DIP Database of Interacting Proteins 611 Young Drive East; Los Angeles CA 90095; USA http://dip.doe-mbi.ucla.edu/ dip@mbi.ucla.edu 611 Young Drive East; Los Angeles CA 90095; USA http://dip.doe-mbi.ucla.edu/ yin-2009-5 in vitro In vitro molecular sieving molecular sieving Gel Filtration Size Exclusion Chromatography Size Exclusion Chromatography Gel Filtration Sizing column predetermined predetermined participant predetermined Yin Q., Lin SC., Lamothe B., Lu M., Lo YC., Hura G., Zheng L., Rich RL., Campos AD., Myszka DG., Lenardo MJ., Darnay BG., Wu H. DIP original experiment: DIP-133050X Nature structural & molecular biology 2009 IMEx E2 interaction and dimerization in the crystal structure of TRAF6. Yin Q., Lin SC., Lamothe B., Lu M., Lo YC., Hura G., Zheng L., Rich RL., Campos AD., Myszka DG., Lenardo MJ., Darnay BG., Wu H. Only protein-protein interactions imex curation yin-2009-6 in vitro In vitro x-ray diffraction x-ray crystallography X-ray X-ray x-ray diffraction predetermined predetermined participant predetermined Yin Q., Lin SC., Lamothe B., Lu M., Lo YC., Hura G., Zheng L., Rich RL., Campos AD., Myszka DG., Lenardo MJ., Darnay BG., Wu H. DIP original experiment: DIP-133052X Nature structural & molecular biology 2009 IMEx E2 interaction and dimerization in the crystal structure of TRAF6. Yin Q., Lin SC., Lamothe B., Lu M., Lo YC., Hura G., Zheng L., Rich RL., Campos AD., Myszka DG., Lenardo MJ., Darnay BG., Wu H. Only protein-protein interactions imex curation yin-2009-7 ecolx Escherichia coli molecular sieving molecular sieving Gel Filtration Size Exclusion Chromatography Size Exclusion Chromatography Gel Filtration Sizing column predetermined predetermined participant predetermined Yin Q., Lin SC., Lamothe B., Lu M., Lo YC., Hura G., Zheng L., Rich RL., Campos AD., Myszka DG., Lenardo MJ., Darnay BG., Wu H. DIP original experiment: DIP-133055X Nature structural & molecular biology 2009 IMEx E2 interaction and dimerization in the crystal structure of TRAF6. Yin Q., Lin SC., Lamothe B., Lu M., Lo YC., Hura G., Zheng L., Rich RL., Campos AD., Myszka DG., Lenardo MJ., Darnay BG., Wu H. Only protein-protein interactions imex curation yin-2009-8 yeasx Saccharomyces cerevisiae (Baker's yeast) Baker's yeast 2 hybrid two hybrid 2H 2h Gal4 transcription regeneration two-hybrid yeast two hybrid 2-hybrid classical two hybrid classical two hybrid 2H two-hybrid 2-hybrid Gal4 transcription regeneration 2h yeast two hybrid Y2H Y-2H 2 hybrid predetermined predetermined participant predetermined Yin Q., Lin SC., Lamothe B., Lu M., Lo YC., Hura G., Zheng L., Rich RL., Campos AD., Myszka DG., Lenardo MJ., Darnay BG., Wu H. DIP original experiment: DIP-133054X Nature structural & molecular biology 2009 IMEx E2 interaction and dimerization in the crystal structure of TRAF6. Yin Q., Lin SC., Lamothe B., Lu M., Lo YC., Hura G., Zheng L., Rich RL., Campos AD., Myszka DG., Lenardo MJ., Darnay BG., Wu H. Only protein-protein interactions imex curation yin-2009-9 human Homo sapiens Human fret fluorescent resonance energy transfer FRET RET FRET analysis FRET RET FRET analysis fret predetermined predetermined participant predetermined Yin Q., Lin SC., Lamothe B., Lu M., Lo YC., Hura G., Zheng L., Rich RL., Campos AD., Myszka DG., Lenardo MJ., Darnay BG., Wu H. DIP original experiment: DIP-133058X Nature structural & molecular biology 2009 IMEx E2 interaction and dimerization in the crystal structure of TRAF6. Yin Q., Lin SC., Lamothe B., Lu M., Lo YC., Hura G., Zheng L., Rich RL., Campos AD., Myszka DG., Lenardo MJ., Darnay BG., Wu H. Only protein-protein interactions imex curation yin-2009-10 mouse Mus musculus Mouse anti tag coip anti tag coimmunoprecipitation anti tag coip western blot western blot Immuno blot Immuno blot Yin Q., Lin SC., Lamothe