{"entryType":"UniProtKB reviewed (Swiss-Prot)","primaryAccession":"Q9VYS3","secondaryAccessions":["Q95RG9"],"uniProtkbId":"RENT1_DROME","entryAudit":{"firstPublicDate":"2001-10-18","lastAnnotationUpdateDate":"2026-09-02","lastSequenceUpdateDate":"2003-01-27","entryVersion":160,"sequenceVersion":2},"annotationScore":5.0,"organism":{"scientificName":"Drosophila melanogaster","commonName":"Fruit fly","taxonId":7227,"lineage":["Eukaryota","Metazoa","Ecdysozoa","Arthropoda","Altocrustacea","Allotriocarida","Hexapoda","Insecta","Pterygota","Neoptera","Eumetabola","Endopterygota","Aparaglossata","Panorpida","Diptera","Brachycera","Muscomorpha","Ephydroidea","Drosophilidae","Drosophila","Sophophora"]},"proteinExistence":"1: Evidence at protein level","proteinDescription":{"recommendedName":{"fullName":{"value":"Regulator of nonsense transcripts 1 homolog"},"ecNumbers":[{"evidences":[{"evidenceCode":"ECO:0000250","source":"UniProtKB","id":"Q92900"}],"value":"5.6.2.3"},{"evidences":[{"evidenceCode":"ECO:0000250","source":"UniProtKB","id":"Q92900"}],"value":"5.6.2.5"}]},"alternativeNames":[{"fullName":{"evidences":[{"evidenceCode":"ECO:0000305"}],"value":"Double-stranded nucleic acid 5'-3' helicase Upf1"}}]},"genes":[{"geneName":{"value":"Upf1"},"orfNames":[{"value":"CG1559"}]}],"comments":[{"texts":[{"evidences":[{"evidenceCode":"ECO:0000250","source":"UniProtKB","id":"Q92900"},{"evidenceCode":"ECO:0000269","source":"PubMed","id":"12881430"},{"evidenceCode":"ECO:0000269","source":"PubMed","id":"16199763"}],"value":"RNA-dependent helicase and ATPase required for nonsense-mediated decay (NMD) of mRNAs containing premature stop codons. Has ATP-dependent 5'-3' helicase active on RNA:DNA; RNA:RNA and DNA:DNA substrates with a 5'-extension (By similarity). Is recruited to mRNAs upon translation termination and undergoes a cycle of phosphorylation and dephosphorylation; its phosphorylation appears to be a key step in NMD. The formation of an Upf1-Upf2-Upf3 surveillance complex is believed to activate NMD (By similarity)"}],"commentType":"FUNCTION"},{"commentType":"CATALYTIC ACTIVITY","reaction":{"name":"n ATP + n H2O + wound RNA = n ADP + n phosphate + unwound RNA.","ecNumber":"5.6.2.5","evidences":[{"evidenceCode":"ECO:0000250","source":"UniProtKB","id":"Q92900"}]}},{"commentType":"CATALYTIC ACTIVITY","reaction":{"name":"Couples ATP hydrolysis with the unwinding of duplex DNA at the replication fork by translocating in the 5'-3' direction.","ecNumber":"5.6.2.3","evidences":[{"evidenceCode":"ECO:0000250","source":"UniProtKB","id":"Q92900"}]}},{"commentType":"CATALYTIC ACTIVITY","reaction":{"name":"ATP + H2O = ADP + phosphate + H(+)","reactionCrossReferences":[{"database":"Rhea","id":"RHEA:13065"},{"database":"ChEBI","id":"CHEBI:15377"},{"database":"ChEBI","id":"CHEBI:15378"},{"database":"ChEBI","id":"CHEBI:30616"},{"database":"ChEBI","id":"CHEBI:43474"},{"database":"ChEBI","id":"CHEBI:456216"}],"ecNumber":"5.6.2.3","evidences":[{"evidenceCode":"ECO:0000250","source":"UniProtKB","id":"Q92900"}]}},{"commentType":"COFACTOR","cofactors":[{"name":"Mg(2+)","evidences":[{"evidenceCode":"ECO:0000250","source":"UniProtKB","id":"Q92900"}],"cofactorCrossReference":{"database":"ChEBI","id":"CHEBI:18420"}}],"note":{"texts":[{"evidences":[{"evidenceCode":"ECO:0000250","source":"UniProtKB","id":"Q92900"}],"value":"Binds 1 Mg(2+) ions per subunit."}]}},{"commentType":"COFACTOR","cofactors":[{"name":"Zn(2+)","evidences":[{"evidenceCode":"ECO:0000250","source":"UniProtKB","id":"Q92900"}],"cofactorCrossReference":{"database":"ChEBI","id":"CHEBI:29105"}}],"note":{"texts":[{"evidences":[{"evidenceCode":"ECO:0000250","source":"UniProtKB","id":"Q92900"}],"value":"Bind 3 Zn(2+) ions per subunit."