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/ xu-2011-3 trini Trichoplusia ni (Cabbage looper) Cabbage looper x-ray diffraction x-ray crystallography X-ray X-ray x-ray diffraction predetermined predetermined participant predetermined Xu G., Lo YC., Li Q., Napolitano G., Wu X., Jiang X., Dreano M., Karin M., Wu H. DIP original experiment: DIP-219084X Nature 2011 IMEx Crystal structure of inhibitor of κB kinase β. Xu G., Lo YC., Li Q., Napolitano G., Wu X., Jiang X., Dreano M., Karin M., Wu H. Only protein-protein interactions imex curation xu-2011-4 in vitro In vitro pull down pull down weight by comassie molecular weight estimation by coomasie staining weight by comassie Xu G., Lo YC., Li Q., Napolitano G., Wu X., Jiang X., Dreano M., Karin M., Wu H. DIP original experiment: DIP-219087X Nature 2011 IMEx Crystal structure of inhibitor of κB kinase β. Xu G., Lo YC., Li Q., Napolitano G., Wu X., Jiang X., Dreano M., Karin M., Wu H. Only protein-protein interactions imex curation xu-2011-5 in vitro In vitro protein kinase assay protein kinase assay predetermined predetermined participant predetermined Xu G., Lo YC., Li Q., Napolitano G., Wu X., Jiang X., Dreano M., Karin M., Wu H. DIP original experiment: DIP-219089X Nature 2011 IMEx Crystal structure of inhibitor of κB kinase β. Xu G., Lo YC., Li Q., Napolitano G., Wu X., Jiang X., Dreano M., Karin M., Wu H. Only protein-protein interactions imex curation xu-2011-6 trini Trichoplusia ni (Cabbage looper) Cabbage looper molecular sieving molecular sieving Gel Filtration Size Exclusion Chromatography Size Exclusion Chromatography Gel Filtration Sizing column predetermined predetermined participant predetermined Xu G., Lo YC., Li Q., Napolitano G., Wu X., Jiang X., Dreano M., Karin M., Wu H. DIP original experiment: DIP-219085X Nature 2011 IMEx Crystal structure of inhibitor of κB kinase β. Xu G., Lo YC., Li Q., Napolitano G., Wu X., Jiang X., Dreano M., Karin M., Wu H. Only protein-protein interactions imex curation xu-2011-7 ecolx Escherichia coli molecular sieving molecular sieving Gel Filtration Size Exclusion Chromatography Size Exclusion Chromatography Gel Filtration Sizing column predetermined predetermined participant predetermined Xu G., Lo YC., Li Q., Napolitano G., Wu X., Jiang X., Dreano M., Karin M., Wu H. DIP original experiment: DIP-219091X Nature 2011 IMEx Crystal structure of inhibitor of κB kinase β. Xu G., Lo YC., Li Q., Napolitano G., Wu X., Jiang X., Dreano M., Karin M., Wu H. Only protein-protein interactions imex curation xu-2011-8 in vitro In vitro protein kinase assay protein kinase assay predetermined predetermined participant predetermined Xu G., Lo YC., Li Q., Napolitano G., Wu X., Jiang X., Dreano M., Karin M., Wu H. DIP original experiment: DIP-219093X Nature 2011 IMEx Crystal structure of inhibitor of κB kinase β. Xu G., Lo YC., Li Q., Napolitano G., Wu X., Jiang X., Dreano M., Karin M., Wu H. Only protein-protein interactions imex curation xu-2011-9 in vitro In vitro pull down pull down weight by comassie molecular weight estimation by coomasie staining weight by comassie Xu G., Lo YC., Li Q., Napolitano G., Wu X., Jiang X., Dreano M., Karin M., Wu H. DIP original experiment: DIP-219086X Nature 2011 IMEx Crystal structure of inhibitor of κB kinase β. Xu G., Lo YC., Li Q., Napolitano G., Wu X., Jiang X., Dreano M., Karin M., Wu H. Only protein-protein interactions imex curation xu-2011-10 human Homo sapiens Human anti tag coip anti tag coimmunoprecipitation anti tag coip anti tag western anti tag western blot anti tag western Xu G., Lo YC., Li Q., Napolitano G., Wu X., Jiang X., Dreano M., Karin M., Wu H. DIP original experiment: DIP-219094X Nature 2011 IMEx Crystal structure of inhibitor of κB kinase β. Xu G., Lo YC., Li Q., Napolitano G., Wu