UPF3_YEAST
ID UPF3_YEAST Reviewed; 387 AA.
AC P48412; D6VUK5; E9P8W8;
DT 01-FEB-1996, integrated into UniProtKB/Swiss-Prot.
DT 01-FEB-1996, sequence version 1.
DT 03-AUG-2022, entry version 153.
DE RecName: Full=Nonsense-mediated mRNA decay protein 3;
DE AltName: Full=Up-frameshift suppressor 3;
GN Name=UPF3; Synonyms=SUA6; OrderedLocusNames=YGR072W;
OS Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast).
OC Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes;
OC Saccharomycetales; Saccharomycetaceae; Saccharomyces.
OX NCBI_TaxID=559292;
RN [1]
RP NUCLEOTIDE SEQUENCE [GENOMIC DNA].
RX PubMed=7479783; DOI=10.1073/pnas.92.22.10354;
RA Lee B.-S., Culbertson M.R.;
RT "Identification of an additional gene required for eukaryotic nonsense mRNA
RT turnover.";
RL Proc. Natl. Acad. Sci. U.S.A. 92:10354-10358(1995).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=ATCC 204508 / S288c;
RX PubMed=9169869;
RA Tettelin H., Agostoni-Carbone M.L., Albermann K., Albers M., Arroyo J.,
RA Backes U., Barreiros T., Bertani I., Bjourson A.J., Brueckner M.,
RA Bruschi C.V., Carignani G., Castagnoli L., Cerdan E., Clemente M.L.,
RA Coblenz A., Coglievina M., Coissac E., Defoor E., Del Bino S., Delius H.,
RA Delneri D., de Wergifosse P., Dujon B., Durand P., Entian K.-D., Eraso P.,
RA Escribano V., Fabiani L., Fartmann B., Feroli F., Feuermann M.,
RA Frontali L., Garcia-Gonzalez M., Garcia-Saez M.I., Goffeau A.,
RA Guerreiro P., Hani J., Hansen M., Hebling U., Hernandez K., Heumann K.,
RA Hilger F., Hofmann B., Indge K.J., James C.M., Klima R., Koetter P.,
RA Kramer B., Kramer W., Lauquin G., Leuther H., Louis E.J., Maillier E.,
RA Marconi A., Martegani E., Mazon M.J., Mazzoni C., McReynolds A.D.K.,
RA Melchioretto P., Mewes H.-W., Minenkova O., Mueller-Auer S., Nawrocki A.,
RA Netter P., Neu R., Nombela C., Oliver S.G., Panzeri L., Paoluzi S.,
RA Plevani P., Portetelle D., Portillo F., Potier S., Purnelle B., Rieger M.,
RA Riles L., Rinaldi T., Robben J., Rodrigues-Pousada C.,
RA Rodriguez-Belmonte E., Rodriguez-Torres A.M., Rose M., Ruzzi M.,
RA Saliola M., Sanchez-Perez M., Schaefer B., Schaefer M., Scharfe M.,
RA Schmidheini T., Schreer A., Skala J., Souciet J.-L., Steensma H.Y.,
RA Talla E., Thierry A., Vandenbol M., van der Aart Q.J.M., Van Dyck L.,
RA Vanoni M., Verhasselt P., Voet M., Volckaert G., Wambutt R., Watson M.D.,
RA Weber N., Wedler E., Wedler H., Wipfli P., Wolf K., Wright L.F.,
RA Zaccaria P., Zimmermann M., Zollner A., Kleine K.;
RT "The nucleotide sequence of Saccharomyces cerevisiae chromosome VII.";
RL Nature 387:81-84(1997).
RN [3]
RP GENOME REANNOTATION.
RC STRAIN=ATCC 204508 / S288c;
RX PubMed=24374639; DOI=10.1534/g3.113.008995;
RA Engel S.R., Dietrich F.S., Fisk D.G., Binkley G., Balakrishnan R.,
RA Costanzo M.C., Dwight S.S., Hitz B.C., Karra K., Nash R.S., Weng S.,
RA Wong E.D., Lloyd P., Skrzypek M.S., Miyasato S.R., Simison M., Cherry J.M.;
RT "The reference genome sequence of Saccharomyces cerevisiae: Then and now.";
RL G3 (Bethesda) 4:389-398(2014).
RN [4]
RP NUCLEOTIDE SEQUENCE [GENOMIC DNA].
RC STRAIN=ATCC 204508 / S288c;
RX PubMed=17322287; DOI=10.1101/gr.6037607;
RA Hu Y., Rolfs A., Bhullar B., Murthy T.V.S., Zhu C., Berger M.F.,
RA Camargo A.A., Kelley F., McCarron S., Jepson D., Richardson A., Raphael J.,
RA Moreira D., Taycher E., Zuo D., Mohr S., Kane M.F., Williamson J.,
RA Simpson A.J.G., Bulyk M.L., Harlow E., Marsischky G., Kolodner R.D.,
RA LaBaer J.;
RT "Approaching a complete repository of sequence-verified protein-encoding
RT clones for Saccharomyces cerevisiae.";
RL Genome Res. 17:536-543(2007).
RN [5]
RP SUBCELLULAR LOCATION.
RX PubMed=11502169; DOI=10.1021/bi010277r;
RA Grandier-Vazeille X., Bathany K., Chaignepain S., Camougrand N., Manon S.,
RA Schmitter J.-M.;
RT "Yeast mitochondrial dehydrogenases are associated in a supramolecular
RT complex.";
RL Biochemistry 40:9758-9769(2001).
