HPIDb Host Pathogen Interaction database http://www.agbase.msstate.edu/hpi/main.html http://www.agbase.msstate.edu/hpi/main.html snyder-2014-2 in vitro In vitro x-ray diffraction x-ray crystallography X-ray X-ray x-ray diffraction predetermined predetermined participant predetermined Snyder GA., Deredge D., Waldhuber A., Fresquez T., Wilkins DZ., Smith PT., Durr S., Cirl C., Jiang J., Jennings W., Luchetti T., Snyder N., Sundberg EJ., Wintrode P., Miethke T., Xiao TS. Gsnyder@som.umaryland.edu The Journal of biological chemistry 2014 imex curation Only protein-protein interactions imex curation snyder-2014-3 in vitro In vitro molecular sieving molecular sieving Gel Filtration Size Exclusion Chromatography Size Exclusion Chromatography Gel Filtration Sizing column predetermined predetermined participant predetermined Snyder GA., Deredge D., Waldhuber A., Fresquez T., Wilkins DZ., Smith PT., Durr S., Cirl C., Jiang J., Jennings W., Luchetti T., Snyder N., Sundberg EJ., Wintrode P., Miethke T., Xiao TS. Gsnyder@som.umaryland.edu The Journal of biological chemistry 2014 imex curation Only protein-protein interactions imex curation snyder-2014-1 human-293t Homo sapiens 293 cells transformed with SV40 large T antigen 293t 293 cells expressing SV40 large T antigen. The original designation of this cell line was 293tsA1609neo. It is not in Cabri,ATCC or HyperCLDB. anti tag coip anti tag coimmunoprecipitation anti tag coip anti tag western anti tag western blot anti tag western Snyder GA., Deredge D., Waldhuber A., Fresquez T., Wilkins DZ., Smith PT., Durr S., Cirl C., Jiang J., Jennings W., Luchetti T., Snyder N., Sundberg EJ., Wintrode P., Miethke T., Xiao TS. Gsnyder@som.umaryland.edu The Journal of biological chemistry 2014 imex curation Only protein-protein interactions imex curation snyder-2014-4 in vitro In vitro h1-h2 ms mass spectrometry study of hydrogen/deuterium exchange h1-h2 ms predetermined predetermined participant predetermined Snyder GA., Deredge D., Waldhuber A., Fresquez T., Wilkins DZ., Smith PT., Durr S., Cirl C., Jiang J., Jennings W., Luchetti T., Snyder N., Sundberg EJ., Wintrode P., Miethke T., Xiao TS. Gsnyder@som.umaryland.edu The Journal of biological chemistry 2014 imex curation Only protein-protein interactions imex curation q8yf53_brume TIR domain-containing protein BMEI1674 protein protein brume Brucella melitensis biotype 1 (strain 16M / ATCC 23456 / NCTC 10094) MSKEKQAQSKAHKAQQAISSAKSLSTQKSKMSELERATRDGAAIGKKRADIAKKIADKAKQLSSYQAKQFKADEQAVKKVAQEQKRLSDERTKHEAFIKQSLSSMRTTASATMEAEEEYDFFISHASEDKEAFVQDLVAALRDLGAKIFYDAYTLKVGDSLRRKIDQGLANSKFGIVVLSEHFFSKQWPARELDGLTAMEIGGQTRILPIWHKVSYDEVRRFSPSLADKVALNTSLKSVEEIAKELHSLI tirap_human Toll/interleukin-1 receptor domain-containing adapter protein MyD88 adapter-like protein Adaptor protein Wyatt TIRAP MAL protein protein human Homo sapiens Human MASSTSLPAPGSRPKKPLGKMADWFRQTLLKKPKKRPNSPESTSSDASQPTSQDSPLPPSLSSVTSPSLPPTHASDSGSSRWSKDYDVCVCHSEEDLVAAQDLVSYLEGSTASLRCFLQLRDATPGGAIVSELCQALSSSHCRVLLITPGFLQDPWCKYQMLQALTEAPGAEGCTIPLLSGLSRAAYPPELRFMYYVDGRGPDGGFRQVKEAVMRYLQTLS tcpb-tcpb-1 1900089 N/A 1900093 unspecified role unspecified role neutral component neutral component purified purified TIR domain sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain false Q8YF53:p.