UPF1 (regulator of nonsense transcripts 1; RENT1) is the central ATP-dependent RNA helicase and ATPase of the nonsense-mediated mRNA decay (NMD) pathway. A superfamily-1 (SF1) helicase with an N-terminal cysteine-histidine-rich (CH) zinc-binding regulatory domain, UPF1 is recruited to mRNAs at translation termination, where release factors (eRF1/eRF3) and the SMG1 kinase complex assemble the transient SURF complex. In EJC-dependent NMD the adaptor UPF2 bridges UPF1 to UPF3 and the downstream exon-junction complex, forming the UPF1-UPF2-UPF3 surveillance complex; UPF1 is then phosphorylated by SMG1 and the phospho-form is recognized by SMG5/SMG6/SMG7 to recruit decay enzymes and PP2A. UPF1 ATPase/helicase activity remodels and disassembles target mRNPs, committing premature-termination-codon-containing and certain long-3'UTR or staufen-bound transcripts to degradation, and also mediates replication-dependent histone mRNA decay at the end of S phase. UPF1 acts mainly on cytoplasmic translating mRNAs (with a smaller nuclear pool), concentrates in P-bodies in its hyperphosphorylated state, and has additional reported moonlighting roles at telomeres and in DNA replication; it can unwind both RNA and DNA in vitro.
| GO Term | Evidence | Action | Reason |
|---|---|---|---|
| GO:0003724 RNA helicase activity | IBA GO_REF:0000033 | ACCEPT | Summary: RNA helicase activity is the core catalytic molecular function of UPF1, the central ATP-dependent helicase of nonsense-mediated mRNA decay. Reason: Directly and repeatedly supported; UPF1 is an RNA-dependent helicase required for NMD. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt RNA-dependent helicase required for nonsense-mediated decay |
| GO:0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay | IEA GO_REF:0000002 | ACCEPT | Summary: Nonsense-mediated mRNA decay of PTC-containing transcripts is the central biological process of UPF1; it is recruited at termination and triggers decay. Reason: Core biological process; UPF1 is the central NMD factor. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt recruited to mRNAs upon translation termination |
| GO:0000932 P-body | IEA GO_REF:0000044 | KEEP AS NON CORE | Summary: P-body localization; hyperphosphorylated UPF1 is targeted to P-bodies where mRNA decay factors concentrate. Reason: Supported by UniProt note that the hyperphosphorylated form is targeted to P-bodies; a functional but non-core localization. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt Hyperphosphorylated form is |
| GO:0003677 DNA binding | IEA GO_REF:0000002 | KEEP AS NON CORE | Summary: DNA binding (IEA); UPF1 can act on DNA substrates in vitro and has reported telomere/replication roles. Reason: Supported in vitro but peripheral to the core RNA/NMD function. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt Also capable of unwinding double-stranded DNA and |
| GO:0003723 RNA binding | IEA GO_REF:0000002 | ACCEPT | Summary: RNA binding underlies UPF1 recruitment to target mRNAs; UPF1 binds RNA as part of its helicase function. Reason: RNA binding is well supported (including HTP mRNA-interactome and direct assays) and is integral to UPF1 function. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0003723 |
| GO:0003724 RNA helicase activity | IEA GO_REF:0000002 | ACCEPT | Summary: RNA helicase activity is the core catalytic molecular function of UPF1, the central ATP-dependent helicase of nonsense-mediated mRNA decay. Reason: Directly and repeatedly supported; UPF1 is an RNA-dependent helicase required for NMD. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt RNA-dependent helicase required for nonsense-mediated decay |
| GO:0004386 helicase activity | IEA GO_REF:0000002 | ACCEPT | Summary: General helicase activity, a parent of the specific RNA helicase activity that is core to UPF1. Reason: Correct but less specific than RNA helicase activity; retained as a valid parent MF. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt RNA-dependent helicase required for nonsense-mediated decay |
| GO:0005524 ATP binding | IEA GO_REF:0000002 | ACCEPT | Summary: ATP binding, required for the ATPase/helicase cycle of UPF1. Reason: ATP binding is integral to the SF1 helicase catalytic mechanism of UPF1. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt ATPase activity of UPF1 is |
| GO:0005634 nucleus | IEA GO_REF:0000044 | KEEP AS NON CORE | Summary: Nuclear localization; a minor UPF1 pool is nuclear (and UPF1 has nuclear/chromatin-associated roles). Reason: Documented nuclear pool but the core NMD function is cytoplasmic; retained as non-core. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005634 |
| GO:0005737 cytoplasm | IEA GO_REF:0000120 | ACCEPT | Summary: Cytoplasmic localization, a principal site of UPF1 action (NMD occurs on cytoplasmic translating mRNAs). Reason: Well-supported cytoplasmic localization. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt SUBCELLULAR LOCATION: Cytoplasm |