}]}},{"commentType":"SUBCELLULAR LOCATION","subcellularLocations":[{"location":{"evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"17178403"}],"value":"Cytoplasm","id":"SL-0086"}},{"location":{"evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"17178403"}],"value":"Cytoplasm, Cytoplasmic ribonucleoprotein granule","id":"SL-0495"}}]},{"texts":[{"evidences":[{"evidenceCode":"ECO:0000305","source":"PubMed","id":"12881430"},{"evidenceCode":"ECO:0000305","source":"PubMed","id":"16199763"}],"value":"Phosphorylated, probably by nonC"}],"commentType":"PTM"},{"texts":[{"evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"12881430"}],"value":"In Drosophila, the definition of premature stop codons in mRNAs appears to be independent of exon boundaries and of the EJC complex"}],"commentType":"MISCELLANEOUS"},{"texts":[{"evidences":[{"evidenceCode":"ECO:0000305"}],"value":"Belongs to the DNA2/NAM7 helicase family"}],"commentType":"SIMILARITY"}],"features":[{"type":"Chain","location":{"start":{"value":1,"modifier":"EXACT"},"end":{"value":1180,"modifier":"EXACT"}},"description":"Regulator of nonsense transcripts 1 homolog","featureId":"PRO_0000080720"},{"type":"Domain","location":{"start":{"value":92,"modifier":"EXACT"},"end":{"value":249,"modifier":"EXACT"}},"description":"Upf1 CH-rich","evidences":[{"evidenceCode":"ECO:0000255","source":"PROSITE-ProRule","id":"PRU01341"}]},{"type":"Domain","location":{"start":{"value":451,"modifier":"EXACT"},"end":{"value":679,"modifier":"EXACT"}},"description":"UPF1-type SF1B helicase ATP-binding","evidences":[{"evidenceCode":"ECO:0000255","source":"PROSITE-ProRule","id":"PRU01433"}]},{"type":"Domain","location":{"start":{"value":680,"modifier":"EXACT"},"end":{"value":891,"modifier":"EXACT"}},"description":"UPF1-type SF1B helicase C-terminal","evidences":[{"evidenceCode":"ECO:0000255","source":"PROSITE-ProRule","id":"PRU01433"}]},{"type":"Region","location":{"start":{"value":21,"modifier":"EXACT"},"end":{"value":51,"modifier":"EXACT"}},"description":"Disordered","evidences":[{"evidenceCode":"ECO:0000256","source":"SAM","id":"MobiDB-lite"}]},{"type":"Region","location":{"start":{"value":100,"modifier":"EXACT"},"end":{"value":132,"modifier":"EXACT"}},"description":"C3H","evidences":[{"evidenceCode":"ECO:0000255","source":"PROSITE-ProRule","id":"PRU01341"}]},{"type":"Region","location":{"start":{"value":114,"modifier":"EXACT"},"end":{"value":142,"modifier":"EXACT"}},"description":"CC/SHH/C","evidences":[{"evidenceCode":"ECO:0000255","source":"PROSITE-ProRule","id":"PRU01341"}]},{"type":"Region","location":{"start":{"value":160,"modifier":"EXACT"},"end":{"value":190,"modifier":"EXACT"}},"description":"C4","evidences":[{"evidenceCode":"ECO:0000255","source":"PROSITE-ProRule","id":"PRU01341"}]},{"type":"Region","location":{"start":{"value":1062,"modifier":"EXACT"},"end":{"value":1110,"modifier":"EXACT"}},"description":"Disordered","evidences":[{"evidenceCode":"ECO:0000256","source":"SAM","id":"MobiDB-lite"}]},{"type":"Compositional bias","location":{"start":{"value":40,"modifier":"EXACT"},"end":{"value":51,"modifier":"EXACT"}},"description":"Polar residues","evidences":[{"evidenceCode":"ECO:0000256","source":"SAM","id":"MobiDB-lite"}]},{"type":"Compositional bias","location":{"start":{"value":1069,"modifier":"EXACT"},"end":{"value":1078,"modifier":"EXACT"}},"description":"Gly residues","evidences":[{"evidenceCode":"ECO:0000256","source":"SAM","id":"MobiDB-lite"}]},{"type":"Binding site","location":{"start":{"value":100,"modifier":"EXACT"},"end":{"value":100,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:29105"}],"evidences":[{"evidenceCode":"ECO:0000255","source":"PROSITE-ProRule","id":"PRU01341"}],"ligand":{"name":"Zn(2+)","id":"ChEBI:CHEBI:29105","label":"1"}},{"type":"Binding site","location":{"start":{"value":103,"modifier":"EXACT"},"end":{"value":103,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:29105"}],"evidences":[{"evidenceCode":"ECO:0000255","source":"PROSITE-ProRule","id":"PRU01341"}],"ligand":{"name":"Zn(2+)","id":"ChEBI:CHEBI:29105","label":"1"}},{"type":"Binding site","location":{"start":{"value":114,"modifier":"EXACT"},"end":{"value":114,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:29105"}],"evidences":[{"evidenceCode":"ECO:0000255","source":"PROSITE-ProRule","id":"PRU01341"}],"ligand":{"name":"Zn(2+)","id":"ChEBI:CHEBI:29105","label":"2"}},{"type":"Binding