GPMDB00195OtherLow TY, et al.InstrumentNot AvailableNot availableHomo_sapiens_viruses, Human_femalea.j.r.heck@uu.nl25515538http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006517http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006516http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006515http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006514http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006519http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006518http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006476http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006475http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006474http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006473http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006513http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006512http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006479http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006511http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006478http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006510http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006477http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006483http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006482http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006481http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006480http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006528http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006527http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006526http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006525http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006529http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006487http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006520http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006486http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006485http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006484http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006524http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006523http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006489http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006522http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006521http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006488http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006490http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006494http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006493http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006492http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006491http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006539http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006538http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006537http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006536http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006531http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006498http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006497http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006530http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006496http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006495http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006535http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006534http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006533http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006499http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006532http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006549http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006548http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006547http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006542http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006541http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006540http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006546http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006545http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006544http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006543http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006439http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006438http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006437http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006553http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006552http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006551http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006550http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006436http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006435http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006434http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006449http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006448http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006443http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006442http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006441http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006440http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006447http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006446http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006445http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006444http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006450http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006459http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006454http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006453http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006452http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006451http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006457http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006456http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006455http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006461http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006460http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006506http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006505http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006504http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006503http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006509http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006508http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006507http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006465http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006464http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006463http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006462http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006469http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006502http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006501http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006468http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006500http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006467http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006466http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006472http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006471http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006470Utrecht UniversityNot availableGPMDBCellular proteins are degraded by the ubiquitin-proteasome system (UPS) in a precise and timely fashion. Such precision is conferred by the high substrate specificity of ubiquitin ligases. Identification of substrates of ubiquitin ligases is crucial not only to unravel the molecular mechanisms by which the UPS controls protein degradation but also for drug discovery purposes because many established UPS substrates are implicated in disease. We developed a combined bioinformatics and affinity purification-mass spectrometry (AP-MS) workflow for the system-wide identification of substrates of SCF(βTrCP), a member of the SCF family of ubiquitin ligases. These ubiquitin ligases are characterized by a multisubunit architecture typically consisting of the invariable subunits Rbx1, Cul1, and Skp1 and one of 69 F-box proteins. The F-box protein of this member of the family is βTrCP. SCF(βTrCP) binds, through the WD40 repeats of βTrCP, to the DpSGXX(X)pS diphosphorylated motif in its substrates. We recovered 27 previously reported SCF(βTrCP) substrates, of which 22 were verified by two independent statistical protocols, thereby confirming the reliability of this approach. In addition to known substrates, we identified 221 proteins that contained the DpSGXX(X)pS motif and also interacted specifically with the WD40 repeats of βTrCP. Thus, with SCF(βTrCP), as the example, we showed that integration of structural information, AP-MS, and degron motif mining constitutes an effective method to screen for substrates of ubiquitin ligases.A systems-wide screen identifies substrates of the SCFβTrCP ubiquitin ligase.Low Teck Yew TY,Peng Mao M,Magliozzi Roberto R,Mohammed Shabaz S,Guardavaccaro Daniele D,Heck Albert J R AJ,Low Teck Yew TY, Peng Mao M, Magliozzi Roberto R, Mohammed Shabaz S, Guardavaccaro Daniele D, Heck Albert J R AJmE3RS-IkappaB, pIkappaB-E3 receptor subunit, betaTrCP, ligase., KIT binding, steel factor, wide/broad, Slf, hematopoietic growth factor KL, Beta-transducin repeat-containing protein, FPH2, FBXW1A, ATP Dependent Proteolysis Factor 1, broad, Ubiquitin carboxyl extension protein 80, CEP52, sKITLG, Human, Fbw1a, Ubiquitin A-52 residue ribosomal protein fusion product 1, SCFR binding, Ubiquitin-related 2, HOS, FBXW1, HMG-20, ubiquitin-like protein modifier, ATP-Dependent Proteolysis Factor 1, Ubiquitin, covalent modifier, SHEP7, BETA-TRCP, High Mobility Protein 20, mast cell growth factor, E3RSIkappaB, b-TrCP, beta-TrCP, Stem cell factor, Human Ubiquitin, SF, Ubiquitin-related 1, Kitl, F-box and WD repeats protein beta-TrCP, Beta-Trcp1, Mast cell growth factor, Beta-TrCP, FWD1, Slimb, bTrCP, APF-1, stem cell factor, 40S ribosomal protein S27a, wide, KL-1, E3RS-IkappaB, Beta-TrCP protein E3RS-IkappaB, 60S ribosomal protein L40, bTrCP1, MGF, c-Kit ligand, ubiquitin, KITLG, FBW1A, Ubiquitin-related, Soluble KIT ligand, stem cell factor receptor ligand, SCF, Sl, protein tagging activity, Ubiquitin ligase FWD1mE3RS-IkappaB, Extended Families, Networks, Protein Family, betaTrCP, pIkappaB-E3 receptor subunit, KIT binding, Family Member, Extended, Kinship, F Box Proteins, GLM2, Slf, Beta-transducin repeat-containing protein, FBXW1A, FPH2, Extended Family, Synthetases, ATP Dependent Proteolysis Factor 1, Network, Spectrum Analyses, broad, Ubiquitin carboxyl extension protein 80, 2610043E24Rik, body system, SKP1, Human, MHAM, RING-box protein 1, AA517855, HOS, FBXW1, Rbx1, Mass, Life Cycle, system, HMG-20, TEP1, OCP-II, Analysis, ubiquitin-like protein modifier, Work Flow, Mass Spectroscopy, Family Life Cycle, Tceb1l, Mass Spectrum Analysis, RNF75, BETA-TRCP, anatomical systems, Kinship Network, High Mobility Protein 20, Analyses, Identification, E3RSIkappaB, F Box Domain Protein, Research, F-Box, RING finger protein 75, F Box Protein Family., SF, Ubiquitin-related 1, Kitl, Domain Protein, F-box and WD repeats protein beta-TrCP, Mast cell growth factor, bTrCP, Slimb, APF-1, 40S ribosomal protein S27a, Beta-TrCP protein E3RS-IkappaB, 15kDa, ROC1, ubiquitin, p19Skp1, FBW1A, Soluble KIT ligand, stem cell factor receptor ligand, Kinship Networks, Family Life Cycles, Sl, Family, protein tagging activity, Ubiquitin ligase FWD1, data, steel factor, E3 ubiquitin-protein ligase RBX1, wide/broad, Family Research, BA554C12.1, Skp1a, 6.3.2.