| GO:0008270 zinc ion binding | IEA GO_REF:0000002 | ACCEPT | Summary: Zinc ion binding (IEA); UPF1 has a CH (cysteine-histidine-rich) zinc-binding regulatory domain. Reason: UPF1's N-terminal CH domain coordinates zinc and regulates helicase/UPF2 interaction. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0008270 |
| GO:0010468 regulation of gene expression | IEA GO_REF:0000117 | KEEP AS NON CORE | Summary: Regulation of gene expression, a very general process annotation reflecting NMD-mediated control of transcript levels. Reason: Too general to be a core annotation; subsumed by specific mRNA-decay terms. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0010468 |
| GO:0016787 hydrolase activity | IEA GO_REF:0000002 | MARK AS OVER ANNOTATED | Summary: Generic hydrolase activity, an uninformative high-level parent of the ATPase/helicase activity. Reason: Too general to be informative; the specific activities (RNA helicase, ATP hydrolysis) already capture this. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt ATPase activity of UPF1 is |
| GO:0016887 ATP hydrolysis activity | IEA GO_REF:0000116 | ACCEPT | Summary: ATP hydrolysis (ATPase) activity powers UPF1 translocation/unwinding and mRNP remodeling during NMD. Reason: UPF1's ATPase activity is directly demonstrated and required for disassembly of mRNPs undergoing NMD. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt ATPase activity of UPF1 is |
| GO:0032574 5'-3' RNA helicase activity | IEA GO_REF:0000003 | ACCEPT | Summary: UPF1 unwinds RNA with 5'-3' directionality; a precise statement of its helicase polarity. Reason: Biochemically demonstrated 5'-3' RNA helicase activity; a useful specific child of RNA helicase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0032574 |
| GO:0043139 5'-3' DNA helicase activity | IEA GO_REF:0000003 | KEEP AS NON CORE | Summary: 5'-3' DNA helicase activity (IEA/IDA); UPF1 can unwind DNA in vitro. Reason: In vitro DNA-unwinding activity; non-core relative to RNA helicase/NMD function. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt Also capable of unwinding double-stranded DNA and |
| GO:0048471 perinuclear region of cytoplasm | IEA GO_REF:0000044 | KEEP AS NON CORE | Summary: Perinuclear region of cytoplasm localization (by similarity). Reason: Localization inferred by similarity; non-core. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0048471 |
| GO:1903313 positive regulation of mRNA metabolic process | IEA GO_REF:0000117 | KEEP AS NON CORE | Summary: Positive regulation of mRNA metabolic process, a high-level process reflecting UPF1 control of mRNA turnover. Reason: Correct but general; the specific NMD/mRNA-catabolism terms are more informative. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:1903313 |
| GO:0005515 protein binding | IPI PMID:11163187 Human Upf proteins target an mRNA for nonsense-mediated deca... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0005515 protein binding | IPI PMID:12417715 Identification of a human decapping complex associated with ... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0005515 protein binding | IPI PMID:12881429 Interaction between Ski7p and Upf1p is required for nonsense... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0005515 protein binding | IPI PMID:15680326 Mammalian Staufen1 recruits Upf1 to specific mRNA 3'UTRs so ... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0005515 protein binding | IPI PMID:16086026 Regulated degradation of replication-dependent histone mRNAs... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0005515 protein binding | IPI PMID:16364915 Multiple processing body factors and the ARE binding protein... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0005515 protein binding | IPI PMID:16601204 Functions of hUpf3a and hUpf3b in nonsense-mediated mRNA dec... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0005515 protein binding | IPI PMID:17469741 Results of the determination of serum markers in patients wi... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0005515 protein binding | IPI PMID:18256688 Interactions between UPF1, eRFs, PABP and the exon junction ... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0005515 protein binding | IPI PMID:18362360 The editing enzyme ADAR1 and the mRNA surveillance protein h... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0005515 protein binding | IPI PMID:18447585 A competition between stimulators and antagonists of Upf com... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0005515 protein binding | IPI PMID:19150429 Human proline-rich nuclear receptor coregulatory protein 2 m... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0005515 protein binding | IPI PMID:19417104 SMG-8 and SMG-9, two novel subunits of the SMG-1 complex, re... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0005515 protein binding | IPI PMID:19478851 The hierarchy of exon-junction complex assembly by the splic... