KEGG   PATHWAY: lrd03015
Entry
lrd03015                    Pathway                                
Name
mRNA surveillance pathway - Lolium rigidum (rigid ryegrass)
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
lrd03015  mRNA surveillance pathway
lrd03015

Other DBs
GO: 0071028
Organism
Lolium rigidum (rigid ryegrass) [GN:lrd]
Gene
124680856  LOW QUALITY PROTEIN: nuclear cap-binding protein subunit 1 [KO:K12882]
124687726  nuclear cap-binding protein subunit 2-like [KO:K12883]
124687781  nuclear cap-binding protein subunit 2-like [KO:K12883]
124670762  regulator of nonsense transcripts UPF3-like isoform X1 [KO:K14328]
124675035  regulator of nonsense transcripts UPF3-like isoform X1 [KO:K14328]
124700958  RNA-binding protein Y14B-like [KO:K12876]
124708118  RNA-binding protein Y14A-like [KO:K12876]
124646535  RNA-binding protein Y14A-like [KO:K12876]
124683307  protein mago nashi homolog 2 [KO:K12877]
124683550  protein mago nashi homolog 2 [KO:K12877]
124687211  protein mago nashi homolog 1 [KO:K12877]
124654932  eukaryotic initiation factor 4A-III homolog A-like [KO:K13025] [EC:5.6.2.7]
124693528  eukaryotic initiation factor 4A-III homolog A [KO:K13025] [EC:5.6.2.7]
124675254  eukaryotic initiation factor 4A-III homolog A-like [KO:K13025] [EC:5.6.2.7]
124686324  histone deacetylase complex subunit SAP18 [KO:K14324]
124700193  pinin-like [KO:K13114]
124704034  pinin-like [KO:K13114]
124702537  altered inheritance of mitochondria protein 21 [KO:K12875]
124676246  uncharacterized protein LOC124676246 [KO:K12875]
124667088  LOW QUALITY PROTEIN: serine/arginine-rich splicing factor SR45-like [KO:K14325]
124667123  serine/arginine-rich splicing factor SR45-like [KO:K14325]
124699178  THO complex subunit 4A-like [KO:K12881]
124681512  THO complex subunit 4A-like [KO:K12881]
124653247  THO complex subunit 4B-like [KO:K12881]
124683407  THO complex subunit 4D-like isoform X1 [KO:K12881]
124701686  THO complex subunit 4D-like [KO:K12881]
124702108  THO complex subunit 4A-like isoform X1 [KO:K12881]
124673137  THO complex subunit 4D-like [KO:K12881]
124701474  DEAD-box ATP-dependent RNA helicase 38 [KO:K18655] [EC:5.6.2.7]
124692715  mRNA export factor GLE1-like [KO:K18723]
124690398  mRNA export factor GLE1-like [KO:K18723]
124706885  DEAD-box ATP-dependent RNA helicase 15-like isoform X1 [KO:K12812] [EC:5.6.2.7]
124706930  DEAD-box ATP-dependent RNA helicase 15-like isoform X1 [KO:K12812] [EC:5.6.2.7]
124661484  DEAD-box ATP-dependent RNA helicase 15 [KO:K12812] [EC:5.6.2.7]
124662062  DEAD-box ATP-dependent RNA helicase 15 [KO:K12812] [EC:5.6.2.7]
124702074  serine/arginine repetitive matrix protein 1 [KO:K13171]
124702690  mRNA-capping enzyme-like [KO:K13917] [EC:2.7.7.50 3.6.1.74]
124703520  mRNA-capping enzyme-like isoform X1 [KO:K13917] [EC:2.7.7.50 3.6.1.74]
124677714  mRNA cap guanine-N7 methyltransferase 1-like isoform X1 [KO:K00565] [EC:2.1.1.56]
124674354  mRNA cap guanine-N7 methyltransferase 2 [KO:K00565] [EC:2.1.1.56]
124688422  mRNA cap guanine-N7 methyltransferase 1-like [KO:K00565] [EC:2.1.1.56]
124688431  mRNA cap guanine-N7 methyltransferase 1-like [KO:K00565] [EC:2.1.1.56]
124664517  mRNA cap guanine-N7 methyltransferase 2-like [KO:K00565] [EC:2.1.1.56]
124664073  transcription initiation factor TFIID subunit 15b-like [KO:K13098]
124698924  polyadenylate-binding protein 3-like [KO:K14396]
124678791  uncharacterized protein LOC124678791 [KO:K14396]
124693137  polyadenylate-binding protein 3-like [KO:K14396]
124685275  polyadenylate-binding protein 2-like [KO:K14396]
124685421  polyadenylate-binding protein 2-like [KO:K14396]
124708879  polyadenylate-binding protein 3-like isoform X1 [KO:K14396]
124647775  polyadenylate-binding protein 1-like [KO:K14396]
124647777  polyadenylate-binding protein 1-like [KO:K14396]
124666336  pre-mRNA cleavage factor Im 25 kDa subunit 2-like [KO:K14397]
124653311  pre-mRNA cleavage factor Im 25 kDa subunit 1-like [KO:K14397]
