 isoform X1 [KO:K14409]
118015077  PABPC1; polyadenylate-binding protein 1 isoform X1 [KO:K13126]
118015315  CPSF1; cleavage and polyadenylation specificity factor subunit 1 isoform X1 [KO:K14401]
118015744  CSTF3; cleavage stimulation factor subunit 3 isoform X1 [KO:K14408]
118015866  CLP1; polyribonucleotide 5'-hydroxyl-kinase Clp1 [KO:K14399] [EC:2.7.1.78]
118015914  CPSF7; cleavage and polyadenylation specificity factor subunit 7 isoform X1 [KO:K14398]
118015957  NXF1; nuclear RNA export factor 1 isoform X1 [KO:K14284]
118016017  PPP2R5B; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit beta isoform [KO:K11584]
118016125  PPP1CA; serine/threonine-protein phosphatase PP1-alpha catalytic subunit [KO:K06269] [EC:3.1.3.16]
118016443  RNMT; mRNA cap guanine-N7 methyltransferase [KO:K00565] [EC:2.1.1.56]
118016640  PPP2CA; serine/threonine-protein phosphatase 2A catalytic subunit alpha isoform [KO:K04382] [EC:3.1.3.16]
118016687  ETF1; eukaryotic peptide chain release factor subunit 1 isoform X1 [KO:K03265]
118016779  PPP2R2B; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B beta isoform isoform X1 [KO:K04354]
118017828  [KO:K14324]
118017918  NCBP1; nuclear cap-binding protein subunit 1 isoform X1 [KO:K12882]
118018468  PPP1CC; serine/threonine-protein phosphatase PP1-gamma catalytic subunit [KO:K06269] [EC:3.1.3.16]
118018541  MSI1; RNA-binding protein Musashi homolog 1 [KO:K14411]
118019398  MAGOH; protein mago nashi homolog [KO:K12877]
118019584  PABPC4; polyadenylate-binding protein 4 isoform X1 [KO:K13126]
118019872  SRRM1; serine/arginine repetitive matrix protein 1 isoform X1 [KO:K13171]
118020014  TARDBP; TAR DNA-binding protein 43 [KO:K23600]
118020110  SSU72; RNA polymerase II subunit A C-terminal domain phosphatase SSU72 [KO:K15544] [EC:3.1.3.16]
118020543  [KO:K13126]
118021588  UPF2; regulator of nonsense transcripts 2 isoform X1 [KO:K14327]
118021726  RNPS1; RNA-binding protein with serine-rich domain 1 isoform X1 [KO:K14325]
118021840  GSPT1; eukaryotic peptide chain release factor GTP-binding subunit ERF3A [KO:K03267]
118021872  SMG1; serine/threonine-protein kinase SMG1 isoform X1 [KO:K08873] [EC:2.7.11.1]
118022103  PPP2R2A; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform isoform X1 [KO:K04354]
118022325  PABPC4L; polyadenylate-binding protein 4-like [KO:K13126]
118023294  CSTF2; cleavage stimulation factor subunit 2 isoform X1 [KO:K14407]
118023398  PABPN1L; LOW QUALITY PROTEIN: embryonic polyadenylate-binding protein 2 [KO:K14396]
118023582  DDX19B; ATP-dependent RNA helicase DDX19B isoform X1 [KO:K18655] [EC:5.6.2.7]
118023768  NUDT21; cleavage and polyadenylation specificity factor subunit 5 [KO:K14397]
118023984  CSTF1; cleavage stimulation factor subunit 1 [KO:K14406]
118024161  ALYREF; THO complex subunit 4 [KO:K12881]
118024196  EIF4A3; eukaryotic initiation factor 4A-III [KO:K13025] [EC:5.6.2.7]
118024314  CPSF4L; putative cleavage and polyadenylation specificity factor subunit 4-like protein [KO:K14404]
118024715  MSI2; RNA-binding protein Musashi homolog 2 isoform X1 [KO:K14411]
118024858  CASC3; protein CASC3 isoform X1 [KO:K14323]
118025197  SMG6; telomerase-binding protein EST1A isoform X1 [KO:K11124] [EC:3.1.-.-]
118025667  MAGOHB; protein mago nashi homolog 2 isoform X1 [KO:K12877]
118025875  [KO:K13126]
118025975  [KO:K13126]
118026082  PABPC5; polyadenylate-binding protein 5 [KO:K13126]
118026663  PPP2R3B; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit beta isoform X1 [KO:K11583]
118026713  [KO:K14324]
118027348  DDX39B; spliceosome RNA helicase DDX39B [KO:K12812] [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
mlx03013  Nucleocytoplasmic transport
mlx03018  RNA degradation
mlx03040  Spliceosome
KO pathway
ko03015   

DBGET integrated database retrieval system