KEGG   PATHWAY: bbub03015
Entry
bbub03015                   Pathway                                
Name
mRNA surveillance pathway - Bubalus bubalis (water buffalo)
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
bbub03015  mRNA surveillance pathway
bbub03015

Other DBs
GO: 0071028
Organism
Bubalus bubalis (water buffalo) [GN:bbub]
Gene
102389336  SMG6; telomerase-binding protein EST1A isoform X1 [KO:K11124] [EC:3.1.-.-]
102390645  PPP2R2A; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform isoform X2 [KO:K04354]
102390818  FIP1L1; pre-mRNA 3'-end-processing factor FIP1 isoform X15 [KO:K14405]
102391534  PAPOLA; poly(A) polymerase alpha [KO:K14376] [EC:2.7.7.19]
102392039  [KO:K14325]
102392134  UPF3B; regulator of nonsense transcripts 3B isoform X2 [KO:K14328]
102392164  PPP2R2C; protein phosphatase 2, regulatory subunit B, gamma isoform X1 [KO:K04354]
102392605  [KO:K13126]
102392707  DDX39B; spliceosome RNA helicase DDX39B [KO:K12812] [EC:5.6.2.7]
102392964  PABPC1L; polyadenylate-binding protein 1-like isoform X2 [KO:K13126]
102393123  PPP1CC; serine/threonine-protein phosphatase PP1-gamma catalytic subunit [KO:K06269] [EC:3.1.3.16]
102393889  CPSF3; cleavage and polyadenylation specificity factor subunit 3 isoform X1 [KO:K14403] [EC:3.1.27.-]
102393986  PPP2R2B; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B beta isoform isoform X6 [KO:K04354]
102394012  MSI1; RNA-binding protein Musashi homolog 1 isoform X5 [KO:K14411]
102394999  [KO:K03267]
102395018  RBM8A; RNA-binding protein 8A isoform X1 [KO:K12876]
102395186  PABPC4; polyadenylate-binding protein 4 isoform X1 [KO:K13126]
102395255  CSTF1; cleavage stimulation factor subunit 1 [KO:K14406]
102395266  PPP1CA; serine/threonine-protein phosphatase PP1-alpha catalytic subunit [KO:K06269] [EC:3.1.3.16]
102395526  CSTF3; cleavage stimulation factor subunit 3 isoform X1 [KO:K14408]
102395905  SMG7; protein SMG7 isoform X3 [KO:K14409]
102396250  NUDT21; cleavage and polyadenylation specificity factor subunit 5 [KO:K14397]
102396397  PPP2R1A; serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A alpha isoform [KO:K03456]
102396741  GSPT1; eukaryotic peptide chain release factor GTP-binding subunit ERF3A isoform X1 [KO:K03267]
102396799  PPP1CB; serine/threonine-protein phosphatase PP1-beta catalytic subunit [KO:K06269] [EC:3.1.3.16]
102397686  FUS; RNA-binding protein FUS isoform X2 [KO:K13098]
102398007  [KO:K23600]
102398381  CLP1; polyribonucleotide 5'-hydroxyl-kinase Clp1 [KO:K14399] [EC:2.7.1.78]
102398433  ETF1; eukaryotic peptide chain release factor subunit 1 [KO:K03265]
102398445  SAP18; histone deacetylase complex subunit SAP18 [KO:K14324]
102398465  PPP2CB; serine/threonine-protein phosphatase 2A catalytic subunit beta isoform [KO:K04382] [EC:3.1.3.16]
102398540  PPP2R5D; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit delta isoform isoform X2 [KO:K11584]
102399159  PPP2R3B; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit beta [KO:K11583]
102399525  PPP2R3A; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit alpha isoform X1 [KO:K11583]
102400472  [KO:K04354]
102400599  [KO:K14284]
102400845  PYM1; partner of Y14 and mago isoform X2 [KO:K14294]
102400909  PABPN1; polyadenylate-binding protein 2 isoform X1 [KO:K14396]
102400924  [KO:K14284]
102401054  PAPOLG; poly(A) polymerase gamma isoform X3 [KO:K14376] [EC:2.7.7.19]
102401275  NCBP2; nuclear cap-binding protein subunit 2 isoform X2 [KO:K12883]
102402331  NXT2; NTF2-related export protein 2 [KO:K14285]
102402428  [KO:K14284]
102403177  ACIN1; apoptotic chromatin condensation inducer in the nucleus isoform X7 [KO:K12875]
102403346  HBS1L; HBS1-like protein isoform X1 [KO:K14416]
102404906  [KO:K12877]
102404945  [KO:K14324]
102405070  SRRM1; serine/arginine repetitive matrix protein 1 isoform X8 [KO:K13171]
102405306  [KO:K15544] [EC:3.1.3.16]
102405316  PABPN1L; embryonic polyadenylate-binding protein 2 isoform X3 [KO:K14396]
102405647  [KO:K15544] [EC:3.1.3.16]
102405973  [KO:K15544] [EC:3.1.3.16]
102406086  [KO:K03267]
102406182  NCBP1; nuclear cap-binding protein subunit 1 isoform X1 [KO:K12882]
102406434  PPP2R5A; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit alpha isoform [KO:K11584]