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0005515 protein binding | IPI PMID:19503078 A UPF3-mediated regulatory switch that maintains RNA surveil... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0005515 protein binding | IPI PMID:19556969 Unusual bipartite mode of interaction between the nonsense-m... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0005515 protein binding | IPI PMID:21829167 Human UPF1 interacts with TPP1 and telomerase and sustains t... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0005515 protein binding | IPI PMID:23348841 An unusual arrangement of two 14-3-3-like domains in the SMG... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0005515 protein binding | IPI PMID:23722113 Non-structural protein 1 of influenza viruses inhibits rapid... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0005515 protein binding | IPI PMID:24267889 Affinity proteomics reveals human host factors implicated in... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0005515 protein binding | IPI PMID:33961781 Dual proteome-scale networks reveal cell-specific remodeling... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0005515 protein binding | IPI PMID:35271311 OpenCell: Endogenous tagging for the cartography of human ce... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0005515 protein binding | IPI PMID:40205054 Multimodal cell maps as a foundation for structural and func... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0005515 protein binding | IPI Q92900-2 PMID:16452507 Binding of a novel SMG-1-Upf1-eRF1-eRF3 complex (SURF) to th... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0005515 protein binding | IPI Q92900-2 PMID:18066079 NMD factors UPF2 and UPF3 bridge UPF1 to the exon junction c... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0005515 protein binding | IPI Q92900-2 PMID:18423202 Upf1 phosphorylation triggers translational repression durin... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0005515 protein binding | IPI Q92900-2 PMID:21145460 Upf1 ATPase-dependent mRNP disassembly is required for compl... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0032574 5'-3' RNA helicase activity | IDA PMID:26138914 Human Upf1 is a highly processive RNA helicase and transloca... | ACCEPT | Summary: UPF1 unwinds RNA with 5'-3' directionality; a precise statement of its helicase polarity. Reason: Biochemically demonstrated 5'-3' RNA helicase activity; a useful specific child of RNA helicase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0032574 |
| GO:0043139 5'-3' DNA helicase activity | IDA PMID:26138914 Human Upf1 is a highly processive RNA helicase and transloca... | KEEP AS NON CORE | Summary: 5'-3' DNA helicase activity (IEA/IDA); UPF1 can unwind DNA in vitro. Reason: In vitro DNA-unwinding activity; non-core relative to RNA helicase/NMD function. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt Also capable of unwinding double-stranded DNA and |
| GO:0033678 5'-3' DNA/RNA helicase activity | IDA PMID:18066079 NMD factors UPF2 and UPF3 bridge UPF1 to the exon junction c... | KEEP AS NON CORE | Summary: 5'-3' DNA/RNA helicase activity; reflects UPF1's ability to translocate/unwind both nucleic acids. Reason: Captures dual substrate unwinding; the RNA helicase activity is the core function. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt Also capable of unwinding double-stranded DNA and |
| GO:0033678 5'-3' DNA/RNA helicase activity | IDA PMID:21419344 Molecular mechanisms for the RNA-dependent ATPase activity o... | KEEP AS NON CORE | Summary: 5'-3' DNA/RNA helicase activity; reflects UPF1's ability to translocate/unwind both nucleic acids. Reason: Captures dual substrate unwinding; the RNA helicase activity is the core function. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt Also capable of unwinding double-stranded DNA and |
| GO:0071025 RNA surveillance | NAS PMID:31131562 Nonsense-mediated mRNA decay: The challenge of telling right... | KEEP AS NON CORE | Summary: RNA surveillance, the broad quality-control category encompassing NMD in which UPF1 is the central factor. Reason: Accurate high-level descriptor; the specific NMD term is the core annotation. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0071025 |
| GO:0170010 nonsense-mediated decay complex | NAS PMID:35640974 Structures of nonsense-mediated mRNA decay factors UPF3B and... | ACCEPT | Summary: UPF1 is a component of the nonsense-mediated decay (SURF/UPF1-UPF2-UPF3 surveillance) complex. Reason: UPF1 is a defining subunit of the NMD effector complex. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0170010 |