site","location":{"start":{"value":117,"modifier":"EXACT"},"end":{"value":117,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:29105"}],"evidences":[{"evidenceCode":"ECO:0000255","source":"PROSITE-ProRule","id":"PRU01341"}],"ligand":{"name":"Zn(2+)","id":"ChEBI:CHEBI:29105","label":"2"}},{"type":"Binding site","location":{"start":{"value":122,"modifier":"EXACT"},"end":{"value":122,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:29105"}],"evidences":[{"evidenceCode":"ECO:0000255","source":"PROSITE-ProRule","id":"PRU01341"}],"ligand":{"name":"Zn(2+)","id":"ChEBI:CHEBI:29105","label":"1"}},{"type":"Binding site","location":{"start":{"value":132,"modifier":"EXACT"},"end":{"value":132,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:29105"}],"evidences":[{"evidenceCode":"ECO:0000255","source":"PROSITE-ProRule","id":"PRU01341"}],"ligand":{"name":"Zn(2+)","id":"ChEBI:CHEBI:29105","label":"1"}},{"type":"Binding site","location":{"start":{"value":136,"modifier":"EXACT"},"end":{"value":136,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:29105"}],"evidences":[{"evidenceCode":"ECO:0000255","source":"PROSITE-ProRule","id":"PRU01341"}],"ligand":{"name":"Zn(2+)","id":"ChEBI:CHEBI:29105","label":"2"}},{"type":"Binding site","location":{"start":{"value":142,"modifier":"EXACT"},"end":{"value":142,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:29105"}],"evidences":[{"evidenceCode":"ECO:0000255","source":"PROSITE-ProRule","id":"PRU01341"}],"ligand":{"name":"Zn(2+)","id":"ChEBI:CHEBI:29105","label":"2"}},{"type":"Binding site","location":{"start":{"value":160,"modifier":"EXACT"},"end":{"value":160,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:29105"}],"evidences":[{"evidenceCode":"ECO:0000255","source":"PROSITE-ProRule","id":"PRU01341"}],"ligand":{"name":"Zn(2+)","id":"ChEBI:CHEBI:29105","label":"3"}},{"type":"Binding site","location":{"start":{"value":163,"modifier":"EXACT"},"end":{"value":163,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:29105"}],"evidences":[{"evidenceCode":"ECO:0000255","source":"PROSITE-ProRule","id":"PRU01341"}],"ligand":{"name":"Zn(2+)","id":"ChEBI:CHEBI:29105","label":"3"}},{"type":"Binding site","location":{"start":{"value":186,"modifier":"EXACT"},"end":{"value":186,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:29105"}],"evidences":[{"evidenceCode":"ECO:0000255","source":"PROSITE-ProRule","id":"PRU01341"}],"ligand":{"name":"Zn(2+)","id":"ChEBI:CHEBI:29105","label":"3"}},{"type":"Binding site","location":{"start":{"value":190,"modifier":"EXACT"},"end":{"value":190,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:29105"}],"evidences":[{"evidenceCode":"ECO:0000255","source":"PROSITE-ProRule","id":"PRU01341"}],"ligand":{"name":"Zn(2+)","id":"ChEBI:CHEBI:29105","label":"3"}},{"type":"Binding site","location":{"start":{"value":450,"modifier":"EXACT"},"end":{"value":450,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:30616"}],"evidences":[{"evidenceCode":"ECO:0000250","source":"UniProtKB","id":"Q92900"}],"ligand":{"name":"ATP","id":"ChEBI:CHEBI:30616"}},{"type":"Binding site","location":{"start":{"value":451,"modifier":"EXACT"},"end":{"value":451,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:30616"}],"evidences":[{"evidenceCode":"ECO:0000250","source":"UniProtKB","id":"Q92900"}],"ligand":{"name":"ATP","id":"ChEBI:CHEBI:30616"}},{"type":"Binding site","location":{"start":{"value":476,"modifier":"EXACT"},"end":{"value":476,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:30616"}],"evidences":[{"evidenceCode":"ECO:0000250","source":"UniProtKB","id":"Q92900"}],"ligand":{"name":"ATP","id":"ChEBI:CHEBI:30616"}},{"type":"Binding site","location":{"start":{"value":477,"modifier":"EXACT"},"end":{"value":477,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:30616"}],"evidences":[{"evidenceCode":"ECO:0000250","source":"UniProtKB","id":"Q92900"}],"ligand":{"name":"ATP","id":"ChEBI:CHEBI:30616"}},{"type":"Binding site","location":{"start":{"value":478,"modifier":"EXACT"},"end":{"value":478,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:30616"}],"evidences":[{"evidenceCode":"ECO:0000250","source":"UniProtKB","id":"Q92900"}],"ligand":{"name":"ATP","id":"ChEBI:CHEBI:30616"}},{"type":"Binding