X., Jiang X., Dreano M., Karin M., Wu H. Only protein-protein interactions imex curation xu-2011-11 in vitro In vitro protein kinase assay protein kinase assay predetermined predetermined participant predetermined Xu G., Lo YC., Li Q., Napolitano G., Wu X., Jiang X., Dreano M., Karin M., Wu H. DIP original experiment: DIP-219088X Nature 2011 IMEx Crystal structure of inhibitor of κB kinase β. Xu G., Lo YC., Li Q., Napolitano G., Wu X., Jiang X., Dreano M., Karin M., Wu H. Only protein-protein interactions imex curation xu-2011-12 in vitro In vitro protein kinase assay protein kinase assay predetermined predetermined participant predetermined Xu G., Lo YC., Li Q., Napolitano G., Wu X., Jiang X., Dreano M., Karin M., Wu H. DIP original experiment: DIP-219090X Nature 2011 IMEx Crystal structure of inhibitor of κB kinase β. Xu G., Lo YC., Li Q., Napolitano G., Wu X., Jiang X., Dreano M., Karin M., Wu H. Only protein-protein interactions imex curation xu-2011-13 ecolx Escherichia coli solution sedimentati cosedimentation in solution solution sedimentati predetermined predetermined participant predetermined Xu G., Lo YC., Li Q., Napolitano G., Wu X., Jiang X., Dreano M., Karin M., Wu H. DIP original experiment: DIP-219092X Nature 2011 IMEx Crystal structure of inhibitor of κB kinase β. Xu G., Lo YC., Li Q., Napolitano G., Wu X., Jiang X., Dreano M., Karin M., Wu H. Only protein-protein interactions imex curation q6int1_xenla I-kappa-B kinase ikbkb.L MGC80376 ikbkb protein protein xenla Xenopus laevis (African clawed frog) African clawed frog MKERLGTGGFGYVLRWIHQDTGEQVAIKQCRQELSPKNRERWCLEIQIMKKLNHPNVVSAREVPDGLQKLAPNDLPLLAMEYCEGGDLRKYLNQFENCCGLKEGPIRTLLSDISSALRYLHENRIIHRDLKPENIVLQPGPQRLIHKIIDLGYAKELDQGSLCTSFVGTLQYLAPELLEQKKYTVTVDYWSFGTLAFECITGFRPFLPNWQPVQWHGKVREKSNEHIVVYDDLTGAVKFSSVLPTPNHLSGILAGKLERWLQCMLMWHQRQRGTDPQNPNVGCFQALDSILSLKLLSVMNMVSGRVHTYPVTENENLQNLKSWLQQDTGIPEEEQELLQASGLALNSAQPLTQYVIDCTVIDGRQGEGDLIFLFDNRKTVYEPQISLPAHPESVSIVLQDPKRPLTYTHLRRVWGQIWQTIRALKEDCARLLQGQRTSMVNLLRYNTELSKKKNSMTSECEQLKAKLDFFRSSIQIDLEKYSEQMEFGITSEKLLSAWREMEQAVELCGREREVQALVDKMMALQTDSVDLQRNPLGRKHRGTLDDLEEQARDLYRRLRERPRDQRTPGDSNDMVRLLILAIQSFEKRVILIYDQLSKTVVCKRKALELSPKVKEVMNLMREDEKIVVRRQEKRQQELWNLLKIACSKVRGPVSGSPDSLGTSRMPGPSQLLSQPPVLSVSLAQEYVKKSEDLRSESLNLCSQLESSMRSFMKEQDGSLMSLDWSWLLQQEEESGASPITTS ikkb_human Inhibitor of nuclear factor kappa-B kinase subunit beta IKBKB IKKB I-kappa-B kinase 2 Nuclear factor NF-kappa-B inhibitor kinase beta Serine/threonine protein kinase IKBKB protein protein human Homo sapiens Human MSWSPSLTTQTCGAWEMKERLGTGGFGNVIRWHNQETGEQIAIKQCRQELSPRNRERWCLEIQIMRRLTHPNVVAARDVPEGMQNLAPNDLPLLAMEYCQGGDLRKYLNQFENCCGLREGAILTLLSDIASALRYLHENRIIHRDLKPENIVLQQGEQRLIHKIIDLGYAKELDQGSLCTSFVGTLQYLAPELLEQQKYTVTVDYWSFGTLAFECITGFRPFLPNWQPVQWHSKVRQKSEVDIVVSEDLNGTVKFSSSLPYPNNLNSVLAERLEKWLQLMLMWHPRQRGTDPTYGPNGCFKALDDILNLKLVHILNMVTGTIHTYPVTEDESLQSLKARIQQDTGIPEEDQELLQEAGLALIPDKPATQCISDGKLNEGHTLDMDLVFLFDNSKITYETQISPRPQPESVSCILQEPKRNLAFFQLRKVWGQVWHSIQTLKEDCNRLQQGQRAAMMNLLRNNSCLSKMKNSMASMSQQLKAKLDFFKTSIQIDLEKYSEQTEFGITSDKLLLAWREMEQAVELCGRENEVKLLVERMMALQTDIVDLQRSPMGRKQGGTLDDLEEQARELYRRLREKPRDQRTEGDSQEMVRLLLQAIQSFEKKVRVIYTQLSKTVVCKQKALELLPKVEEVVSLMNEDEKTVVRLQEKRQKELWNLLKIACSKVRGPVSGSPDSMNASRLSQPGQLMSQPSTASNSLPEPAKKSEELVAEAHNLCTLLENAIQDTVREQDQSFTALDWSWLQTEEEEHSCLEQAS ikba_human NF-kappa-B inhibitor alpha NFKBIA IKBA MAD3 NFKBI I-kappa-B-alpha Major histocompatibility complex enhancer-binding protein MAD3 protein protein human Homo sapiens Human MFQAAERPQEWAMEGPRDGLKKERLLDDRHDSGLDSMKDEEYEQMVKELQEIRLEPQEVPRGSEPWKQQLTEDGDSFLHLAIIHEEKALTMEVIRQVKGDLAFLNFQNNLQQTPLHLAVITNQPEIAEALLGAGCDPELRDFRGNTPLHLACEQGCLASVGVLTQSCTTPHLHSILKATNYNGHTCLHLASIHGYLGIVELLVSLGADVNAQEPCNGRTALHLAVDLQNPDLVSLLLKCGADVNRVTYQGYSPYQLTWGRPSTRIQQQLGQLTLENLQMLPESEDEESYDTESEFTEFTEDELPYDDCVFGGQRLTL nemo_human NF-kappa-B