B., Lu M., Lo YC., Hura G., Zheng L., Rich RL., Campos AD., Myszka DG., Lenardo MJ., Darnay BG., Wu H. DIP original experiment: DIP-133053X Nature structural & molecular biology 2009 IMEx E2 interaction and dimerization in the crystal structure of TRAF6. Yin Q., Lin SC., Lamothe B., Lu M., Lo YC., Hura G., Zheng L., Rich RL., Campos AD., Myszka DG., Lenardo MJ., Darnay BG., Wu H. Only protein-protein interactions imex curation yin-2009-11 in vitro In vitro spr surface plasmon resonance Optical biosensor BIAcore(r) BIAcore(r) Optical biosensor spr predetermined predetermined participant predetermined Yin Q., Lin SC., Lamothe B., Lu M., Lo YC., Hura G., Zheng L., Rich RL., Campos AD., Myszka DG., Lenardo MJ., Darnay BG., Wu H. DIP original experiment: DIP-133051X Nature structural & molecular biology 2009 IMEx E2 interaction and dimerization in the crystal structure of TRAF6. Yin Q., Lin SC., Lamothe B., Lu M., Lo YC., Hura G., Zheng L., Rich RL., Campos AD., Myszka DG., Lenardo MJ., Darnay BG., Wu H. Only protein-protein interactions imex curation yin-2009-12 ecolx Escherichia coli x-ray diffraction x-ray crystallography X-ray X-ray x-ray diffraction predetermined predetermined participant predetermined Yin Q., Lin SC., Lamothe B., Lu M., Lo YC., Hura G., Zheng L., Rich RL., Campos AD., Myszka DG., Lenardo MJ., Darnay BG., Wu H. DIP original experiment: DIP-133056X Nature structural & molecular biology 2009 IMEx E2 interaction and dimerization in the crystal structure of TRAF6. Yin Q., Lin SC., Lamothe B., Lu M., Lo YC., Hura G., Zheng L., Rich RL., Campos AD., Myszka DG., Lenardo MJ., Darnay BG., Wu H. Only protein-protein interactions imex curation yin-2009-13 ecolx Escherichia coli saxs x ray scattering saxs predetermined predetermined participant predetermined Yin Q., Lin SC., Lamothe B., Lu M., Lo YC., Hura G., Zheng L., Rich RL., Campos AD., Myszka DG., Lenardo MJ., Darnay BG., Wu H. DIP original experiment: DIP-133057X Nature structural & molecular biology 2009 IMEx E2 interaction and dimerization in the crystal structure of TRAF6. Yin Q., Lin SC., Lamothe B., Lu M., Lo YC., Hura G., Zheng L., Rich RL., Campos AD., Myszka DG., Lenardo MJ., Darnay BG., Wu H. Only protein-protein interactions imex curation yin-2009-14 in vitro In vitro comigration in sds comigration in sds page comigration in sds western blot western blot Immuno blot Immuno blot Yin Q., Lin SC., Lamothe B., Lu M., Lo YC., Hura G., Zheng L., Rich RL., Campos AD., Myszka DG., Lenardo MJ., Darnay BG., Wu H. DIP original experiment: DIP-133059X Nature structural & molecular biology 2009 IMEx E2 interaction and dimerization in the crystal structure of TRAF6. Yin Q., Lin SC., Lamothe B., Lu M., Lo YC., Hura G., Zheng L., Rich RL., Campos AD., Myszka DG., Lenardo MJ., Darnay BG., Wu H. Only protein-protein interactions imex curation ube2n_human Ubiquitin-conjugating enzyme E2 N Ubiquitin-protein ligase N Ubiquitin carrier protein N Ubc13 Bendless-like ubiquitin-conjugating enzyme UBE2N BLU UbcH13 E2 ubiquitin-conjugating enzyme N protein protein human Homo sapiens Human MAGLPRRIIKETQRLLAEPVPGIKAEPDESNARYFHVVIAGPQDSPFEGGTFKLELFLPEEYPMAAPKVRFMTKIYHPNVDKLGRICLDILKDKWSPALQIRTVLLSIQALLSAPNPDDPLANDVAEQWKTNEAQAIETARAWTRLYAMNNI traf6_human TNF receptor-associated factor 6 TRAF6 RNF85 Interleukin-1 signal transducer RING finger protein 85 E3 ubiquitin-protein ligase TRAF6 RING-type E3 ubiquitin transferase TRAF6 protein protein human Homo sapiens Human MSLLNCENSCGSSQSESDCCVAMASSCSAVTKDDSVGGTASTGNLSSSFMEEIQGYDVEFDPPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPDNFAKREILSLMVKCPNEGCLHKMELRHLEDHQAHCEFALMDCPQCQRPFQKFHINIHILKDCPRRQVSCDNCAASMAFEDKEIHDQNCPLANVICEYCNTILIREQMPNHYDLDCPTAPIPCTFSTFGCHEKMQRNHLARHLQENTQSHMRMLAQAVHSLSVIPDSGYISEVRNFQETIHQLEGRLVRQDHQIRELTAKMETQSMYVSELKRTIRTLEDKVAEIEAQQCNGIYIWKIGNFGMHLKCQEEEKPVVIHSPGFYTGKPGYKLCMRLHLQLPTAQRCANYISLFVHTMQGEYDSHLPWPFQGTIRLTILDQSEAPVRQNHEEIMDAKPELLAFQRPTIPRNPKGFGYVTFMHLEALRQRTFIKDDTLLVRCEVSTRFDMGSLRREGFQPRSTDAGV