site","location":{"start":{"value":479,"modifier":"EXACT"},"end":{"value":479,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:30616"}],"evidences":[{"evidenceCode":"ECO:0000250","source":"UniProtKB","id":"Q92900"}],"ligand":{"name":"ATP","id":"ChEBI:CHEBI:30616"}},{"type":"Binding site","location":{"start":{"value":480,"modifier":"EXACT"},"end":{"value":480,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:30616"}],"evidences":[{"evidenceCode":"ECO:0000250","source":"UniProtKB","id":"Q92900"}],"ligand":{"name":"ATP","id":"ChEBI:CHEBI:30616"}},{"type":"Binding site","location":{"start":{"value":480,"modifier":"EXACT"},"end":{"value":480,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:18420"}],"evidences":[{"evidenceCode":"ECO:0000250","source":"UniProtKB","id":"Q92900"}],"ligand":{"name":"Mg(2+)","id":"ChEBI:CHEBI:18420"}},{"type":"Binding site","location":{"start":{"value":481,"modifier":"EXACT"},"end":{"value":481,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:30616"}],"evidences":[{"evidenceCode":"ECO:0000250","source":"UniProtKB","id":"Q92900"}],"ligand":{"name":"ATP","id":"ChEBI:CHEBI:30616"}},{"type":"Binding site","location":{"start":{"value":684,"modifier":"EXACT"},"end":{"value":684,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:30616"}],"evidences":[{"evidenceCode":"ECO:0000250","source":"UniProtKB","id":"Q92900"}],"ligand":{"name":"ATP","id":"ChEBI:CHEBI:30616"}},{"type":"Binding site","location":{"start":{"value":845,"modifier":"EXACT"},"end":{"value":845,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:30616"}],"evidences":[{"evidenceCode":"ECO:0000250","source":"UniProtKB","id":"Q92900"}],"ligand":{"name":"ATP","id":"ChEBI:CHEBI:30616"}}],"keywords":[{"id":"KW-0067","category":"Ligand","name":"ATP-binding"},{"id":"KW-0963","category":"Cellular component","name":"Cytoplasm"},{"id":"KW-0347","category":"Molecular function","name":"Helicase"},{"id":"KW-0378","category":"Molecular function","name":"Hydrolase"},{"id":"KW-0413","category":"Molecular function","name":"Isomerase"},{"id":"KW-0460","category":"Ligand","name":"Magnesium"},{"id":"KW-0479","category":"Ligand","name":"Metal-binding"},{"id":"KW-0547","category":"Ligand","name":"Nucleotide-binding"},{"id":"KW-0597","category":"PTM","name":"Phosphoprotein"},{"id":"KW-1185","category":"Technical term","name":"Reference proteome"},{"id":"KW-0862","category":"Ligand","name":"Zinc"},{"id":"KW-0863","category":"Domain","name":"Zinc-finger"}],"references":[{"referenceNumber":1,"citation":{"id":"10731132","citationType":"journal article","authors":["Adams M.D.","Celniker S.E.","Holt R.A.","Evans C.A.","Gocayne J.D.","Amanatides P.G.","Scherer S.E.","Li P.W.","Hoskins R.A.","Galle R.F.","George R.A.","Lewis S.E.","Richards S.","Ashburner M.","Henderson S.N.","Sutton G.G.","Wortman J.R.","Yandell M.D.","Zhang Q.","Chen L.X.","Brandon R.C.","Rogers Y.-H.C.","Blazej R.G.","Champe M.","Pfeiffer B.D.","Wan K.H.","Doyle C.","Baxter E.G.","Helt G.","Nelson C.R.","Miklos G.L.G.","Abril J.F.","Agbayani A.","An H.-J.","Andrews-Pfannkoch C.","Baldwin D.","Ballew R.M.","Basu A.","Baxendale J.","Bayraktaroglu L.","Beasley E.M.","Beeson K.Y.","Benos P.V.","Berman B.P.","Bhandari D.","Bolshakov S.","Borkova D.","Botchan M.R.","Bouck J.","Brokstein P.","Brottier P.","Burtis K.C.","Busam D.A.","Butler H.","Cadieu E.","Center A.","Chandra I.","Cherry J.M.","Cawley S.","Dahlke C.","Davenport L.B.","Davies P.","de Pablos B.","Delcher A.","Deng Z.","Mays A.D.","Dew I.","Dietz S.M.","Dodson K.","Doup L.E.","Downes M.","Dugan-Rocha S.","Dunkov B.C.","Dunn P.","Durbin K.J.","Evangelista C.C.","Ferraz C.","Ferriera S.","Fleischmann W.","Fosler C.","Gabrielian A.E.","Garg N.S.","Gelbart W.M.","Glasser K.","Glodek A.","Gong F.","Gorrell J.H.","Gu Z.","Guan P.","Harris M.","Harris N.L.","Harvey D.A.","Heiman T.J.","Hernandez J.R.","Houck J.","Hostin D.","Houston K.A.","Howland T.J.","Wei M.