124682685  pre-mRNA cleavage factor Im 25 kDa subunit 1-like [KO:K14397]
124659779  pre-mRNA cleavage factor Im 25 kDa subunit 2-like [KO:K14397]
124661490  pre-mRNA cleavage factor Im 25 kDa subunit 2-like [KO:K14397]
124674846  pre-mRNA cleavage factor Im 25 kDa subunit 2 [KO:K14397]
124662258  pre-mRNA cleavage factor Im 25 kDa subunit 2-like [KO:K14397]
124663375  uncharacterized protein LOC124663375 [KO:K14397]
124676267  pre-mRNA cleavage factor Im 25 kDa subunit 2 [KO:K14397]
124651436  collagen alpha-1(I) chain-like [KO:K14398]
124681396  collagen alpha-1(I) chain-like [KO:K14398]
124661608  cleavage and polyadenylation specificity factor subunit 6-like [KO:K14398]
124692073  nuclear poly(A) polymerase 4-like [KO:K14376] [EC:2.7.7.19]
124698239  nuclear poly(A) polymerase 3-like [KO:K14376] [EC:2.7.7.19]
124698247  nuclear poly(A) polymerase 3-like [KO:K14376] [EC:2.7.7.19]
124693300  nuclear poly(A) polymerase 4-like [KO:K14376] [EC:2.7.7.19]
124681380  nuclear poly(A) polymerase 4-like isoform X1 [KO:K14376] [EC:2.7.7.19]
124671427  nuclear poly(A) polymerase 2-like [KO:K14376] [EC:2.7.7.19]
124704224  nuclear poly(A) polymerase 1-like [KO:K14376] [EC:2.7.7.19]
124706455  nuclear poly(A) polymerase 1-like [KO:K14376] [EC:2.7.7.19]
124674357  nuclear poly(A) polymerase 3-like [KO:K14376] [EC:2.7.7.19]
124674573  nuclear poly(A) polymerase 3-like [KO:K14376] [EC:2.7.7.19]
124693632  nuclear poly(A) polymerase 4-like isoform X1 [KO:K14376] [EC:2.7.7.19]
124647979  nuclear poly(A) polymerase 4-like [KO:K14376] [EC:2.7.7.19]
124648755  nuclear poly(A) polymerase 4-like [KO:K14376] [EC:2.7.7.19]
124686835  protein CLP1 homolog [KO:K14399] [EC:2.7.1.78]
124686843  protein CLP1 homolog [KO:K14399] [EC:2.7.1.78]
124657628  uncharacterized protein LOC124657628 [KO:K14400]
124657634  uncharacterized protein LOC124657634 [KO:K14400]
124689102  polyadenylation and cleavage factor homolog 4-like [KO:K14400]
124673807  probable cleavage and polyadenylation specificity factor subunit 1 [KO:K14401]
124674186  probable cleavage and polyadenylation specificity factor subunit 1 [KO:K14401]
124707664  cleavage and polyadenylation specificity factor subunit 2 [KO:K14402]
124691723  cleavage and polyadenylation specificity factor subunit 3-I [KO:K14403] [EC:3.1.27.-]
124700731  zinc finger CCCH domain-containing protein 45 [KO:K14404]
124689137  zinc finger CCCH domain-containing protein 45-like [KO:K14404]
124689138  zinc finger CCCH domain-containing protein 45-like [KO:K14404]
124665219  flowering time control protein FY-like [KO:K15542]
124661226  flowering time control protein FY-like [KO:K15542]
124649705  protein ANTHESIS POMOTING FACTOR 1 [KO:K14962]
124703455  protein ANTHESIS POMOTING FACTOR 1 [KO:K14962]
124693423  serine/threonine-protein phosphatase PP1 [KO:K06269] [EC:3.1.3.16]
124652473  serine/threonine-protein phosphatase PP1-like [KO:K06269] [EC:3.1.3.16]
124680748  serine/threonine-protein phosphatase PP1 isozyme 2-like [KO:K06269] [EC:3.1.3.16]
124702031  serine/threonine-protein phosphatase PP1 [KO:K06269] [EC:3.1.3.16]
124685094  serine/threonine-protein phosphatase PP1 [KO:K06269] [EC:3.1.3.16]
124672386  serine/threonine-protein phosphatase alpha-2 isoform-like [KO:K06269] [EC:3.1.3.16]
124672391  serine/threonine-protein phosphatase alpha-2 isoform-like [KO:K06269] [EC:3.1.3.16]
124693583  serine/threonine-protein phosphatase PP1 [KO:K06269] [EC:3.1.3.16]
124707433  serine/threonine-protein phosphatase PP1-like [KO:K06269] [EC:3.1.3.16]
124707475  serine/threonine-protein phosphatase alpha-2 isoform-like [KO:K06269] [EC:3.1.3.16]
124646481  serine/threonine-protein phosphatase PP1-like [KO:K06269] [EC:3.1.3.16]
124646729  serine/threonine-protein phosphatase alpha-2 isoform-like [KO:K06269] [EC:3.1.3.16]
124646736  serine/threonine-protein phosphatase alpha-2 isoform-like [KO:K06269] [EC:3.1.3.16]
124647157  serine/threonine-protein phosphatase alpha-2 isoform-like [KO:K06269] [EC:3.1.3.16]