traf6_mouse TNF receptor-associated factor 6 RING-type E3 ubiquitin transferase TRAF6 Traf6 E3 ubiquitin-protein ligase TRAF6 protein protein mouse Mus musculus Mouse MSLLNCENSCGSSQSSSDCCAAMAASCSAAVKDDSVSGSASTGNLSSSFMEEIQGYDVEFDPPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPDNFAKREILSLTVKCPNKGCLQKMELRHLEDHQVHCEFALVNCPQCQRPFQKCQVNTHIIEDCPRRQVSCVNCAVSMAYEEKEIHDQSCPLANIICEYCGTILIREQMPNHYDLDCPTAPIPCTFSVFGCHEKMQRNHLARHLQENTQLHMRLLAQAVHNVNLALRPCDAASPSRGCRPEDPNYEETIKQLESRLVRQDHQIRELTAKMETQSMYVGELKRTIRTLEDKVAEMEAQQCNGIYIWKIGNFGMHLKSQEEERPVVIHSPGFYTGRPGYKLCMRLHLQLPTAQRCANYISLFVHTMQGEYDSHLPWPFQGTIRLTILDQSEALIRQNHEEVMDAKPELLAFQRPTIPRNPKGFGYVTFMHLEALRQGTFIKDDTLLVRCEVSTRFDMGGLRKEGFQPRSTDAGV ubiq_mouse Ubiquitin Rps27a Uba80 Ubcep1 Uba52 Ubcep2 Ubb Ubc protein protein mouse Mus musculus Mouse MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG ubiq_human UBIQ_HUMAN protein protein human Homo sapiens Human MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG traf6-ube2n-2 3191194 N/A 3191204 unspecified role unspecified role unspecified role unspecified role ecolx Escherichia coli N/A 3191205 unspecified role unspecified role unspecified role unspecified role Ring zing finger 1 domain Region 50-159 sufficient to bind sufficient binding region sufficient to bind deletion analysis deletion analysis certain certain sequence position certain certain certain sequence position certain false Q9Y4K3:p.Asp57Lys D57K mutation disrupting mutation disrupting interaction mutation disrupting mutation analysis mutation analysis certain certain sequence position certain certain certain sequence position certain false Q9Y4K3:p.Ile72Asp I72D/A/F/K mutation disrupting strength mutation disrupting interaction strength mutation disrupting strength mutation analysis mutation analysis certain certain sequence position certain certain certain sequence position certain false Q9Y4K3:p.Leu74Glu L74E/K/H/R mutation disrupting strength mutation disrupting interaction strength mutation disrupting strength mutation analysis mutation analysis certain certain sequence position certain certain certain sequence position certain false Q9Y4K3:p.Leu74Lys mutation disrupting strength mutation disrupting interaction strength mutation disrupting strength certain certain sequence position certain certain certain sequence position certain false Q9Y4K3:p.Leu74His mutation disrupting strength mutation disrupting interaction strength mutation disrupting strength certain certain sequence position certain certain certain sequence position certain false Q9Y4K3:p.Leu74Arg mutation disrupting strength mutation disrupting interaction strength mutation disrupting strength certain certain sequence position certain certain certain sequence position certain false Q9Y4K3:p.Ile72Ala mutation disrupting strength mutation disrupting interaction strength mutation disrupting strength certain certain sequence position certain certain certain sequence position certain false Q9Y4K3:p.Ile72Phe mutation disrupting strength mutation disrupting interaction strength mutation disrupting strength certain certain sequence position certain certain certain sequence position certain false Q9Y4K3:p.Ile72Lys mutation disrupting strength mutation disrupting interaction strength mutation disrupting strength certain certain sequence position certain certain certain sequence position certain false ecolx Escherichia coli direct interaction direct interaction false false false traf6-ube2n-3 3191195 N/A 3191204 unspecified role unspecified role unspecified role unspecified role ecolx Escherichia coli N/A 3191205 unspecified role unspecified