KEGG   PATHWAY: biu03015
Entry
biu03015                    Pathway                                
Name
mRNA surveillance pathway - Bos indicus (zebu cattle)
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
biu03015  mRNA surveillance pathway
biu03015

Other DBs
GO: 0071028
Organism
Bos indicus (zebu cattle) [GN:biu]
Gene
109563063  NCBP1; nuclear cap-binding protein subunit 1 [KO:K12882]
109556287  NCBP2; nuclear cap-binding protein subunit 2 isoform X1 [KO:K12883]
109576742  UPF3B; LOW QUALITY PROTEIN: regulator of nonsense transcripts 3B [KO:K14328]
109567113  UPF3A; regulator of nonsense transcripts 3A isoform X1 [KO:K14328]
109555831  RBM8A; RNA-binding protein 8A isoform X1 [KO:K12876]
109556279  MAGOH; protein mago nashi homolog [KO:K12877]
109559658  MAGOHB; protein mago nashi homolog 2 [KO:K12877]
109573854  CASC3; protein CASC3 [KO:K14323]
109574262  EIF4A3; eukaryotic initiation factor 4A-III [KO:K13025] [EC:5.6.2.7]
109566853  SAP18; histone deacetylase complex subunit SAP18 [KO:K14324]
109575443  PNN; pinin [KO:K13114]
109564806  ACIN1; apoptotic chromatin condensation inducer in the nucleus isoform X1 [KO:K12875]
109578556  RNPS1; RNA-binding protein with serine-rich domain 1 isoform X1 [KO:K14325]
109561636  RNA-binding protein with serine-rich domain 1-like [KO:K14325]
109574142  ALYREF; THO complex subunit 4 [KO:K12881]
109572233  DDX19A; ATP-dependent RNA helicase DDX19A [KO:K18655] [EC:5.6.2.7]
109572235  ATP-dependent RNA helicase DDX19A isoform X1 [KO:K18655] [EC:5.6.2.7]
109566516  GLE1; nucleoporin GLE1 [KO:K18723]
109554394  NXF1; nuclear RNA export factor 1 [KO:K14284]
109555062  nuclear RNA export factor 3-like [KO:K14284]
109554829  LOW QUALITY PROTEIN: nuclear RNA export factor 3-like [KO:K14284]
109554900  nuclear RNA export factor 3-like [KO:K14284]
109568054  NXT1; NTF2-related export protein 1 [KO:K14285]
109555445  NXT2; NTF2-related export protein 2 isoform X1 [KO:K14285]
109577017  DDX39B; spliceosome RNA helicase DDX39B [KO:K12812] [EC:5.6.2.7]
109559387  PYM1; partner of Y14 and mago isoform X1 [KO:K14294]
109573766  SRRM1; serine/arginine repetitive matrix protein 1 isoform X1 [KO:K13171]
109577746  RNMT; mRNA cap guanine-N7 methyltransferase [KO:K00565] [EC:2.1.1.56]
109578507  FUS; RNA-binding protein FUS isoform X1 [KO:K13098]
109570391  TARDBP; TAR DNA-binding protein 43 [KO:K23600]
109564800  PABPN1; polyadenylate-binding protein 2 [KO:K14396]
109575992  embryonic polyadenylate-binding protein 2-like isoform X1 [KO:K14396]
109573001  PABPN1L; embryonic polyadenylate-binding protein 2 isoform X1 [KO:K14396]
109572591  NUDT21; cleavage and polyadenylation specificity factor subunit 5 [KO:K14397]
109559242  CPSF6; cleavage and polyadenylation specificity factor subunit 6 isoform X1 [KO:K14398]
109554342  CPSF7; cleavage and polyadenylation specificity factor subunit 7 isoform X1 [KO:K14398]
109566099  PAPOLG; poly(A) polymerase gamma isoform X1 [KO:K14376] [EC:2.7.7.19]
109578576  PAPOLB; poly(A) polymerase beta [KO:K14376] [EC:2.7.7.19]
109575355  PAPOLA; poly(A) polymerase alpha isoform X1 [KO:K14376] [EC:2.7.7.19]
109569885  CLP1; polyribonucleotide 5'-hydroxyl-kinase Clp1 [KO:K14399] [EC:2.7.1.78]
109554002  PCF11; pre-mRNA cleavage complex 2 protein Pcf11 [KO:K14400]
109568348  CPSF1; cleavage and polyadenylation specificity factor subunit 1 isoform X1 [KO:K14401]
109575486  CPSF2; cleavage and polyadenylation specificity factor subunit 2 [KO:K14402]
109566406  CPSF3; cleavage and polyadenylation specificity factor subunit 3 [KO:K14403] [EC:3.1.27.-]
109578100  CPSF4; cleavage and polyadenylation specificity factor subunit 4 isoform X1 [KO:K14404]
109573362  CPSF4L; LOW QUALITY PROTEIN: putative cleavage and polyadenylation specificity factor subunit 4-like protein [KO:K14404]
109560471  FIP1L1; pre-mRNA 3'-end-processing factor FIP1 isoform X1 [KO:K14405]
109565188  WDR33; pre-mRNA 3' end processing protein WDR33 isoform X1 [KO:K15542]
109576137  WDR82; WD repeat-containing protein 82 [KO:K14962]
109554414  PPP1CA; serine/threonine-protein phosphatase PP1-alpha catalytic subunit [KO:K06269] [EC:3.1.3.16]