essential modulator IKBKG FIP3 NEMO NF-kappa-B essential modifier Inhibitor of nuclear factor kappa-B kinase subunit gamma IkB kinase-associated protein 1 FIP-3 protein protein human Homo sapiens Human MNRHLWKSQLCEMVQPSGGPAADQDVLGEESPLGKPAMLHLPSEQGAPETLQRCLEENQELRDAIRQSNQILRERCEELLHFQASQREEKEFLMCKFQEARKLVERLGLEKLDLKRQKEQALREVEHLKRCQQQMAEDKASVKAQVTSLLGELQESQSRLEAATKECQALEGRARAASEQARQLESEREALQQQHSVQVDQLRMQGQSVEAALRMERQAASEEKRKLAQLQVAYHQLFQEYDNHIKSSVVGSERKRGMQLEDLKQQLQQAEEALVAKQEVIDKLKEEAEQHKIVMETVPVLKAQADIYKADFQAERQAREKLAEKKELLQEQLEQLQREYSKLKASCQESARIEDMRKRHVEVSQAPLPPAPAYLSSPLALPSQRRSPPEEPPDFCCPKCQYQAPDMDTLQIHVMECIE ikbkb-19 3223534 N/A 3223545 unspecified role unspecified role unspecified role unspecified role Region 4-675 Region 4-675 binding region binding-associated region binding region certain certain sequence position certain certain certain sequence position certain false trini Trichoplusia ni (Cabbage looper) Cabbage looper direct interaction direct interaction false false false nfkbia-ikbkb-1 3223535 N/A 3223546 unspecified role unspecified role prey prey ULD-SDD domain Region 307-678 sufficient to bind sufficient binding region sufficient to bind deletion analysis deletion analysis certain certain sequence position certain certain certain sequence position certain false ecolx Escherichia coli N/A 3223547 unspecified role unspecified role bait bait Region 54-317 Region 54-317 sufficient to bind sufficient binding region sufficient to bind deletion analysis deletion analysis certain certain sequence position certain certain certain sequence position certain false GST-tag GST-tag gst tag glutathione s tranferase tag glutathione S-tranferase tag glutathione S-tranferase tag gst tag n-term range n-terminal range n-term range n-term range n-terminal range n-term range false ecolx Escherichia coli direct interaction direct interaction false false false ikbkb-nfkbia-19 3223536 N/A 3223546 enzyme enzyme unspecified role unspecified role KD-ULD domain Region 1-400 sufficient to bind sufficient binding region sufficient to bind deletion analysis deletion analysis certain certain sequence position certain certain certain sequence position certain false ecolx Escherichia coli N/A 3223547 enzyme target enzyme target substrate substrate unspecified role unspecified role ecolx Escherichia coli phosphorylation phosphorylation reaction phosphorylation false false false ikbkb-20 3223537 N/A 3223545 unspecified role unspecified role unspecified role unspecified role Region 4-675 Region 4-675 binding region binding-associated region binding region certain certain sequence position certain certain certain sequence position certain false trini Trichoplusia ni (Cabbage looper) Cabbage looper direct interaction direct interaction false false false ikbkb-21 3223538 N/A 3223546 unspecified role unspecified role unspecified role unspecified role KD-ULD-SDD domain Region 1-678 sufficient to bind sufficient binding region sufficient to bind deletion analysis deletion analysis certain certain sequence position certain certain certain sequence position certain false O14920:p.[Leu654Asp;Trp655Asp] L654D/W655D 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 O14920:p.[Trp655Asp;Leu658Asp] W655D/L658D 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 ikbkb-nfkbia-20 3223539 N/A 3223546 enzyme enzyme unspecified role unspecified role Region 1-643 Region 1-643 sufficient to bind sufficient binding region sufficient to bind deletion analysis deletion analysis certain certain sequence position certain certain certain sequence position certain false trini Trichoplusia ni (Cabbage looper) Cabbage looper N/A 3223547 enzyme target enzyme target substrate substrate unspecified role unspecified role ecolx Escherichia coli phosphorylation phosphorylation