RN [6]
RP LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
RX PubMed=14562106; DOI=10.1038/nature02046;
RA Ghaemmaghami S., Huh W.-K., Bower K., Howson R.W., Belle A., Dephoure N.,
RA O'Shea E.K., Weissman J.S.;
RT "Global analysis of protein expression in yeast.";
RL Nature 425:737-741(2003).
CC -!- FUNCTION: Involved in nonsense-mediated decay of mRNAs containing
CC premature stop codons.
CC -!- INTERACTION:
CC P48412; P38798: NMD2; NbExp=3; IntAct=EBI-20117, EBI-12071;
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000269|PubMed:11502169}.
CC -!- MISCELLANEOUS: Present with 1250 molecules/cell in log phase SD medium.
CC {ECO:0000269|PubMed:14562106}.
CC -!- SIMILARITY: Belongs to the RENT3 family. {ECO:0000305}.
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DR EMBL; L41153; AAC41671.1; -; Genomic_DNA.
DR EMBL; Z72857; CAA97074.1; -; Genomic_DNA.
DR EMBL; AY692750; AAT92769.1; -; Genomic_DNA.
DR EMBL; BK006941; DAA08166.1; -; Genomic_DNA.
DR PIR; S62140; S62140.
DR RefSeq; NP_011586.1; NM_001181201.1.
DR AlphaFoldDB; P48412; -.
DR BioGRID; 33315; 271.
DR ComplexPortal; CPX-1315; Nonsense-mediated decay complex.
DR DIP; DIP-2294N; -.
DR IntAct; P48412; 3.
DR MINT; P48412; -.
DR STRING; 4932.YGR072W; -.
DR MaxQB; P48412; -.
DR PaxDb; P48412; -.
DR PRIDE; P48412; -.
DR EnsemblFungi; YGR072W_mRNA; YGR072W; YGR072W.
DR GeneID; 852963; -.
DR KEGG; sce:YGR072W; -.
DR SGD; S000003304; UPF3.
DR VEuPathDB; FungiDB:YGR072W; -.
DR eggNOG; KOG1295; Eukaryota.
DR HOGENOM; CLU_059786_0_0_1; -.
DR InParanoid; P48412; -.
DR OMA; LEKCANF; -.
DR BioCyc; YEAST:G3O-30785-MON; -.
DR Reactome; R-SCE-975957; Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC).
DR PRO; PR:P48412; -.
DR Proteomes; UP000002311; Chromosome VII.
DR RNAct; P48412; protein.
DR GO; GO:0005737; C:cytoplasm; IDA:SGD.
DR GO; GO:0005730; C:nucleolus; IDA:SGD.
DR GO; GO:0005634; C:nucleus; IDA:SGD.
DR GO; GO:0005844; C:polysome; IDA:SGD.
DR GO; GO:0003729; F:mRNA binding; HDA:SGD.
DR GO; GO:0071026; P:cytoplasmic RNA surveillance; IC:ComplexPortal.
DR GO; GO:0006310; P:DNA recombination; IMP:SGD.
DR GO; GO:0070478; P:nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decay; IGI:SGD.
DR GO; GO:0000184; P:nuclear-transcribed mRNA catabolic process, nonsense-mediated decay; IBA:GO_Central.
DR GO; GO:0045727; P:positive regulation of translation; IBA:GO_Central.
DR GO; GO:0016567; P:protein ubiquitination; IMP:SGD.
DR Gene3D; 3.30.70.330; -; 1.
DR InterPro; IPR012677; Nucleotide-bd_a/b_plait_sf.
DR InterPro; IPR035979; RBD_domain_sf.
DR InterPro; IPR039722; Upf3.
DR InterPro; IPR005120; UPF3_dom.
DR PANTHER; PTHR13112; PTHR13112; 1.
DR Pfam; PF03467; Smg4_UPF3; 1.
DR SUPFAM; SSF54928; SSF54928; 1.
PE 1: Evidence at protein level;
KW Nonsense-mediated mRNA decay; Nucleus; Reference proteome.
FT CHAIN 1..387
FT /note="Nonsense-mediated mRNA decay protein 3"
FT /id="PRO_0000215298"
FT REGION 1..71
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 270..317
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 345..387
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT MOTIF 15..31
FT /note="Nuclear localization signal"
FT /evidence="ECO:0000255"
FT MOTIF 58..75
FT /note="Nuclear localization signal"
FT /evidence="ECO:0000255"
FT MOTIF 284..300
FT /note="Nuclear localization signal"
FT /evidence="ECO:0000255"
FT COMPBIAS 26..40
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 41..55
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 56..70
FT /note="Basic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 346..369
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT CONFLICT 26
FT /note="N -> D (in Ref. 4; AAT92769)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 387 AA; 44924 MW; 665A572D9A393133 CRC64;
MSNVAGELKN SEGKKKGRGN RYHNKNRGKS KNETVDPKKN ENKVNNATNA THNNSKGRRN
NKKRNREYYN YKRKARLGKS TENEGFKLVI RLLPPNLTAD EFFAILRDNN NDDGDKQDIQ
GKLKYSDWCF FEGHYSSKVF KNSTYSRCNF LFDNLSDLEK CANFIKTCKF IDNKDNITIP
DMKLSPYVKK FTQTSKKDAA LVGTIEEDEI FKTFMNSMKQ LNENDEYSFQ DFSVLKSLEK
EFSKSIELEN KIAERTERVL TELVGTGDKV KNKNKKKKNK NAKKKFKEEE ASAKIPKKKR
NRGKKKRENR EKSTISKTKN SNVVIIEEAG KEVLKQRKKK MLLQEKLKIS NSSQPQSSSA
QTQPSFQPKE NLFVPRVKIL HRDDTKK