124647165  serine/threonine-protein phosphatase alpha-2 isoform-like [KO:K06269] [EC:3.1.3.16]
124708714  serine/threonine-protein phosphatase alpha-2 isoform-like [KO:K06269] [EC:3.1.3.16]
124676422  serine/threonine-protein phosphatase PP1-like [KO:K06269] [EC:3.1.3.16]
124654570  RNA polymerase II subunit A C-terminal domain phosphatase SSU72 [KO:K15544] [EC:3.1.3.16]
124704374  cleavage stimulation factor subunit 50 [KO:K14406]
124703388  cleavage stimulating factor 64-like [KO:K14407]
124652929  cleavage stimulation factor subunit 77-like [KO:K14408]
124652982  cleavage stimulation factor subunit 77-like [KO:K14408]
124653005  cleavage stimulation factor subunit 77-like [KO:K14408]
124670533  symplekin-like [KO:K06100]
124670570  symplekin-like [KO:K06100]
124658990  uncharacterized protein LOC124658990 isoform X1 [KO:K06100]
124659974  uncharacterized protein LOC124659974 [KO:K06100]
124674178  symplekin-like [KO:K06100]
124677069  heterogeneous nuclear ribonucleoprotein 1-like [KO:K14411]
124680522  RNA-binding protein 1-like [KO:K14411]
124703042  heterogeneous nuclear ribonucleoprotein 1-like [KO:K14411]
124705496  heterogeneous nuclear ribonucleoprotein 1-like [KO:K14411]
124705499  heterogeneous nuclear ribonucleoprotein 1-like [KO:K14411]
124705617  heterogeneous nuclear ribonucleoprotein 1-like [KO:K14411]
124706706  heterogeneous nuclear ribonucleoprotein A/B-like isoform X1 [KO:K14411]
124674832  RNA-binding protein 1-like [KO:K14411]
124707772  heterogeneous nuclear ribonucleoprotein A/B-like isoform X1 [KO:K14411]
124653269  30S ribosomal protein 2, chloroplastic-like [KO:K13126]
124653737  30S ribosomal protein 2, chloroplastic-like [KO:K13126]
124656130  uncharacterized protein LOC124656130 [KO:K13126]
124671751  polyadenylate-binding protein 2-like [KO:K13126]
124657898  polyadenylate-binding protein 2-like [KO:K13126]
124659196  polyadenylate-binding protein 4-like [KO:K13126]
124659209  polyadenylate-binding protein 2-like [KO:K13126]
124695304  polyadenylate-binding protein 4-like [KO:K13126]
124676687  uncharacterized protein LOC124676687 [KO:K13126]
124650586  eukaryotic peptide chain release factor subunit 1-2-like [KO:K03265]
124650598  eukaryotic peptide chain release factor subunit 1-2-like [KO:K03265]
124703978  eukaryotic peptide chain release factor subunit 1-3-like [KO:K03265]
124704028  eukaryotic peptide chain release factor subunit 1-3-like [KO:K03265]
124660682  eukaryotic peptide chain release factor subunit 1-2-like [KO:K03265]
124661231  eukaryotic peptide chain release factor subunit 1-3-like [KO:K03265]
124661314  eukaryotic peptide chain release factor subunit 1-3 [KO:K03265]
124675209  eukaryotic peptide chain release factor subunit 1-3-like [KO:K03265]
124675447  eukaryotic peptide chain release factor subunit 1-3-like [KO:K03265]
124654446  eukaryotic peptide chain release factor GTP-binding subunit ERF3A-like [KO:K03267]
124655634  eukaryotic peptide chain release factor GTP-binding subunit ERF3A-like [KO:K03267]
124674073  eukaryotic peptide chain release factor GTP-binding subunit ERF3A-like [KO:K03267]
124660919  eukaryotic peptide chain release factor GTP-binding subunit ERF3A-like [KO:K03267]
124660939  eukaryotic peptide chain release factor GTP-binding subunit ERF3A-like [KO:K03267]
124675041  regulator of nonsense transcripts 1 homolog isoform X1 [KO:K14326] [EC:5.6.2.5 5.6.2.3]
124692538  regulator of nonsense transcripts UPF2 [KO:K14327]
124670317  regulator of nonsense transcripts UPF2-like [KO:K14327]
124697422  serine/threonine-protein kinase SMG1-like [KO:K08873] [EC:2.7.11.1]
124652098  nonsense-mediated mRNA decay factor SMG7 [KO:K14409]
124692028  serine/threonine-protein phosphatase PP2A-3 catalytic subunit [KO:K04382] [EC:3.1.3.16]
124692035  serine/threonine-protein phosphatase PP2A-3 catalytic subunit [KO:K04382] [EC:3.1.3.16]
124651739  serine/threonine-protein phosphatase PP2A-2 catalytic subunit-like [KO:K04382] [EC:3.1.3.16]