| GO:2000623 negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay | NAS PMID:31131562 Nonsense-mediated mRNA decay: The challenge of telling right... | KEEP AS NON CORE | Summary: Negative regulation of NMD; reflects context-dependent modulation of NMD efficiency by UPF1/regulators. Reason: NAS regulatory annotation; plausible in the context of NMD autoregulation but non-core relative to UPF1 driving NMD. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:2000623 |
| GO:2000624 positive regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay | NAS PMID:31131562 Nonsense-mediated mRNA decay: The challenge of telling right... | KEEP AS NON CORE | Summary: Positive regulation of NMD; UPF1 activity promotes NMD of target transcripts. Reason: NAS regulatory annotation consistent with UPF1 function; non-core relative to the direct NMD term. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:2000624 |
| GO:0005654 nucleoplasm | IDA GO_REF:0000052 | KEEP AS NON CORE | Summary: Nucleoplasm localization (IDA), consistent with a nuclear UPF1 pool. Reason: Minor nuclear localization; non-core relative to cytoplasmic NMD. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005654 |
| GO:0005829 cytosol | IDA GO_REF:0000052 | ACCEPT | Summary: Cytosol, consistent with cytoplasmic NMD activity of UPF1. Reason: Cytosolic localization agrees with the principal site of UPF1 function. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt SUBCELLULAR LOCATION: Cytoplasm |
| GO:0005634 nucleus | EXP PMID:11163187 Human Upf proteins target an mRNA for nonsense-mediated deca... | KEEP AS NON CORE | Summary: Nuclear localization; a minor UPF1 pool is nuclear (and UPF1 has nuclear/chromatin-associated roles). Reason: Documented nuclear pool but the core NMD function is cytoplasmic; retained as non-core. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005634 |
| GO:0005737 cytoplasm | EXP PMID:11163187 Human Upf proteins target an mRNA for nonsense-mediated deca... | ACCEPT | Summary: Cytoplasmic localization, a principal site of UPF1 action (NMD occurs on cytoplasmic translating mRNAs). Reason: Well-supported cytoplasmic localization. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt SUBCELLULAR LOCATION: Cytoplasm |
| GO:0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay | TAS PMID:26255671 Regnase-1 and Roquin regulate inflammatory mRNAs. | ACCEPT | Summary: Nonsense-mediated mRNA decay of PTC-containing transcripts is the central biological process of UPF1; it is recruited at termination and triggers decay. Reason: Core biological process; UPF1 is the central NMD factor. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt recruited to mRNAs upon translation termination |
| GO:0061158 3'-UTR-mediated mRNA destabilization | TAS PMID:26255671 Regnase-1 and Roquin regulate inflammatory mRNAs. | ACCEPT | Summary: 3'-UTR-mediated mRNA destabilization; UPF1 (with UPF2/TDRD6) degrades mRNAs bearing long 3'UTRs, a recognized NMD-related branch. Reason: Supported NMD-related destabilization function on long-3'UTR transcripts. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0061158 |
| GO:0071222 cellular response to lipopolysaccharide | TAS PMID:26255671 Regnase-1 and Roquin regulate inflammatory mRNAs. | KEEP AS NON CORE | Summary: Cellular response to lipopolysaccharide (TAS); UPF1/NMD modulates inflammatory transcript stability. Reason: Stimulus-response context for NMD targets; non-core. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0071222 |
| GO:0071347 cellular response to interleukin-1 | TAS PMID:26255671 Regnase-1 and Roquin regulate inflammatory mRNAs. | KEEP AS NON CORE | Summary: Cellular response to interleukin-1 (TAS); NMD-related modulation of cytokine-response transcripts. Reason: Stimulus-response context; non-core. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0071347 |
| GO:0016887 ATP hydrolysis activity | IDA PMID:30218034 UPF1-like helicase grip on nucleic acids dictates processivi... | ACCEPT | Summary: ATP hydrolysis (ATPase) activity powers UPF1 translocation/unwinding and mRNP remodeling during NMD. Reason: UPF1's ATPase activity is directly demonstrated and required for disassembly of mRNPs undergoing NMD. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt ATPase activity of UPF1 is |
| GO:0036121 double-stranded DNA helicase activity | IDA PMID:30218034 UPF1-like helicase grip on nucleic acids dictates processivi... | KEEP AS NON CORE | Summary: Double-stranded DNA helicase activity (IDA); UPF1 unwinds dsDNA in vitro. Reason: In vitro dsDNA helicase activity; non-core. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt Also capable of unwinding double-stranded DNA and |
| GO:0005515 protein binding | IPI PMID:26841701 The RNA helicase DHX34 functions as a scaffold for SMG1-medi... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0044877 protein-containing complex binding | IPI PMID:26841701 The RNA helicase DHX34 functions as a scaffold for SMG1-medi... | KEEP AS NON CORE | Summary: Protein-containing complex binding; UPF1 engages multiprotein assemblies (EJC, SMG complexes). Reason: Records complex association but is non-specific; the informative facts are the named complexes (EJC, SURF). Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0044877 |