109571193  PPP1CC; serine/threonine-protein phosphatase PP1-gamma catalytic subunit [KO:K06269] [EC:3.1.3.16]
109566263  PPP1CB; serine/threonine-protein phosphatase PP1-beta catalytic subunit [KO:K06269] [EC:3.1.3.16]
109570585  SSU72; RNA polymerase II subunit A C-terminal domain phosphatase SSU72 [KO:K15544] [EC:3.1.3.16]
109555252  RNA polymerase II subunit A C-terminal domain phosphatase SSU72-like [KO:K15544] [EC:3.1.3.16]
109567313  CSTF1; cleavage stimulation factor subunit 1 [KO:K14406]
109579116  CSTF2T; cleavage stimulation factor subunit 2 tau variant [KO:K14407]
109555104  CSTF2; cleavage stimulation factor subunit 2 [KO:K14407]
109569041  CSTF3; LOW QUALITY PROTEIN: cleavage stimulation factor subunit 3 [KO:K14408]
109572587  SYMPK; symplekin [KO:K06100]
109573155  glycine-rich RNA-binding protein 4, mitochondrial-like [KO:K14411]
109573633  RNA-binding protein Musashi homolog 2 isoform X1 [KO:K14411]
109561063  DAZAP1; DAZ-associated protein 1 [KO:K14411]
109570934  MSI1; RNA-binding protein Musashi homolog 1 [KO:K14411]
109555542  polyadenylate-binding protein 1-like 2 [KO:K13126]
109567705  PABPC1L; polyadenylate-binding protein 1-like [KO:K13126]
109571504  PABPC4L; polyadenylate-binding protein 4-like [KO:K13126]
109555516  PABPC5; polyadenylate-binding protein 5 [KO:K13126]
109556465  PABPC4; polyadenylate-binding protein 4 isoform X1 [KO:K13126]
109562065  ETF1; eukaryotic peptide chain release factor subunit 1 [KO:K03265]
109578391  GSPT1; eukaryotic peptide chain release factor GTP-binding subunit ERF3A isoform X1 [KO:K03267]
109555437  GSPT2; eukaryotic peptide chain release factor GTP-binding subunit ERF3B [KO:K03267]
109560814  UPF1; regulator of nonsense transcripts 1 [KO:K14326] [EC:5.6.2.5 5.6.2.3]
109567876  UPF2; regulator of nonsense transcripts 2 [KO:K14327]
109578264  SMG1; serine/threonine-protein kinase SMG1 isoform X1 [KO:K08873] [EC:2.7.11.1]
109570383  SMG7; protein SMG7 isoform X1 [KO:K14409]
109553279  SMG5; protein SMG5 [KO:K11125]
109573618  SMG6; telomerase-binding protein EST1A [KO:K11124] [EC:3.1.-.-]
109553505  PPP2CB; serine/threonine-protein phosphatase 2A catalytic subunit beta isoform [KO:K04382] [EC:3.1.3.16]
109562017  PPP2CA; serine/threonine-protein phosphatase 2A catalytic subunit alpha isoform [KO:K04382] [EC:3.1.3.16]
109572651  PPP2R1A; serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A alpha isoform [KO:K03456]
109554937  serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A alpha isoform-like [KO:K03456]
109569423  PPP2R1B; serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A beta isoform isoform X1 [KO:K03456]
109560078  PPP2R2C; protein phosphatase 2, regulatory subunit B, gamma [KO:K04354]
109563149  PPP2R2A; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform isoform X1 [KO:K04354]
109562172  PPP2R2B; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B beta isoform isoform X1 [KO:K04354]
109579044  PPP2R2D; LOW QUALITY PROTEIN: serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B delta isoform [KO:K04354]
109575432  PPP2R3C; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit gamma isoform X1 [KO:K11583]
109563246  PPP2R3A; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit alpha [KO:K11583]
109565236  PPP2R5E; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit epsilon isoform isoform X1 [KO:K11584]
109575398  PPP2R5C; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit gamma isoform isoform X1 [KO:K11584]
109554577  PPP2R5B; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit beta isoform isoform X1 [KO:K11584]
109570478  PPP2R5A; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit alpha isoform [KO:K11584]
109576873  PPP2R5D; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit delta isoform [KO:K11584]
109575470  serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit gamma isoform-like isoform X1 [KO:K11584]
109563969  HBS1L; HBS1-like protein isoform X1 [KO:K14416]
109574800  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
biu03013  Nucleocytoplasmic transport
biu03018  RNA degradation
biu03040  Spliceosome
KO pathway
ko03015   
LinkDB

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