-H.","Ibegwam C.","Jalali M.","Kalush F.","Karpen G.H.","Ke Z.","Kennison J.A.","Ketchum K.A.","Kimmel B.E.","Kodira C.D.","Kraft C.L.","Kravitz S.","Kulp D.","Lai Z.","Lasko P.","Lei Y.","Levitsky A.A.","Li J.H.","Li Z.","Liang Y.","Lin X.","Liu X.","Mattei B.","McIntosh T.C.","McLeod M.P.","McPherson D.","Merkulov G.","Milshina N.V.","Mobarry C.","Morris J.","Moshrefi A.","Mount S.M.","Moy M.","Murphy B.","Murphy L.","Muzny D.M.","Nelson D.L.","Nelson D.R.","Nelson K.A.","Nixon K.","Nusskern D.R.","Pacleb J.M.","Palazzolo M.","Pittman G.S.","Pan S.","Pollard J.","Puri V.","Reese M.G.","Reinert K.","Remington K.","Saunders R.D.C.","Scheeler F.","Shen H.","Shue B.C.","Siden-Kiamos I.","Simpson M.","Skupski M.P.","Smith T.J.","Spier E.","Spradling A.C.","Stapleton M.","Strong R.","Sun E.","Svirskas R.","Tector C.","Turner R.","Venter E.","Wang A.H.","Wang X.","Wang Z.-Y.","Wassarman D.A.","Weinstock G.M.","Weissenbach J.","Williams S.M.","Woodage T.","Worley K.C.","Wu D.","Yang S.","Yao Q.A.","Ye J.","Yeh R.-F.","Zaveri J.S.","Zhan M.","Zhang G.","Zhao Q.","Zheng L.","Zheng X.H.","Zhong F.N.","Zhong W.","Zhou X.","Zhu S.C.","Zhu X.","Smith H.O.","Gibbs R.A.","Myers E.W.","Rubin G.M.","Venter J.C."],"citationCrossReferences":[{"database":"PubMed","id":"10731132"},{"database":"DOI","id":"10.1126/science.287.5461.2185"}],"title":"The genome sequence of Drosophila melanogaster.","publicationDate":"2000","journal":"Science","firstPage":"2185","lastPage":"2195","volume":"287"},"referencePositions":["NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]"],"referenceComments":[{"value":"Berkeley","type":"STRAIN"}]},{"referenceNumber":2,"citation":{"id":"12537572","citationType":"journal article","authors":["Misra S.","Crosby M.A.","Mungall C.J.","Matthews B.B.","Campbell K.S.","Hradecky P.","Huang Y.","Kaminker J.S.","Millburn G.H.","Prochnik S.E.","Smith C.D.","Tupy J.L.","Whitfield E.J.","Bayraktaroglu L.","Berman B.P.","Bettencourt B.R.","Celniker S.E.","de Grey A.D.N.J.","Drysdale R.A.","Harris N.L.","Richter J.","Russo S.","Schroeder A.J.","Shu S.Q.","Stapleton M.","Yamada C.","Ashburner M.","Gelbart W.M.","Rubin G.M.","Lewis S.E."],"citationCrossReferences":[{"database":"PubMed","id":"12537572"},{"database":"DOI","id":"10.1186/gb-2002-3-12-research0083"}],"title":"Annotation of the Drosophila melanogaster euchromatic genome: a systematic review.","publicationDate":"2002","journal":"Genome Biol.","firstPage":"RESEARCH0083.1","lastPage":"RESEARCH0083.22","volume":"3"},"referencePositions":["GENOME REANNOTATION"],"referenceComments":[{"value":"Berkeley","type":"STRAIN"}]},{"referenceNumber":3,"citation":{"id":"12537569","citationType":"journal article","authors":["Stapleton M.","Carlson J.W.","Brokstein P.","Yu C.","Champe M.","George R.A.","Guarin H.","Kronmiller B.","Pacleb J.M.","Park S.","Wan K.H.","Rubin G.M.","Celniker S.E."],"citationCrossReferences":[{"database":"PubMed","id":"12537569"},{"database":"DOI","id":"10.1186/gb-2002-3-12-research0080"}],"title":"A Drosophila full-length cDNA resource.","publicationDate":"2002","journal":"Genome Biol.","firstPage":"RESEARCH0080.1","lastPage":"RESEARCH0080.8","volume":"3"},"referencePositions":["NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]"],"referenceComments":[{"value":"Berkeley","type":"STRAIN"},{"value":"Embryo","type":"TISSUE"}]},{"referenceNumber":4,"citation":{"id":"12881430","citationType":"journal article","authors":["Gatfield D.","Ciccarelli F.D.","Bork P.","Izaurralde E."],"citationCrossReferences":[{"database":"PubMed","id":"12881430"},{"database":"DOI","id":"10.1093/emboj/cdg371"}],"title":"Nonsense-mediated mRNA decay in Drosophila: at the intersection of the yeast and mammalian pathways.","publicationDate":"2003","journal":"EMBO J.","firstPage":"3960","lastPage":"3970","volume":"22"},"referencePositions":["FUNCTION","PHOSPHORYLATION"]},{"referenceNumber":5,"citation":{"id":"16199763","citationType":"journal article","authors":["Rehwinkel J.","Letunic I.","Raes J.","Bork P.","Izaurralde E."],"citationCrossReferences":[{"database":"PubMed","id":"16199763"},{"database":"DOI","id":"10.1261/rna.2160905"}],"title":"Nonsense-mediated mRNA decay factors act in concert to regulate common mRNA targets.","publicationDate":"2005","journal":"RNA","firstPage":"1530","lastPage":"1544","volume":"11"},"referencePositions":["FUNCTION","PHOSPHORYLATION"]},{"referenceNumber":6,"citation":{"id":"17178403","citationType":"journal