role unspecified role unspecified role Ring zing finger 1 domain Region 50-159 binding region binding-associated region binding region certain certain sequence position certain certain certain sequence position certain false ecolx Escherichia coli direct interaction direct interaction false false false traf6-1 3191196 N/A 3191205 unspecified role unspecified role unspecified role unspecified role Ring zing finger 123 domain Region 50-211 binding region binding-associated region binding region certain certain sequence position certain certain certain sequence position certain false Q9Y4K3:p.Phe118Ala F118A mutation disrupting mutation disrupting interaction mutation disrupting mutation analysis mutation analysis certain certain sequence position certain certain certain sequence position certain false Q9Y4K3:p.Arg88Ala R88A mutation disrupting mutation disrupting interaction mutation disrupting mutation analysis mutation analysis certain certain sequence position certain certain certain sequence position certain false Q9Y4K3:p.[Arg88Ala;Phe118Ala] F118A/R88A mutation disrupting mutation disrupting interaction mutation disrupting mutation analysis mutation analysis certain certain sequence position certain certain certain sequence position certain false certain certain sequence position certain certain certain sequence position certain false ecolx Escherichia coli direct interaction direct interaction false false false ube2n-traf6-2 3191197 N/A 3191204 unspecified role unspecified role bait bait yeasx Saccharomyces cerevisiae (Baker's yeast) Baker's yeast N/A 3191205 unspecified role unspecified role prey prey Q9Y4K3:p.Asp57Lys D57K mutation disrupting mutation disrupting interaction mutation disrupting mutation analysis mutation analysis certain certain sequence position certain certain certain sequence position certain false Q9Y4K3:p.Ile72Asp I72D/A/F/K mutation disrupting strength mutation disrupting interaction strength mutation disrupting strength mutation analysis mutation analysis certain certain sequence position certain certain certain sequence position certain false Q9Y4K3:p.Leu74His L74H/R mutation disrupting strength mutation disrupting interaction strength mutation disrupting strength mutation analysis mutation analysis certain certain sequence position certain certain certain sequence position certain false Q9Y4K3:p.Cys70Ala C70A mutation disrupting mutation disrupting interaction mutation disrupting mutation analysis mutation analysis certain certain sequence position certain certain certain sequence position certain false Q9Y4K3:p.Leu74Arg mutation disrupting strength mutation disrupting interaction strength mutation disrupting strength certain certain sequence position certain certain certain sequence position certain false Q9Y4K3:p.Ile72Phe mutation disrupting strength mutation disrupting interaction strength mutation disrupting strength certain certain sequence position certain certain certain sequence position certain false Q9Y4K3:p.Ile72Ala mutation disrupting strength mutation disrupting interaction strength mutation disrupting strength certain certain sequence position certain certain certain sequence position certain false Q9Y4K3:p.Ile72Lys mutation disrupting strength mutation disrupting interaction strength mutation disrupting strength certain certain sequence position certain certain certain sequence position certain false yeasx Saccharomyces cerevisiae (Baker's yeast) Baker's yeast physical association physical association false false false mtraf6-1 3191198 N/A 3191206 unspecified role unspecified role fluorescence donor fluorescence donor Cerulean-tag Cerulean-tag fluorescent prot tag fluorescent protein tag fluorescent prot tag n-term range n-terminal range n-term range n-term range n-terminal range n-term