[Ser124Ile;Ser127Ala] mutation mutation certain certain sequence position certain certain certain sequence position certain false certain certain sequence position certain certain certain sequence position certain false c terminus strep ii tag strep ii tag Strep (II) Strep II Strep (II) Strep II c-term range C-terminal range c-term range c-term range C-terminal range c-term range false ecoli Escherichia coli (strain K12) Stoichiometry: 2.0 direct interaction direct interaction false false false table 1 2.3 Å Rfree=0.263, Rworking=0.210 tirap-1 1900089 N/A 1900094 unspecified role unspecified role neutral component neutral component TIR domain sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain false ecoli Escherichia coli (strain K12) Stoichiometry: 2.0 direct interaction direct interaction false false false table 1 2.45 Å Rwork=0.207, RFree=0.218 tcpb-tcpb-2 1900090 N/A 1900093 unspecified role unspecified role unspecified role unspecified role c terminus strep ii tag strep ii tag Strep (II) Strep II Strep (II) Strep II c-term range C-terminal range c-term range c-term range C-terminal range c-term range false ecoli Escherichia coli (strain K12) N/A 1900093 unspecified role unspecified role unspecified role unspecified role c terminus strep ii tag strep ii tag Strep (II) Strep II Strep (II) Strep II c-term range C-terminal range c-term range c-term range C-terminal range c-term range false ecoli Escherichia coli (strain K12) direct interaction direct interaction false false false 5B Size exclusion chromatography of the full-length wild type and mutant TcpB samples revealed dimeric and oligomeric species. tcpb-tcpb-3 1900090 N/A 1900093 unspecified role unspecified role neutral component neutral component purified purified TIR_domain sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain false Q8YF53:p.[Ser124Ile;Ser127Ala] mutation mutation certain certain sequence position certain certain certain sequence position certain false certain certain sequence position certain certain certain sequence position certain false c terminus strep ii tag strep ii tag Strep (II) Strep II Strep (II) Strep II c-term range C-terminal range c-term range c-term range C-terminal range c-term range false ecoli Escherichia coli (strain K12) N/A 1900093 unspecified role unspecified role neutral component neutral component purified purified TIR_domain sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain false Q8YF53:p.[Ser124Ile;Ser127Ala] mutation mutation certain certain sequence position certain certain certain sequence position certain false certain certain sequence position certain certain certain sequence position certain false c terminus strep ii tag strep ii tag Strep (II) Strep II Strep (II) Strep II c-term range C-terminal range c-term range c-term range C-terminal range c-term range false ecoli Escherichia coli (strain K12) direct interaction direct interaction false false false 5B The chymotrypsin-treated TcpBS124A/S127I yielded a TIR domain fragment that eluted at a volume consistent with a primarily monomeric state. tcpb-tirap-2 1900091 N/A 1900094 unspecified role unspecified role prey prey myc tag myc tag myc tag EUKLISEED epitope tag EUKLISEED epitope tag undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined false N/A 1900093 unspecified role unspecified role bait bait flag tag flag tag flag tag FLAG-tagged FLAG DYKDDDDKV epitope tag DYKDDDDKV epitope tag FLAG FLAG-tagged undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined false physical association physical association false false false 2 tcpb-tcpb-5 1900092 N/A 1900093 unspecified role unspecified role neutral component neutral component purified purified c terminus strep ii tag strep ii tag Strep (II) Strep II Strep (II) Strep II c-term range C-terminal range c-term range c-term range C-terminal range c-term range false ecoli Escherichia coli (strain K12) N/A 1900093 unspecified role unspecified role neutral component neutral component purified purified c terminus strep ii tag strep ii tag Strep (II) Strep II Strep (II) Strep II c-term range C-terminal range c-term range c-term range C-terminal range c-term range false ecoli Escherichia coli (strain K12) direct interaction direct interaction false false false 5C and 6