article","authors":["Barbee S.A.","Estes P.S.","Cziko A.M.","Hillebrand J.","Luedeman R.A.","Coller J.M.","Johnson N.","Howlett I.C.","Geng C.","Ueda R.","Brand A.H.","Newbury S.F.","Wilhelm J.E.","Levine R.B.","Nakamura A.","Parker R.","Ramaswami M."],"citationCrossReferences":[{"database":"PubMed","id":"17178403"},{"database":"DOI","id":"10.1016/j.neuron.2006.10.028"}],"title":"Staufen- and FMRP-containing neuronal RNPs are structurally and functionally related to somatic P bodies.","publicationDate":"2006","journal":"Neuron","firstPage":"997","lastPage":"1009","volume":"52"},"referencePositions":["SUBCELLULAR LOCATION"]}],"uniProtKBCrossReferences":[{"database":"EMBL","id":"AE014298","properties":[{"key":"ProteinId","value":"AAF48115.2"},{"key":"Status","value":"-"},{"key":"MoleculeType","value":"Genomic_DNA"}]},{"database":"EMBL","id":"AY061379","properties":[{"key":"ProteinId","value":"AAL28927.1"},{"key":"Status","value":"-"},{"key":"MoleculeType","value":"mRNA"}]},{"database":"RefSeq","id":"NP_001285145.1","properties":[{"key":"NucleotideSequenceId","value":"NM_001298216.1"}]},{"database":"RefSeq","id":"NP_572767.1","properties":[{"key":"NucleotideSequenceId","value":"NM_132539.3"}]},{"database":"AlphaFoldDB","id":"Q9VYS3","properties":[{"key":"Description","value":"-"}]},{"database":"SMR","id":"Q9VYS3","properties":[{"key":"Description","value":"-"}]},{"database":"BioGRID","id":"58558","properties":[{"key":"Interactions","value":"10"}]},{"database":"FunCoup","id":"Q9VYS3","properties":[{"key":"Number of interactors","value":"2536"}]},{"database":"IntAct","id":"Q9VYS3","properties":[{"key":"Interactions","value":"30"}]},{"database":"STRING","id":"7227.FBpp0073433","properties":[{"key":"Description","value":"-"}]},{"database":"GlyGen","id":"Q9VYS3","properties":[{"key":"glycosylation","value":"1 site"}]},{"database":"PaxDb","id":"7227-FBpp0073433","properties":[{"key":"Description","value":"-"}]},{"database":"PeptideAtlas","id":"Q9VYS3","properties":[{"key":"Description","value":"-"}]},{"database":"DNASU","id":"32153","properties":[{"key":"Description","value":"-"}]},{"database":"EnsemblMetazoa","id":"FBtr0073596","properties":[{"key":"ProteinId","value":"FBpp0073433"},{"key":"GeneId","value":"FBgn0030354"}]},{"database":"EnsemblMetazoa","id":"FBtr0342744","properties":[{"key":"ProteinId","value":"FBpp0309612"},{"key":"GeneId","value":"FBgn0030354"}]},{"database":"GeneID","id":"32153","properties":[{"key":"Description","value":"-"}]},{"database":"KEGG","id":"dme:Dmel_CG1559","properties":[{"key":"Description","value":"-"}]},{"database":"UCSC","id":"CG1559-RA","properties":[{"key":"OrganismName","value":"d. melanogaster"}]},{"database":"AGR","id":"FB:FBgn0030354","properties":[{"key":"Description","value":"-"}]},{"database":"CTD","id":"5976","properties":[{"key":"Description","value":"-"}]},{"database":"FlyBase","id":"FBgn0030354","properties":[{"key":"GeneName","value":"Upf1"}]},{"database":"VEuPathDB","id":"VectorBase:FBgn0030354","properties":[{"key":"Description","value":"-"}]},{"database":"eggNOG","id":"KOG1802","properties":[{"key":"ToxonomicScope","value":"Eukaryota"}]},{"database":"HOGENOM","id":"CLU_001666_4_3_1","properties":[{"key":"Description","value":"-"}]},{"database":"InParanoid","id":"Q9VYS3","properties":[{"key":"Description","value":"-"}]},{"database":"OMA","id":"QYMQMNG","properties":[{"key":"Fingerprint","value":"-"}]},{"database":"OrthoDB","id":"6513042at2759","properties":[{"key":"Description","value":"-"}]},{"database":"PhylomeDB","id":"Q9VYS3","properties":[{"key":"Description","value":"-"}]},{"database":"Reactome","id":"R-DME-975956","properties":[{"key":"PathwayName","value":"Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC)"}]},{"database":"Reactome","id":"R-DME-975957","properties":[{"key":"PathwayName","value":"Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC)"}]},{"database":"SignaLink","id":"Q9VYS3","properties":[{"key":"Description","value":"-"}]},{"database":"BioGRID-ORCS","id":"32153","properties":[{"key":"hits","value":"1 hit