124652037  serine/threonine-protein phosphatase PP2A-2 catalytic subunit-like [KO:K04382] [EC:3.1.3.16]
124679520  serine/threonine-protein phosphatase PP2A-2 catalytic subunit-like isoform X1 [KO:K04382] [EC:3.1.3.16]
124701530  serine/threonine-protein phosphatase PP2A-4 catalytic subunit-like [KO:K04382] [EC:3.1.3.16]
124701535  serine/threonine-protein phosphatase PP2A-4 catalytic subunit-like [KO:K04382] [EC:3.1.3.16]
124704603  serine/threonine-protein phosphatase PP2A-2 catalytic subunit [KO:K04382] [EC:3.1.3.16]
124694253  serine/threonine-protein phosphatase PP2A-1 catalytic subunit [KO:K04382] [EC:3.1.3.16]
124694417  serine/threonine-protein phosphatase PP2A-1 catalytic subunit [KO:K04382] [EC:3.1.3.16]
124651665  serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A beta isoform isoform X1 [KO:K03456]
124654278  serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A beta isoform-like isoform X1 [KO:K03456]
124654279  serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A beta isoform-like isoform X1 [KO:K03456]
124708010  serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A beta isoform-like [KO:K03456]
124708107  serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A beta isoform-like [KO:K03456]
124665196  serine/threonine protein phosphatase 2A 55 kDa regulatory subunit B beta isoform-like isoform X1 [KO:K04354]
124692065  serine/threonine protein phosphatase 2A 55 kDa regulatory subunit B beta isoform isoform X1 [KO:K04354]
124694002  serine/threonine protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform isoform X1 [KO:K04354]
124663237  serine/threonine protein phosphatase 2A 55 kDa regulatory subunit B beta isoform-like isoform X1 [KO:K04354]
124691882  serine/threonine protein phosphatase 2A regulatory subunit B''beta-like [KO:K11583]
124705546  probable serine/threonine protein phosphatase 2A regulatory subunit B''delta [KO:K11583]
124706716  probable serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit TON2 [KO:K11583]
124708940  probable serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit TON2 [KO:K11583]
124665048  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' kappa isoform-like [KO:K11584]
124651467  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' alpha isoform-like [KO:K11584]
124680612  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' kappa isoform [KO:K11584]
124681865  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' alpha isoform-like [KO:K11584]
124682033  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' theta isoform-like [KO:K11584]
124670603  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' theta isoform-like [KO:K11584]
124703847  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' alpha isoform-like [KO:K11584]
124706989  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' kappa isoform-like [KO:K11584]
124661108  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' kappa isoform-like [KO:K11584]
124675148  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' theta isoform-like [KO:K11584]
124689672  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' theta isoform-like [KO:K11584]
124690543  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' theta isoform-like [KO:K11584]
124648912  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' kappa isoform-like [KO:K11584]
124673905  HBS1-like protein [KO:K14416]
124675100  HBS1-like protein isoform X1 [KO:K14416]
124677436  protein PELOTA 1-like [KO:K06965]
124703839  protein PELOTA 1-like [KO:K06965]
124706288  protein PELOTA 1-like [KO:K06965]
124706414  protein PELOTA 1-like [KO:K06965]
124706984  protein PELOTA 1-like [KO:K06965]
124676626  protein PELOTA 1-like [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
lrd03013  Nucleocytoplasmic transport
lrd03018  RNA degradation
lrd03040  Spliceosome
KO pathway
ko03015   
LinkDB

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