reaction phosphorylation false false false nfkbia-ikbkb-2 3223540 N/A 3223546 unspecified role unspecified role prey prey ULD-SDD domain Region 307-678 binding region binding-associated region binding region certain certain sequence position certain certain certain sequence position certain false ecolx Escherichia coli N/A 3223547 unspecified role unspecified role bait bait Region 54-282 Region 54-282 sufficient to bind sufficient binding region sufficient to bind deletion analysis deletion analysis certain certain sequence position certain certain certain sequence position certain false Region 282-317 Region 282-317 sufficient to bind sufficient binding region sufficient to bind deletion analysis deletion analysis certain certain sequence position certain certain certain sequence position certain false GST-tag GST-tag gst tag glutathione s tranferase tag glutathione S-tranferase tag glutathione S-tranferase tag gst tag n-term range n-terminal range n-term range n-term range n-terminal range n-term range false ecolx Escherichia coli direct interaction direct interaction false false false ikbkg-ikbkb-13 3223541 N/A 3223548 unspecified role unspecified role bait bait 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 human Homo sapiens Human N/A 3223546 unspecified role unspecified role prey prey O14920:p.[Leu654Asp;Trp655Asp] L654D/W655D 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 O14920:p.[Trp655Asp;Leu658Asp] W655D/L658D 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 HA-tag HA-tag ha tag ha tag YPYDVPDYA epitope tag YPYDVPDYA epitope tag n-term range n-terminal range n-term range n-term range n-terminal range n-term range false human Homo sapiens Human physical association physical association false false false ikbkb-nfkbia-21 3223542 N/A 3223546 enzyme enzyme unspecified role unspecified role ecolx Escherichia coli N/A 3223547 enzyme target enzyme target substrate substrate unspecified role unspecified role Region 1-54 Region 1-54 sufficient to bind sufficient binding region sufficient to bind deletion analysis deletion analysis certain certain sequence position certain certain certain sequence position certain false P25963:p.[Ser32Ala;Ser36Ala] S32A/S36A mutation decreasing mutation decreasing interaction hotspot hotspot mutation decreasing 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 phosphorylation phosphorylation reaction phosphorylation false false false ikbkb-nfkbia-22 3223543 N/A 3223546 enzyme enzyme unspecified role unspecified role Region 1-643 Region 1-643 sufficient to bind sufficient binding region sufficient to bind deletion analysis deletion analysis certain certain sequence position certain certain certain sequence position certain false ecolx Escherichia coli N/A 3223547 enzyme target enzyme target substrate substrate unspecified role unspecified role pS32/S36 pS32/S36 opser O-phospho-L-serine (2S)-2-amino-3-(phosphonooxy)propanoic acid 2-amino-3-hydroxypropanoic acid 3-phosphate 2-azanyl-3-(phosphonooxy)propanoic acid ACT_SITE Phosphoserine intermediate MOD_RES Phosphoserine O-phospho-L-serine O-phosphonoserine O-phosphorylated L-serine O3-phosphoserine serine phosphate ester OPSer Phospho Phospho Seryl Phosphorylation phosphorylations western blot western blot Immuno blot Immuno blot 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 phosphorylation phosphorylation reaction phosphorylation false false false ikbkb-22 3223544 N/A 3223546 unspecified role unspecified role unspecified role unspecified role O14920:p.[Leu654Asp;Trp655Asp] L654D/W655D 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 O14920:p.[Trp655Asp;Leu658Asp] W655D/L658D mutation decreasing mutation decreasing interaction hotspot hotspot mutation decreasing 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