| GO:0005515 protein binding | IPI PMID:25220460 The RNA helicase DHX34 activates NMD by promoting a transiti... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0005515 protein binding | IPI PMID:27974568 IRAV (FLJ11286), an Interferon-Stimulated Gene with Antivira... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0003723 RNA binding | IDA PMID:24726324 MOV10 Is a 5' to 3' RNA helicase contributing to UPF1 mRNA t... | ACCEPT | Summary: RNA binding underlies UPF1 recruitment to target mRNAs; UPF1 binds RNA as part of its helicase function. Reason: RNA binding is well supported (including HTP mRNA-interactome and direct assays) and is integral to UPF1 function. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0003723 |
| GO:0005515 protein binding | IPI PMID:24726324 MOV10 Is a 5' to 3' RNA helicase contributing to UPF1 mRNA t... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0061014 positive regulation of mRNA catabolic process | IDA PMID:24726324 MOV10 Is a 5' to 3' RNA helicase contributing to UPF1 mRNA t... | ACCEPT | Summary: Positive regulation of mRNA catabolic process; UPF1 promotes decay of its target mRNAs. Reason: Consistent with UPF1 driving mRNA degradation in NMD/SMD. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0061014 |
| GO:0061158 3'-UTR-mediated mRNA destabilization | IDA PMID:24726324 MOV10 Is a 5' to 3' RNA helicase contributing to UPF1 mRNA t... | ACCEPT | Summary: 3'-UTR-mediated mRNA destabilization; UPF1 (with UPF2/TDRD6) degrades mRNAs bearing long 3'UTRs, a recognized NMD-related branch. Reason: Supported NMD-related destabilization function on long-3'UTR transcripts. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0061158 |
| GO:0005515 protein binding | IPI PMID:19864460 Mammalian pre-mRNA 3' end processing factor CF I m 68 functi... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0032204 regulation of telomere maintenance | IMP PMID:17916692 Telomeric repeat containing RNA and RNA surveillance factors... | KEEP AS NON CORE | Summary: Regulation of telomere maintenance (IMP); part of the UPF1 telomere function. Reason: Moonlighting telomere role; non-core. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0032204 |
| GO:0044770 cell cycle phase transition | IMP PMID:16488880 The human RNA surveillance factor UPF1 is required for S pha... | KEEP AS NON CORE | Summary: Cell cycle phase transition (IMP); reflects UPF1 effects on cell-cycle progression (e.g. via histone mRNA decay / replication). Reason: Downstream/indirect phenotype; non-core. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0044770 |
| GO:0005515 protein binding | IPI PMID:23788676 The RNA helicase Ddx5/p68 binds to hUpf3 and enhances NMD of... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0005515 protein binding | IPI PMID:25225333 Plakophilins 1 and 3 bind to FXR1 and thereby influence the ... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0061014 positive regulation of mRNA catabolic process | IMP PMID:25225333 Plakophilins 1 and 3 bind to FXR1 and thereby influence the ... | ACCEPT | Summary: Positive regulation of mRNA catabolic process; UPF1 promotes decay of its target mRNAs. Reason: Consistent with UPF1 driving mRNA degradation in NMD/SMD. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0061014 |
| GO:0005515 protein binding | IPI PMID:26255671 Regnase-1 and Roquin regulate inflammatory mRNAs. | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0005515 protein binding | IPI PMID:24965446 Host factors that interact with the pestivirus N-terminal pr... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0005515 protein binding | IPI PMID:26000482 Regnase-1 and Roquin Regulate a Common Element in Inflammato... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0000781 chromosome, telomeric region | IDA PMID:21829167 Human UPF1 interacts with TPP1 and telomerase and sustains t... | KEEP AS NON CORE | Summary: Chromosome telomeric region localization, consistent with UPF1 telomere-associated role. Reason: Telomere localization; moonlighting, non-core. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0000781 |
| GO:0032201 telomere maintenance via semi-conservative replication | IDA PMID:21829167 Human UPF1 interacts with TPP1 and telomerase and sustains t... | KEEP AS NON CORE | Summary: Telomere maintenance via semi-conservative replication; UPF1 supports telomere leading-strand synthesis. Reason: Telomere-replication role (PMID:21829167); moonlighting, non-core. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0032201 |
| GO:0042162 telomeric repeat DNA binding | IDA PMID:17916692 Telomeric repeat containing RNA and RNA surveillance factors... | KEEP AS NON CORE | Summary: Telomeric repeat DNA binding (IDA); part of a reported UPF1 role at telomeres with TPP1/telomerase. Reason: Documented telomere-associated activity (PMID:21829167) but a moonlighting role distinct from core NMD. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt interacts with TPP1 and telomerase |