-, hematopoietic growth factor KL, OCP2, Reconstituted Families, p19A, CEP52, Spectrum Analysis, SKP1A, sKITLG, TCEB1L, Spectroscopy, Family Members, Fbw1a, Workflows, Ubiquitin A-52 residue ribosomal protein fusion product 1, SCFR binding, PTEN1, Stepfamily, Ubiquitin-related 2, Regulator of cullins 1, CWS1, Protein, Synthetase, Protein ZYP, connected anatomical system, ATP-Dependent Proteolysis Factor 1, Filiation, Mass Spectrum Analyses, Ubiquitin, Mass Spectrum, covalent modifier, SHEP7, 10q23del, mast cell growth factor, b-TrCP, Reconstituted Family, N-terminally processed, beta-TrCP, MMAC1, Stem cell factor, Spectrometry, Human Ubiquitin, Identifications (Psychology), 1500002P15Rik, Beta-Trcp1, Beta-TrCP, FWD1, organ system, F-Box Domain Protein, Life Cycles, DEC, stem cell factor, wide, KL-1, Reconstituted, E3RS-IkappaB, 60S ribosomal protein L40, bTrCP1, Families, MGF, c-Kit ligand, F-Box Domain, KITLG, Ubiquitin-related, EMC19, SCF, 2610206H23Rik, F-Box Protein Family, BZS, Relatives, Work Flows, StepfamiliesUbiquitin, covalent modifier, ligase., KIT binding, SHEP7, steel factor, wide/broad, High Mobility Protein 20, mast cell growth factor, Slf, hematopoietic growth factor KL, Stem cell factor, Human Ubiquitin, SF, Ubiquitin-related 1, Kitl, FPH2, ATP Dependent Proteolysis Factor 1, broad, Ubiquitin carboxyl extension protein 80, CEP52, Mast cell growth factor, sKITLG, Human, APF-1, stem cell factor, 40S ribosomal protein S27a, wide, KL-1, Ubiquitin A-52 residue ribosomal protein fusion product 1, SCFR binding, 60S ribosomal protein L40, Ubiquitin-related 2, MGF, c-Kit ligand, ubiquitin, KITLG, HMG-20, Ubiquitin-related, Soluble KIT ligand, stem cell factor receptor ligand, SCF, ubiquitin-like protein modifier, ATP-Dependent Proteolysis Factor 1, Sl, protein tagging activityExtended Families, Networks, Protein Family, KIT binding, Family Member, Extended, Kinship, F Box Proteins, Procedures, Prospecting, Repeat, Slf, Uros1, Gene, protein breakdown, Synthetases, FPH2, Extended Family, ATP Dependent Proteolysis Factor 1, Network, Ubiquitin carboxyl extension protein 80, Spectrum Analyses, broad, Ups, 2610043E24Rik, body system, SKP1, Human, WD40, RING-box protein 1, AA517855, beta-Transducin, method, Method, Drug Prospecting, method used in an experiment, Rbx1, Gene Products, Mass, Studies, Life Cycle, HMG-20, system, OCP-II, Analysis, ubiquitin-like protein modifier, Work Flow, Mass Spectroscopy, protein degradation, Family Life Cycle, Tceb1l, Specificities, Mass Spectrum Analysis, RNF75, human disease, anatomical systems, pheromone catabolism, High Mobility Protein 20, Kinship Network, Identification, Analyses, F Box Domain Protein, Research, F-Box, RING finger protein 75, T25658, SF, Ubiquitin-related 1, Kitl, proteins, Domain Protein, protein catabolism, Mast cell growth factor, WD40 Repeat, Study, APF-1, 40S ribosomal protein S27a, WD40 Motifs, 15kDa, Methodological Studies, PBGD, Repeats, ROC1, ubiquitin, F Box Protein Family, p19Skp1, 26S proteasome, Homo sapiens disease, Motifs, Soluble KIT ligand, stem cell factor receptor ligand, Kinship Networks, Family Life Cycles, protein tagging activity, Sl, Family, beta Transducin Repeats, WD Repeats, steel factor, E3 ubiquitin-protein ligase RBX1, wide/broad, Family Research, BA554C12.1, Skp1a, 6.3.2.-, hematopoietic growth factor KL, Proteins, OCP2, Reconstituted Families, Procedure, p19A, CEP52, Spectrum Analysis, SKP1A, sKITLG, TCEB1L, Spectroscopy, Family Members, polypeptide, Workflows, Ubiquitin A-52 residue ribosomal protein fusion product 1, SCFR binding, Discovery, Stepfamily, Ubiquitin-related 2, Regulator of cullins 1, Protein, Diseases, WD40 Motif, Synthetase, Protein ZYP, ATP-Dependent Proteolysis Factor 1, connected anatomical system, Filiation, Mass Spectrum Analyses, Ubiquitin, proteasome, covalent modifier, Mass Spectrum, pheromone catabolic process, SHEP7, mast cell growth factor, Reconstituted Family, N-terminally processed, WD, Stem cell factor, Human Ubiquitin, Specificity, Spectrometry, Identifications (Psychology), Methodological, 1500002P15Rik, Methodological Study, Protein Gene Products, organ system, Drug, F-Box Domain Protein, plan specification, Gene Proteins, Substrate Specificities, Life Cycles, beta-Transducin Repeat, stem cell factor, wide, WD Repeat, multicellular organismal protein catabolic process, KL-1, Reconstituted, 60S ribosomal protein L40, Families, MGF, c-Kit ligand, F-Box Domain, Substrate, beta-Transducin Repeats, KITLG, Ubiquitin-related, EMC19, Synthetases., SCF, 2610206H23Rik, F-Box Protein Family, Relatives, Work Flows, Stepfamilies, Motif1905http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320006530dbgap_ncbi~0patentfamilies~0rfam~0merops~0complex-portal~0uniprot~0wormbaseparasite~0embl-covid19~0reactome~0emdb~0wgs_masters~0ebiweb_resources~0opentargets_genetics~0biomodels_all~0ipd-mhc~0ebiweb_teams~0taxonomy~0genome_assembly~0sc-experiments~0ebiweb_people~0enzymeportal_enzymes~0ipd-nhkir~0cellosaurus~0pdbe~0chebi~0patentproteins~0interpro7~0uniref~0chembl~0pdbekb~0gpcrdb~0hgnc~0sc-genes~0intact~0rhea~0ebiweb_training~0alphafold~0imgt-hla~0patentnucleotides~0ensemblroot~0eva_studies~0non-coding~0europepmc~0pubmed~1identifiers_registry~0pdbechem~0hpa-covid19~0eva-variants-covid19~0biosamples~0gwas_catalog~0biotools~0tls_masters~0mesh~0coding~0sra~0opentargets~0efo~0embl-pathogen~0project~0pride~1human_diseases~0geo_datasets~0embl~0treefam~0uniparc~0ols~0dgva~0intenz~0go~0tsa_masters~0biosamples-covid19~0ebiweb_corporate~0omim~0lrg~0earlycause-molecular-sequences~0ipd-kir~0empiar~0rnacentral~0orcid_data_claims~0gpmdb~2lineage-covid19~0metagenomics~0pfam~0pride archive~1varsite~00Resource Reanalysis0.00.00.0058605798889574340.01.0falseA systems-wide screen identifies substrates of the SCF-beta-TrCP ubiquitin ligase.Data from ProteomeXchange, PXD ID: PXD001224. File: OR3_100623_BTrCP_EV_IP_Band01.mzml. Published as part of Sci Signal. 2014 Dec 16;7(356):rs8 . From the Abstract: {{i}} ... We developed a combined bioinformatics and affinity purification-mass spectrometry (AP-MS) workflow for the system-wide identification of substrates of SCF(beta-TrCP), a member of the SCF family of ubiquitin ligases. These ubiquitin ligases are characterized by a multisubunit architecture typically consisting of the invariable subunits Rbx1, Cul1, and Skp1 and one of 69 F-box proteins ... {{/i}}2015-01-07GPM3232000653025515538PXD001224PXD001224