102406691  PCF11; pre-mRNA cleavage complex 2 protein Pcf11 isoform X2 [KO:K14400]
102407097  PNN; pinin isoform X1 [KO:K13114]
102407159  GLE1; nucleoporin GLE1 [KO:K18723]
102407193  CSTF2T; cleavage stimulation factor subunit 2 tau variant [KO:K14407]
102407454  NXT1; NTF2-related export protein 1 [KO:K14285]
102407460  PPP2CA; serine/threonine-protein phosphatase 2A catalytic subunit alpha isoform [KO:K04382] [EC:3.1.3.16]
102407534  UPF1; regulator of nonsense transcripts 1 isoform X1 [KO:K14326] [EC:5.6.2.5 5.6.2.3]
102408020  EIF4A3; eukaryotic initiation factor 4A-III [KO:K13025] [EC:5.6.2.7]
102408375  CPSF2; cleavage and polyadenylation specificity factor subunit 2 [KO:K14402]
102408711  PABPC4L; polyadenylate-binding protein 4-like [KO:K13126]
102408950  RNGTT; mRNA-capping enzyme isoform X2 [KO:K13917] [EC:2.7.7.50 3.6.1.74]
102409018  CASC3; protein CASC3 [KO:K14323]
102409320  PPP2R1B; serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A beta isoform isoform X2 [KO:K03456]
102409418  [KO:K14284]
102409741  [KO:K14325]
102411052  UPF2; regulator of nonsense transcripts 2 [KO:K14327]
102411102  PAPOLB; poly(A) polymerase beta [KO:K14376] [EC:2.7.7.19]
102411117  SMG1; serine/threonine-protein kinase SMG1 isoform X1 [KO:K08873] [EC:2.7.11.1]
102411371  CPSF7; cleavage and polyadenylation specificity factor subunit 7 isoform X2 [KO:K14398]
102411462  RNMT; mRNA cap guanine-N7 methyltransferase isoform X1 [KO:K00565] [EC:2.1.1.56]
102411549  SYMPK; symplekin isoform X1 [KO:K06100]
102411575  DAZAP1; DAZ-associated protein 1 isoform X2 [KO:K14411]
102411610  PPP2R5C; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit gamma isoform isoform X22 [KO:K11584]
102411742  PELO; protein pelota homolog [KO:K06965]
102412174  WDR33; pre-mRNA 3' end processing protein WDR33 isoform X1 [KO:K15542]
102412300  SSU72; RNA polymerase II subunit A C-terminal domain phosphatase SSU72 [KO:K15544] [EC:3.1.3.16]
102412395  PPP2R5E; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit epsilon isoform isoform X1 [KO:K11584]
102412462  RNPS1; RNA-binding protein with serine-rich domain 1 isoform X2 [KO:K14325]
102412546  [KO:K03456]
102412563  GSPT2; eukaryotic peptide chain release factor GTP-binding subunit ERF3B [KO:K03267]
102412583  [KO:K13126]
102412833  ALYREF; THO complex subunit 4 [KO:K12881]
102412869  [KO:K03456]
102412958  MAGOH; protein mago nashi homolog isoform X2 [KO:K12877]
102413264  [KO:K18655] [EC:5.6.2.7]
102413601  DDX19A; ATP-dependent RNA helicase DDX19A isoform X1 [KO:K18655] [EC:5.6.2.7]
102413618  [KO:K12877]
102413694  CSTF2; cleavage stimulation factor subunit 2 isoform X1 [KO:K14407]
102414202  [KO:K13126]
102414330  PPP2R5B; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit beta isoform isoform X1 [KO:K11584]
102414369  NXF1; nuclear RNA export factor 1 isoform X1 [KO:K14284]
102414603  PPP2R3C; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit gamma isoform X1 [KO:K11583]
102414631  [KO:K11125]
102414728  PABPC1; polyadenylate-binding protein 1 isoform X1 [KO:K13126]
102414866  SMG5; protein SMG5 isoform X1 [KO:K11125]
102415180  [KO:K14284]
102415283  WDR82; WD repeat-containing protein 82 [KO:K14962]
102415776  [KO:K23600]
102415904  [KO:K15544] [EC:3.1.3.16]
102415930  CPSF1; cleavage and polyadenylation specificity factor subunit 1 isoform X3 [KO:K14401]
102416578  PABPC5; polyadenylate-binding protein 5 [KO:K13126]
102416580  CPSF6; cleavage and polyadenylation specificity factor subunit 6 isoform X1 [KO:K14398]
102416651  [KO:K12877]
112577766  [KO:K14284]
112579439  [KO:K15544] [EC:3.1.3.16]
112579440  [KO:K15544] [EC:3.1.3.16]
112579441  [KO:K15544] [EC:3.1.3.16]
112579442  [KO:K15544] [EC:3.1.3.16]
112579443  [KO:K15544] [EC:3.1.3.16]
112579444  [KO:K15544] [EC:3.1.3.16]
112579517  [KO:K15544] [EC:3.1.3.16]
112582034  NCBP2L; LOW QUALITY PROTEIN: nuclear cap-binding protein subunit 2-like [KO:K12883]
112582091  [KO:K13126]
123332987  CPSF4L; putative cleavage and polyadenylation specificity factor subunit 4-like protein [KO:K14404]
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
bbub03013  Nucleocytoplasmic transport
bbub03018  RNA degradation
bbub03040  Spliceosome
KO pathway
ko03015   

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