| GO:0042162 telomeric repeat DNA binding | IDA PMID:21829167 Human UPF1 interacts with TPP1 and telomerase and sustains t... | KEEP AS NON CORE | Summary: Telomeric repeat DNA binding (IDA); part of a reported UPF1 role at telomeres with TPP1/telomerase. Reason: Documented telomere-associated activity (PMID:21829167) but a moonlighting role distinct from core NMD. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt interacts with TPP1 and telomerase |
| GO:0005829 cytosol | TAS Reactome:R-HSA-927813 | ACCEPT | Summary: Cytosol, consistent with cytoplasmic NMD activity of UPF1. Reason: Cytosolic localization agrees with the principal site of UPF1 function. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt SUBCELLULAR LOCATION: Cytoplasm |
| GO:0005829 cytosol | TAS Reactome:R-HSA-927830 | ACCEPT | Summary: Cytosol, consistent with cytoplasmic NMD activity of UPF1. Reason: Cytosolic localization agrees with the principal site of UPF1 function. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt SUBCELLULAR LOCATION: Cytoplasm |
| GO:0005829 cytosol | TAS Reactome:R-HSA-927836 | ACCEPT | Summary: Cytosol, consistent with cytoplasmic NMD activity of UPF1. Reason: Cytosolic localization agrees with the principal site of UPF1 function. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt SUBCELLULAR LOCATION: Cytoplasm |
| GO:0005829 cytosol | TAS Reactome:R-HSA-927889 | ACCEPT | Summary: Cytosol, consistent with cytoplasmic NMD activity of UPF1. Reason: Cytosolic localization agrees with the principal site of UPF1 function. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt SUBCELLULAR LOCATION: Cytoplasm |
| GO:0003723 RNA binding | HDA PMID:22658674 Insights into RNA biology from an atlas of mammalian mRNA-bi... | ACCEPT | Summary: RNA binding underlies UPF1 recruitment to target mRNAs; UPF1 binds RNA as part of its helicase function. Reason: RNA binding is well supported (including HTP mRNA-interactome and direct assays) and is integral to UPF1 function. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0003723 |
| GO:0003723 RNA binding | HDA PMID:22681889 The mRNA-bound proteome and its global occupancy profile on ... | ACCEPT | Summary: RNA binding underlies UPF1 recruitment to target mRNAs; UPF1 binds RNA as part of its helicase function. Reason: RNA binding is well supported (including HTP mRNA-interactome and direct assays) and is integral to UPF1 function. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0003723 |
| GO:0000956 nuclear-transcribed mRNA catabolic process | IMP PMID:23828042 DHX34 and NBAS form part of an autoregulatory NMD circuit th... | KEEP AS NON CORE | Summary: Nuclear-transcribed mRNA catabolic process, a parent of the NMD process that UPF1 drives. Reason: Correct but more general than the specific NMD term; retained as a valid parent process. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0000956 |
| GO:0005515 protein binding | IPI PMID:20930030 SMG6 interacts with the exon junction complex via two conser... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0005829 cytosol | TAS Reactome:R-HSA-927789 | ACCEPT | Summary: Cytosol, consistent with cytoplasmic NMD activity of UPF1. Reason: Cytosolic localization agrees with the principal site of UPF1 function. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt SUBCELLULAR LOCATION: Cytoplasm |
| GO:0005829 cytosol | TAS Reactome:R-HSA-927832 | ACCEPT | Summary: Cytosol, consistent with cytoplasmic NMD activity of UPF1. Reason: Cytosolic localization agrees with the principal site of UPF1 function. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt SUBCELLULAR LOCATION: Cytoplasm |
| GO:0005634 nucleus | IDA PMID:18362360 The editing enzyme ADAR1 and the mRNA surveillance protein h... | KEEP AS NON CORE | Summary: Nuclear localization; a minor UPF1 pool is nuclear (and UPF1 has nuclear/chromatin-associated roles). Reason: Documented nuclear pool but the core NMD function is cytoplasmic; retained as non-core. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005634 |
| GO:0044530 supraspliceosomal complex | IDA PMID:18362360 The editing enzyme ADAR1 and the mRNA surveillance protein h... | KEEP AS NON CORE | Summary: Supraspliceosomal complex; a nuclear assembly with which UPF1 was found associated. Reason: Nuclear complex association; peripheral to the core cytoplasmic NMD function. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0044530 |
| GO:0003724 RNA helicase activity | IDA PMID:21419344 Molecular mechanisms for the RNA-dependent ATPase activity o... | ACCEPT | Summary: RNA helicase activity is the core catalytic molecular function of UPF1, the central ATP-dependent helicase of nonsense-mediated mRNA decay. Reason: Directly and repeatedly supported; UPF1 is an RNA-dependent helicase required for NMD. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt RNA-dependent helicase required for nonsense-mediated decay |