in 1 CRISPR screen"}]},{"database":"GenomeRNAi","id":"32153","properties":[{"key":"Description","value":"-"}]},{"database":"PRO","id":"PR:Q9VYS3","properties":[{"key":"Description","value":"-"}]},{"database":"Proteomes","id":"UP000000803","properties":[{"key":"Component","value":"Chromosome X"}]},{"database":"Bgee","id":"FBgn0030354","properties":[{"key":"ExpressionPatterns","value":"Expressed in intestinal stem cell (Drosophila) in digestive tract and 135 other cell types or tissues"}]},{"database":"ExpressionAtlas","id":"Q9VYS3","properties":[{"key":"ExpressionPatterns","value":"baseline and differential"}]},{"database":"GO","id":"GO:0005737","properties":[{"key":"GoTerm","value":"C:cytoplasm"},{"key":"GoEvidenceType","value":"EXP:UniProtKB"}],"evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"17178403"}]},{"database":"GO","id":"GO:0071598","properties":[{"key":"GoTerm","value":"C:neuronal ribonucleoprotein granule"},{"key":"GoEvidenceType","value":"IDA:UniProtKB"}],"evidences":[{"evidenceCode":"ECO:0000314","source":"PubMed","id":"17178403"}]},{"database":"GO","id":"GO:0043139","properties":[{"key":"GoTerm","value":"F:5'-3' DNA helicase activity"},{"key":"GoEvidenceType","value":"IEA:UniProtKB-EC"}]},{"database":"GO","id":"GO:0032574","properties":[{"key":"GoTerm","value":"F:5'-3' RNA helicase activity"},{"key":"GoEvidenceType","value":"IEA:UniProtKB-EC"}]},{"database":"GO","id":"GO:0005524","properties":[{"key":"GoTerm","value":"F:ATP binding"},{"key":"GoEvidenceType","value":"IEA:InterPro"}]},{"database":"GO","id":"GO:0016887","properties":[{"key":"GoTerm","value":"F:ATP hydrolysis activity"},{"key":"GoEvidenceType","value":"ISS:UniProtKB"}]},{"database":"GO","id":"GO:0003677","properties":[{"key":"GoTerm","value":"F:DNA binding"},{"key":"GoEvidenceType","value":"IEA:InterPro"}]},{"database":"GO","id":"GO:0036121","properties":[{"key":"GoTerm","value":"F:double-stranded DNA helicase activity"},{"key":"GoEvidenceType","value":"ISS:UniProtKB"}]},{"database":"GO","id":"GO:0003723","properties":[{"key":"GoTerm","value":"F:RNA binding"},{"key":"GoEvidenceType","value":"IEA:InterPro"}]},{"database":"GO","id":"GO:0003724","properties":[{"key":"GoTerm","value":"F:RNA helicase activity"},{"key":"GoEvidenceType","value":"IBA:GO_Central"}]},{"database":"GO","id":"GO:0008270","properties":[{"key":"GoTerm","value":"F:zinc ion binding"},{"key":"GoEvidenceType","value":"IEA:InterPro"}]},{"database":"GO","id":"GO:0071456","properties":[{"key":"GoTerm","value":"P:cellular response to hypoxia"},{"key":"GoEvidenceType","value":"IMP:FlyBase"}],"evidences":[{"evidenceCode":"ECO:0000315","source":"PubMed","id":"18653470"}]},{"database":"GO","id":"GO:0000184","properties":[{"key":"GoTerm","value":"P:nuclear-transcribed mRNA catabolic process, nonsense-mediated decay"},{"key":"GoEvidenceType","value":"IMP:FlyBase"}],"evidences":[{"evidenceCode":"ECO:0000315","source":"PubMed","id":"16177138"},{"evidenceCode":"ECO:0000315","source":"PubMed","id":"25452588"}]},{"database":"GO","id":"GO:2000624","properties":[{"key":"GoTerm","value":"P:positive regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay"},{"key":"GoEvidenceType","value":"IMP:FlyBase"}],"evidences":[{"evidenceCode":"ECO:0000315","source":"PubMed","id":"20145706"}]},{"database":"CDD","id":"cd21407","properties":[{"key":"EntryName","value":"1B_UPF1-like"},{"key":"MatchStatus","value":"1"}]},{"database":"CDD","id":"cd18039","properties":[{"key":"EntryName","value":"DEXXQc_UPF1"},{"key":"MatchStatus","value":"1"}]},{"database":"CDD","id":"cd18808","properties":[{"key":"EntryName","value":"SF1_C_Upf1"},{"key":"MatchStatus","value":"1"}]},{"database":"CDD","id":"cd21400","properties":[{"key":"EntryName","value":"ZBD_UPF1-like"},{"key":"MatchStatus","value":"1"}]},{"database":"FunFam","id":"2.40.30.230:FF:000001","properties":[{"key":"EntryName","value":"Regulator of nonsense transcripts 1"},{"key":"MatchStatus","value":"1"}]},{"database":"FunFam","id":"3.40.50.300:FF:000097","properties":[{"key":"EntryName","value":"Regulator of nonsense transcripts 