range false human Homo sapiens Human N/A 3191206 unspecified role unspecified role fluorescence accept fluorescence acceptor fluorescence accept P70196:p.Phe118Ala F118A mutation disrupting mutation disrupting interaction mutation disrupting mutation analysis mutation analysis certain certain sequence position certain certain certain sequence position certain false Venus-tag Venus-tag fluorescent prot tag fluorescent protein tag fluorescent prot tag n-term range n-terminal range n-term range n-term range n-terminal range n-term range false human Homo sapiens Human direct interaction direct interaction false false false traf6-ub-4 3191199 N/A 3191207 unspecified role unspecified role prey prey mouse Mus musculus Mouse N/A 3191205 unspecified role unspecified role bait bait Q9Y4K3:p.Asp57Lys D57K mutation disrupting mutation disrupting interaction mutation disrupting mutation analysis mutation analysis certain certain sequence position certain certain certain sequence position certain false Q9Y4K3:p.Ile72Asp I72D mutation disrupting mutation disrupting interaction mutation disrupting mutation analysis mutation analysis certain certain sequence position certain certain certain sequence position certain false Q9Y4K3:p.Leu74His L74H mutation disrupting mutation disrupting interaction mutation disrupting mutation analysis mutation analysis certain certain sequence position certain certain certain sequence position certain false Flag-tag Flag-tag flag tag flag tag FLAG-tagged FLAG DYKDDDDKV epitope tag DYKDDDDKV epitope tag FLAG FLAG-tagged n-term range n-terminal range n-term range n-term range n-terminal range n-term range false Q9Y4K3:p.Phe118Ala F118A mutation disrupting mutation disrupting interaction mutation disrupting mutation analysis mutation analysis certain certain sequence position certain certain certain sequence position certain false Q9Y4K3:p.Arg88Ala R88A mutation disrupting mutation disrupting interaction mutation disrupting mutation analysis mutation analysis certain certain sequence position certain certain certain sequence position certain false Q9Y4K3:p.[Arg88Ala;Phe118Ala] F118A/R88A mutation disrupting mutation disrupting interaction mutation disrupting mutation analysis mutation analysis certain certain sequence position certain certain certain sequence position certain false certain certain sequence position certain certain certain sequence position certain false mouse Mus musculus Mouse physical association physical association false false false traf6-ube2n-4 3191200 N/A 3191204 unspecified role unspecified role prey prey ecolx Escherichia coli N/A 3191205 unspecified role unspecified role bait bait Ring zing finger 123 domain Region 50-211 binding region binding-associated region binding region certain certain sequence position certain certain certain sequence position certain false ecolx Escherichia coli direct interaction direct interaction false false false traf6-4 3191201 N/A 3191205 unspecified role unspecified role unspecified role unspecified role Ring zing finger 123 domain Region 50-211 binding region binding-associated region binding region certain certain sequence position certain certain certain sequence position certain false ecolx Escherichia coli direct interaction direct interaction false false false traf6-5 3191202 N/A 3191205 unspecified role unspecified role unspecified role unspecified role Ring zing finger 123 domain Region 50-211 binding region binding-associated region binding region certain certain sequence position certain certain certain sequence position certain false ecolx Escherichia coli direct interaction direct interaction false false false hub-3 3191203 N/A 3191208 unspecified role unspecified role unspecified role unspecified role direct interaction direct interaction false false false