| GO:0005515 protein binding | IPI PMID:17932509 Proteomic and functional analysis of Argonaute-containing mR... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0035145 exon-exon junction complex | IDA PMID:16601204 Functions of hUpf3a and hUpf3b in nonsense-mediated mRNA dec... | KEEP AS NON CORE | Summary: Exon-exon junction complex; UPF1 functionally couples to the EJC during EJC-dependent NMD (via UPF2/UPF3). Reason: UPF1 associates with the EJC-linked surveillance complex; recorded as a relevant but non-core part_of. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt exon junction complex |
| GO:0071044 histone mRNA catabolic process | IMP PMID:16086026 Regulated degradation of replication-dependent histone mRNAs... | ACCEPT | Summary: Histone mRNA catabolic process; UPF1 mediates replication-dependent histone mRNA degradation at the end of S phase, independent of UPF2. Reason: Well-documented UPF1 function in histone mRNA decay; a genuine UPF1-dependent decay pathway. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt replication-dependent histone mRNA degradation |
| GO:0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay | IMP PMID:18369367 NMD resulting from encephalomyocarditis virus IRES-directed ... | ACCEPT | Summary: Nonsense-mediated mRNA decay of PTC-containing transcripts is the central biological process of UPF1; it is recruited at termination and triggers decay. Reason: Core biological process; UPF1 is the central NMD factor. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt recruited to mRNAs upon translation termination |
| GO:0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay | IDA PMID:17468741 Human INT6/eIF3e is required for nonsense-mediated mRNA deca... | ACCEPT | Summary: Nonsense-mediated mRNA decay of PTC-containing transcripts is the central biological process of UPF1; it is recruited at termination and triggers decay. Reason: Core biological process; UPF1 is the central NMD factor. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt recruited to mRNAs upon translation termination |
| GO:0005515 protein binding | IPI PMID:17468741 Human INT6/eIF3e is required for nonsense-mediated mRNA deca... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay | TAS PMID:8855285 Mammalian orthologues of a yeast regulator of nonsense trans... | ACCEPT | Summary: Nonsense-mediated mRNA decay of PTC-containing transcripts is the central biological process of UPF1; it is recruited at termination and triggers decay. Reason: Core biological process; UPF1 is the central NMD factor. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt recruited to mRNAs upon translation termination |
| GO:0005515 protein binding | IPI PMID:11544179 Human SMG-1, a novel phosphatidylinositol 3-kinase-related p... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0000785 chromatin | IDA PMID:16488880 The human RNA surveillance factor UPF1 is required for S pha... | KEEP AS NON CORE | Summary: Chromatin localization (IDA) associated with UPF1 nuclear/replication roles. Reason: Nuclear chromatin association; non-core relative to cytoplasmic NMD. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0000785 |
| GO:0003682 chromatin binding | IDA PMID:16488880 The human RNA surveillance factor UPF1 is required for S pha... | KEEP AS NON CORE | Summary: Chromatin binding (IDA), consistent with the chromatin-associated UPF1 pool. Reason: Chromatin binding; moonlighting/non-core. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0003682 |
| GO:0003724 RNA helicase activity | IDA PMID:12554878 Characterization of human Smg5/7a: a protein with similariti... | ACCEPT | Summary: RNA helicase activity is the core catalytic molecular function of UPF1, the central ATP-dependent helicase of nonsense-mediated mRNA decay. Reason: Directly and repeatedly supported; UPF1 is an RNA-dependent helicase required for NMD. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt RNA-dependent helicase required for nonsense-mediated decay |
| GO:0005515 protein binding | IPI PMID:14636577 Phosphorylation of hUPF1 induces formation of mRNA surveilla... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0005515 protein binding | IPI PMID:16488880 The human RNA surveillance factor UPF1 is required for S pha... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0006260 DNA replication | IMP PMID:16488880 The human RNA surveillance factor UPF1 is required for S pha... | KEEP AS NON CORE | Summary: DNA replication (IMP); UPF1 has a reported role in S-phase/replication. Reason: Reported replication role (also linked to histone mRNA decay timing); non-core relative to NMD. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0006260 |