1"},{"key":"MatchStatus","value":"1"}]},{"database":"Gene3D","id":"2.40.30.230","properties":[{"key":"EntryName","value":"-"},{"key":"MatchStatus","value":"1"}]},{"database":"Gene3D","id":"6.10.140.1240","properties":[{"key":"EntryName","value":"-"},{"key":"MatchStatus","value":"1"}]},{"database":"Gene3D","id":"3.40.50.300","properties":[{"key":"EntryName","value":"P-loop containing nucleotide triphosphate hydrolases"},{"key":"MatchStatus","value":"2"}]},{"database":"InterPro","id":"IPR045055","properties":[{"key":"EntryName","value":"DNA2/NAM7-like"}]},{"database":"InterPro","id":"IPR041679","properties":[{"key":"EntryName","value":"DNA2/NAM7-like_C"}]},{"database":"InterPro","id":"IPR041677","properties":[{"key":"EntryName","value":"DNA2/NAM7_AAA_11"}]},{"database":"InterPro","id":"IPR006935","properties":[{"key":"EntryName","value":"Helicase/UvrB_N"}]},{"database":"InterPro","id":"IPR027417","properties":[{"key":"EntryName","value":"P-loop_NTPase"}]},{"database":"InterPro","id":"IPR047187","properties":[{"key":"EntryName","value":"SF1_C_Upf1"}]},{"database":"InterPro","id":"IPR040812","properties":[{"key":"EntryName","value":"UPF1_1B_dom"}]},{"database":"InterPro","id":"IPR018999","properties":[{"key":"EntryName","value":"UPF1_CH/ZBD"}]},{"database":"PANTHER","id":"PTHR10887","properties":[{"key":"EntryName","value":"DNA2/NAM7 HELICASE FAMILY"},{"key":"MatchStatus","value":"1"}]},{"database":"PANTHER","id":"PTHR10887:SF364","properties":[{"key":"EntryName","value":"REGULATOR OF NONSENSE TRANSCRIPTS 1"},{"key":"MatchStatus","value":"1"}]},{"database":"Pfam","id":"PF13086","properties":[{"key":"EntryName","value":"AAA_11"},{"key":"MatchStatus","value":"1"}]},{"database":"Pfam","id":"PF13087","properties":[{"key":"EntryName","value":"AAA_12"},{"key":"MatchStatus","value":"1"}]},{"database":"Pfam","id":"PF04851","properties":[{"key":"EntryName","value":"ResIII"},{"key":"MatchStatus","value":"1"}]},{"database":"Pfam","id":"PF18141","properties":[{"key":"EntryName","value":"UPF1_1B_dom"},{"key":"MatchStatus","value":"1"}]},{"database":"Pfam","id":"PF09416","properties":[{"key":"EntryName","value":"UPF1_Zn_bind"},{"key":"MatchStatus","value":"1"}]},{"database":"SUPFAM","id":"SSF52540","properties":[{"key":"EntryName","value":"P-loop containing nucleoside triphosphate hydrolases"},{"key":"MatchStatus","value":"1"}]},{"database":"PROSITE","id":"PS51997","properties":[{"key":"EntryName","value":"UPF1_CH_RICH"},{"key":"MatchStatus","value":"1"}]},{"database":"PROSITE","id":"PS52088","properties":[{"key":"EntryName","value":"UPF1_HELICASE"},{"key":"MatchStatus","value":"1"}]}],"sequence":{"value":"MSVDTYAPSSALSFLDMDDNELLPGADTQPTQYDYRDFTMPSTSQSQTQNDQLEIAQRCSAGDSHPRLASITNDLADLQFEEEDDEPGSSYVKELPPHACKYCGIHDPATVVMCNNCRKWFCNGRGSTSGSHIINHLVRAKHREVTLHGEGPLGETILECYSCGVRNVFVLGFIPAKADSVVVLLCRQPCAAQNSLKDMNWDQEQWKPLIADRCFLAWLVKQPSEQGQLRARQISAAQINKLEELWKENIEATFQDLEKPGIDSEPAHVLLRYEDGYQYEKTFGPLVRLEAEYDQKLKESATQENIEVRWDVGLNKKTIAYFTLAKTDSDMKLMHGDELRLHYVGELYNPWSEIGHVIKVPDNFGDDVGLELKSSTNAPVKCTSNFTVDFIWKCTSFDRMTRALCKFAIDRNSVSNFIYSRLLGHGRADSNDEVLFRGPQPKLFSAPHLPDLNRSQVYAVKHALQRPLSLIQGPPGTGKTVTSATIVYQLVKLHGGTVLVCAPSNTAVDQLTEKIHRTNLKVVRVCAKSREAIDSPVSFLALHNQIRNMETNSELKKLQQLKDETGELSSADEKRYRNLKRAAENQLLEAADVICCTCVGAGDGRLSRVKFTSILIDESMQSTEPECMVPVVLGAKQLILVGDHCQLGPVVMCKKAARAGLSQSLFERLVVLGIRPFRLEVQYRMHPELSQFPSNFFYEGSLQNGVCAEDRRLKLDFPWPQPERPMFFLVTQGQEEIAGSGTSFLNRTEAANVEKITTRFLKAGIKPEQIGIITPYEGQRAYLVQYMQYQGSLHSRLYQEIEIASVDAFQGREKDIIIMSCVRSNERQGIGFLNDPRRLNVALTRAKFGIIIVGNPKVLAKQQLWNHLLNFYKDRKVLVEGSLNNLKESLIHFQKPKKLVNSMNIGAHFMSTIIADAKEVMVPGSIYDRSGGYGQGRQMVGQSMNGGQYGGSGGGPYGNSPLGYGTPSSNSMVGFGLGNGGNGAAGGNNNFGGAGPSWAAAHLHHDSIGYISNEHGAAALGNMPVPVGMFMNMSNIPPRFYNQHQQAIMAVKQNRAIQQQTGNFSPGNSGPGVTGVGVGRSATPGGNKKTNKLGKSRVTGGGTGGAPLTQGSSVCNAAPYSQHPMPLSLQMTQPSGFALSQQPELSQDFGQISQMDGLLSQDVAFNASGERSLNQFSQPY","length":1180,"molWeight":129913,"crc64":"150EAA970D221D0E","md5":"0D1C3B90F9ACBB265F6B829C72B870E6"},"extraAttributes":{"countByCommentType":{"FUNCTION":1,"CATALYTIC ACTIVITY":3,"COFACTOR":2,"SUBCELLULAR LOCATION":1,"PTM":1,"MISCELLANEOUS":1,"SIMILARITY":1},"countByFeatureType":{"Chain":1,"Domain":3,"Region":5,"Compositional bias":2,"Binding site":23},"uniParcId":"UPI00001344EB"}}