IntAct European Bioinformatics Institute IntAct intact http://www.ebi.ac.uk/ http://www.ebi.ac.uk/intact/query/${ac} EBI-[0-9]+|IA:[0-9]+ INTerAction database (IntAct) provides an open source database and toolkit for the storage, presentation and analysis of molecular interactions. http://www.ebi.ac.uk/intact European Bioinformatics Institute; Wellcome Trust Genome Campus; Hinxton, Cambridge; CB10 1SD; United Kingdom http://www.ebi.ac.uk/intact/ http://www.ebi.ac.uk/ lee-2020-3 ecoli Escherichia coli (strain K12) x-ray diffraction x-ray crystallography X-ray X-ray x-ray diffraction predetermined predetermined participant predetermined Lee J., Worrall LJ., Vuckovic M., Rosell FI., Gentile F., Ton AT., Caveney NA., Ban F., Cherkasov A., Paetzel M., Strynadka NCJ. Virus - Publications including interactions involving viral proteins mpaetzel@sfu.ca, ncjs@mail.ubc.ca Nature communications 2020 Only protein-protein interactions imex curation imex curation Coronavirus - Interactions investigated in the context of Coronavirus lee-2020-6 in vitro In vitro cleavage cleavage assay cleavage predetermined predetermined participant predetermined Lee J., Worrall LJ., Vuckovic M., Rosell FI., Gentile F., Ton AT., Caveney NA., Ban F., Cherkasov A., Paetzel M., Strynadka NCJ. Virus - Publications including interactions involving viral proteins FRET based assay:On cleavage of the peptide by the protease, the quencher (DNP) and fluorophore (MCA) are separated giving a large increase in fluorescence. mpaetzel@sfu.ca, ncjs@mail.ubc.ca Nature communications 2020 Only protein-protein interactions imex curation imex curation Coronavirus - Interactions investigated in the context of Coronavirus lee-2020-4 ecoli Escherichia coli (strain K12) saxs x ray scattering saxs predetermined predetermined participant predetermined Lee J., Worrall LJ., Vuckovic M., Rosell FI., Gentile F., Ton AT., Caveney NA., Ban F., Cherkasov A., Paetzel M., Strynadka NCJ. Virus - Publications including interactions involving viral proteins mpaetzel@sfu.ca, ncjs@mail.ubc.ca Nature communications 2020 Only protein-protein interactions imex curation imex curation Coronavirus - Interactions investigated in the context of Coronavirus lee-2020-5 ecoli Escherichia coli (strain K12) molecular sieving molecular sieving Gel Filtration Size Exclusion Chromatography Size Exclusion Chromatography Gel Filtration Sizing column predetermined predetermined participant predetermined Lee J., Worrall LJ., Vuckovic M., Rosell FI., Gentile F., Ton AT., Caveney NA., Ban F., Cherkasov A., Paetzel M., Strynadka NCJ. Virus - Publications including interactions involving viral proteins mpaetzel@sfu.ca, ncjs@mail.ubc.ca Nature communications 2020 Only protein-protein interactions imex curation imex curation Coronavirus - Interactions investigated in the context of Coronavirus p0dtd1-pro_0000449623 3C-like proteinase nsp5 rep ORF1ab polyprotein 1a-1b protein protein SARS-CoV-2 SARS-CoV-2 SARS-CoV-2 Severe acute respiratory syndrome coronavirus 2 2019-nCoV SGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDDVVYCPRHVICTSEDMLNPNYEDLLIRKSNHNFLVQAGNVQLRVIGHSMQNCVLKLKVDTANPKTPKYKFVRIQPGQTFSVLACYNGSPSGVYQCAMRPNFTIKGSFLNGSCGSVGFNIDYDCVSFCYMHHMELPTGVHAGTDLEGNFYGPFVDRQTAQAAGTDTTITVNVLAWLYAAVINGDRWFLNRFTTTLNDFNLVAMKYNYEPLTQDHVDILGPLSAQTGIAVLDMCASLKELLQNGMNGRTILGSALLEDEFTPFDVVRQCSGVTFQ 3264 3569 mca-avlqsgfr-lys(dnp)-lys-nh2 MCA-AVLQSGFR-Lys(Dnp)-Lys-NH2 peptide peptide polypeptide oligopeptide oligopeptide polypeptide chemical synthesis Chemical synthesis (Chemical synthesis) AVLQSGFR carmofur Carmofur 1-hexylcarbamoyl-5-fluorouracil Carmofur mifurol yamaful small molecule small molecule chemical synthesis Chemical synthesis (Chemical synthesis) rep-144 3949915 N/A 3949919 unspecified role unspecified role neutral component neutral component purified purified Stoichiometry: 2.0 direct interaction direct interaction false false false Supp. Table 1 rep-145 3949915 N/A 3949919 unspecified role unspecified role neutral component neutral component purified purified P0DTD1-PRO_0000449623:p.Cys145Ala mutation mutation certain certain sequence position certain certain certain sequence position certain false Stoichiometry: 2.0 direct interaction direct interaction false false false Supp. Table 1 mca_avlqsgfr_lys(dnp)_lys_nh2-rep-3 3949916 N/A 3949919 enzyme enzyme neutral component neutral component purified purified P0DTD1-PRO_0000449623:p.Pro9Thr mutation disrupting rate mutation disrupting interaction rate mutation disrupting rate certain certain sequence position certain certain certain sequence position certain false ecoli Escherichia coli (strain K12) N/A 3949920 enzyme target enzyme target substrate substrate neutral component neutral component n-terminus fluorophore fluorophore n-term range n-terminal range n-term range n-term range n-terminal range n-term range false chemical synthesis Chemical synthesis (Chemical synthesis) cleavage cleavage reaction cleavage false false false 3949916 Supp. figure 4 Hill coefficient =~1.7 for Wild type and mutant. carmofur-mca_avlqsgfr_lys(dnp)_lys_nh2-1 3949916 N/A 3949921 inhibitor inhibitor neutral component neutral component chemical synthesis Chemical synthesis (Chemical synthesis) N/A 3949919 enzyme enzyme neutral component neutral component purified purified ecoli Escherichia coli (strain K12) N/A 3949920 enzyme target enzyme target substrate substrate neutral component neutral component n-terminus fluorophore fluorophore n-term range n-terminal range n-term range n-term range n-terminal range n-term range false chemical synthesis Chemical synthesis (Chemical synthesis) cleavage cleavage reaction cleavage false false false 3949916 Supp. figure 4 rep-146 3949917 N/A 3949919 unspecified role unspecified role neutral component neutral component purified purified P0DTD1-PRO_0000449623:p.Pro9Thr mutation disrupting strength mutation disrupting interaction strength mutation disrupting strength certain certain sequence position certain certain certain sequence position certain false Stoichiometry: 2.0 direct interaction direct interaction false false false Supp. Table 2, Supp. figure 2 rep-147 3949918 N/A 3949919 unspecified role unspecified role neutral component neutral component purified purified P0DTD1-PRO_0000449623:p.Pro9Thr mutation decreasing strength mutation decreasing interaction strength mutation decreasing strength certain certain sequence position certain certain certain sequence position certain false Stoichiometry: 2.0 direct interaction direct interaction false false false Supp. figure 3