| GO:0006281 DNA repair | IDA PMID:16488880 The human RNA surveillance factor UPF1 is required for S pha... | KEEP AS NON CORE | Summary: DNA repair (IDA); reported chromatin/replication-associated UPF1 activity. Reason: Peripheral genome-maintenance role; non-core. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0006281 |
| GO:0006406 mRNA export from nucleus | TAS PMID:16488880 The human RNA surveillance factor UPF1 is required for S pha... | KEEP AS NON CORE | Summary: mRNA export from nucleus (TAS); a reported ancillary role in mRNA metabolism. Reason: Peripheral mRNA-metabolism role; non-core relative to NMD. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0006406 |
| GO:0005515 protein binding | IPI PMID:9620853 The surveillance complex interacts with the translation rele... | KEEP AS NON CORE | Summary: Interaction evidence captured under the uninformative generic protein binding term. UPF1 is a hub with many physical partners; this records a real interaction but does not by itself specify a function. Reason: Bare protein binding (GO:0005515) is uninformative per curation guidelines; kept as non-core because it records a genuine interaction but the core molecular function is the RNA helicase/ATPase activity. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0005515 |
| GO:0006449 regulation of translational termination | IMP PMID:9620853 The surveillance complex interacts with the translation rele... | ACCEPT | Summary: Regulation of translational termination; UPF1 acts at terminating ribosomes (SURF complex with eRF1/eRF3) to couple termination to decay. Reason: Supported by UPF1 association with release factors at termination as the trigger for NMD. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt recruited to mRNAs upon translation termination |
| GO:0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay | NAS PMID:10999600 Characterization of the biochemical properties of the human ... | ACCEPT | Summary: Nonsense-mediated mRNA decay of PTC-containing transcripts is the central biological process of UPF1; it is recruited at termination and triggers decay. Reason: Core biological process; UPF1 is the central NMD factor. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt recruited to mRNAs upon translation termination |
| GO:0003723 RNA binding | NAS PMID:10999600 Characterization of the biochemical properties of the human ... | ACCEPT | Summary: RNA binding underlies UPF1 recruitment to target mRNAs; UPF1 binds RNA as part of its helicase function. Reason: RNA binding is well supported (including HTP mRNA-interactome and direct assays) and is integral to UPF1 function. Supporting Evidence: file:human/UPF1/UPF1-goa.tsv GO:0003723 |
| GO:0006449 regulation of translational termination | NAS PMID:10999600 Characterization of the biochemical properties of the human ... | ACCEPT | Summary: Regulation of translational termination; UPF1 acts at terminating ribosomes (SURF complex with eRF1/eRF3) to couple termination to decay. Reason: Supported by UPF1 association with release factors at termination as the trigger for NMD. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt recruited to mRNAs upon translation termination |
| GO:0004386 helicase activity | NAS PMID:9064659 Cloning and characterization of HUPF1, a human homolog of th... | ACCEPT | Summary: General helicase activity, a parent of the specific RNA helicase activity that is core to UPF1. Reason: Correct but less specific than RNA helicase activity; retained as a valid parent MF. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt RNA-dependent helicase required for nonsense-mediated decay |
| GO:0005737 cytoplasm | NAS PMID:9064659 Cloning and characterization of HUPF1, a human homolog of th... | ACCEPT | Summary: Cytoplasmic localization, a principal site of UPF1 action (NMD occurs on cytoplasmic translating mRNAs). Reason: Well-supported cytoplasmic localization. Supporting Evidence: file:human/UPF1/UPF1-uniprot.txt SUBCELLULAR LOCATION: Cytoplasm |
Loading supporting content…
Download this section (compressed HTML)Q: Which of UPF1’s non-NMD roles (telomere replication, DNA repair, histone mRNA decay) reflect distinct molecular activities versus indirect consequences of perturbing NMD?
Q: How does the phosphorylation/dephosphorylation cycle of UPF1 (SMG1 vs PP2A) quantitatively gate the commitment of a target mRNA to decay?
Experiment: Separation-of-function UPF1 mutants (helicase-dead vs phospho-site vs CH-domain) followed by transcriptome-wide NMD-target profiling to dissect catalytic from scaffolding roles.
Experiment: Single-molecule assays of UPF1 ATPase-driven translocation/mRNP disassembly on reconstituted EJC-containing substrates to quantify the remodeling step that commits mRNAs to decay.
Loading supporting content…
Download this section (compressed HTML)Loading supporting content…
Download this section (compressed HTML)Loading supporting content…
Download this section (compressed HTML)