Entry
Name
mRNA surveillance pathway - Clupea harengus (Atlantic herring)
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
BRITE hierarchy
Pathway map
Ortholog table
Other DBs
Organism
Clupea harengus (Atlantic herring) [GN:
char ]
Gene
105905952 upf3a; regulator of nonsense transcripts 3A isoform X1 [KO:K14328 ]
105905021 taf15; TATA-binding protein-associated factor 2N isoform X1 [KO:K13098 ]
105904522 nudt21; cleavage and polyadenylation specificity factor subunit 5 [KO:K14397 ]
105891126 cleavage and polyadenylation specificity factor subunit 7 [KO:K14398 ]
105892357 cpsf6; cleavage and polyadenylation specificity factor subunit 6 isoform X1 [KO:K14398 ]
105907451 pcf11; pre-mRNA cleavage complex 2 protein Pcf11 isoform X1 [KO:K14400 ]
105904942 cpsf1; cleavage and polyadenylation specificity factor subunit 1 [KO:K14401 ]
105907307 cpsf2; cleavage and polyadenylation specificity factor subunit 2 [KO:K14402 ]
105897062 cpsf3; cleavage and polyadenylation specificity factor subunit 3 [KO:K14403 ] [EC:3.1.27.-]
122129261 cpsf4; cleavage and polyadenylation specificity factor subunit 4 [KO:K14404 ]
105903575 fip1l1b; pre-mRNA 3'-end-processing factor FIP1 isoform X1 [KO:K14405 ]
105899218 wdr33; LOW QUALITY PROTEIN: pre-mRNA 3' end processing protein WDR33 [KO:K15542 ]
105893104 cstf2; cleavage stimulation factor subunit 2 isoform X1 [KO:K14407 ]
105899087 msi1b; RNA-binding protein Musashi homolog 1b isoform X1 [KO:K14411 ]
105902792 msi2b; RNA-binding protein Musashi homolog 2b isoform X1 [KO:K14411 ]
122132099 embryonic polyadenylate-binding protein-like isoform X1 [KO:K13126 ]
105893093 eukaryotic peptide chain release factor subunit 1-like [KO:K03265 ]
105910250 gspt1; eukaryotic peptide chain release factor GTP-binding subunit ERF3A [KO:K03267 ]
105893210 ppp2cab; serine/threonine-protein phosphatase 2A catalytic subunit alpha isoform [KO:K04382 ] [EC:3.1.3.16 ]
105903801 ppp2r1bb; serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A beta isoform [KO:K03456 ]
105895368 ppp2r1ba; protein phosphatase 2, regulatory subunit A, beta a [KO:K03456 ]
105902388 ppp2r2bb; protein phosphatase 2, regulatory subunit B, beta b isoform X1 [KO:K04354 ]
105890557 ppp2r2ab; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform [KO:K04354 ]
105903320 ppp2r2d; serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B delta isoform isoform X1 [KO:K04354 ]
105903502 ppp2r2ca; protein phosphatase 2, regulatory subunit B, gamma a [KO:K04354 ]
105896100 ppp2r2aa; LOW QUALITY PROTEIN: serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform [KO:K04354 ]
105908490 ppp2r3a; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit alpha [KO:K11583 ]
105905945 ppp2r3b; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit beta isoform X1 [KO:K11583 ]
105899638 ppp2r3c; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit gamma isoform X1 [KO:K11583 ]
105908323 ppp2r5ca; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit gamma isoform isoform X1 [KO:K11584 ]
105897394 LOW QUALITY PROTEIN: serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit delta isoform [KO:K11584 ]
105897767 ppp2r5ea; protein phosphatase 2, regulatory subunit B', epsilon [KO:K11584 ]
105909583 ppp2r5cb; protein phosphatase 2, regulatory subunit B', gamma b isoform X1 [KO:K11584 ]
105911342 serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit beta isoform-like [KO:K11584 ]
116223330 serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit delta isoform [KO:K11584 ]
105894467 ppp2r5a; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit alpha isoform [KO:K11584 ]
105895509 ppp2r5b; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit beta isoform [KO:K11584 ]
Reference
Authors
Maquat LE
Title
Nonsense-mediated mRNA decay: splicing, translation and mRNP dynamics.
Journal
Reference
Authors
Amrani N, Sachs MS, Jacobson A
Title
Early nonsense: mRNA decay solves a translational problem.
Journal
Reference
Authors
Eulalio A, Behm-Ansmant I, Izaurralde E
Title
P bodies: at the crossroads of post-transcriptional pathways.
Journal
Reference
Authors
Mandel CR, Bai Y, Tong L
Title
Protein factors in pre-mRNA 3'-end processing.
Journal
Reference
Authors
Clement SL, Lykke-Andersen J
Title
No mercy for messages that mess with the ribosome.
Journal
Related pathway
KO pathway
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