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/ Structural Insight Into the SARS-CoV-2 Nucleocapsid Protein C-Terminal Domain Reveals a Novel Recognition Mechanism for Viral Transcriptional Regulatory Sequences. Structural Insight Into the SARS-CoV-2 Nucleocapsid Protein C-Terminal Domain Reveals a Novel Recognition Mechanism for Viral Transcriptional Regulatory Sequences. Frontiers in chemistry 2020 imex curation Yang M., He S., Chen X., Huang Z., Zhou Z., Zhou Z., Chen Q., Chen S., Kang S. Virus - Publications including interactions involving viral proteins Coronavirus - Interactions investigated in the context of Coronavirus chenshd5@mail.sysu.edu.cn,kangss@mail2.sysu.edu.cn 24-May-2021: Contacted by IntAct-Help. Only protein-protein interactions imex curation in vitro In vitro bio-layer interferometry bio-layer interferometry bli bli predetermined predetermined participant predetermined Yang M., He S., Chen X., Huang Z., Zhou Z., Zhou Z., Chen Q., Chen S., Kang S. Virus - Publications including interactions involving viral proteins chenshd5@mail.sysu.edu.cn,kangss@mail2.sysu.edu.cn Accepted 2021-APR-06 AT 18:58 BST AT 18:58 BST by KALPANAP Frontiers in chemistry 2020 Only protein-protein interactions imex curation imex curation Structural Insight Into the SARS-CoV-2 Nucleocapsid Protein C-Terminal Domain Reveals a Novel Recognition Mechanism for Viral Transcriptional Regulatory Sequences. Structural Insight Into the SARS-CoV-2 Nucleocapsid Protein C-Terminal Domain Reveals a Novel Recognition Mechanism for Viral Transcriptional Regulatory Sequences. Frontiers in chemistry 2020 imex curation Yang M., He S., Chen X., Huang Z., Zhou Z., Zhou Z., Chen Q., Chen S., Kang S. Virus - Publications including interactions involving viral proteins Coronavirus - Interactions investigated in the context of Coronavirus chenshd5@mail.sysu.edu.cn,kangss@mail2.sysu.edu.cn 24-May-2021: Contacted by IntAct-Help. Only protein-protein interactions imex curation 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 Yang M., He S., Chen X., Huang Z., Zhou Z., Zhou Z., Chen Q., Chen S., Kang S. Virus - Publications including interactions involving viral proteins chenshd5@mail.sysu.edu.cn,kangss@mail2.sysu.edu.cn Accepted 2021-APR-06 AT 18:58 BST AT 18:58 BST by KALPANAP Frontiers in chemistry 2020 Only protein-protein interactions imex curation imex curation Structural Insight Into the SARS-CoV-2 Nucleocapsid Protein C-Terminal Domain Reveals a Novel Recognition Mechanism for Viral Transcriptional Regulatory Sequences. Structural Insight Into the SARS-CoV-2 Nucleocapsid Protein C-Terminal Domain Reveals a Novel Recognition Mechanism for Viral Transcriptional Regulatory Sequences. Frontiers in chemistry 2020 imex curation Yang M., He S., Chen X., Huang Z., Zhou Z., Zhou Z., Chen Q., Chen S., Kang S. Virus - Publications including interactions involving viral proteins Coronavirus - Interactions investigated in the context of Coronavirus chenshd5@mail.sysu.edu.cn,kangss@mail2.sysu.edu.cn 24-May-2021: Contacted by IntAct-Help. Only protein-protein interactions imex curation ecoli Escherichia coli (strain K12) bn-page blue native page bn-page weight identificat confirmation by molecular weight weight identificat Yang M., He S., Chen X., Huang Z., Zhou Z., Zhou Z., Chen Q., Chen S., Kang S. Virus - Publications including interactions involving viral proteins BN-PAge is the last method used, so entered this as the Interaction Det. method rather than Mol Sieving. Proteins underwent size-exclusion chromatography prior to BN-Page. chenshd5@mail.sysu.edu.cn,kangss@mail2.sysu.edu.cn Accepted 2021-APR-06 AT 18:58 BST AT 18:58 BST by KALPANAP Frontiers in chemistry 2020 Only protein-protein interactions imex curation imex curation Structural Insight Into the SARS-CoV-2 Nucleocapsid Protein C-Terminal Domain Reveals a Novel Recognition Mechanism for Viral Transcriptional Regulatory Sequences. Structural Insight Into the SARS-CoV-2 Nucleocapsid Protein C-Terminal Domain Reveals a Novel Recognition Mechanism for Viral Transcriptional Regulatory Sequences. Frontiers in chemistry 2020 imex curation Yang M., He S., Chen X., Huang Z., Zhou Z., Zhou Z., Chen Q., Chen S., Kang S. Virus - Publications including interactions involving viral proteins Coronavirus - Interactions investigated in the context of Coronavirus chenshd5@mail.sysu.edu.cn,kangss@mail2.sysu.edu.cn 24-May-2021: Contacted by IntAct-Help. Only protein-protein interactions imex curation ecoli Escherichia coli (strain K12) x-ray diffraction x-ray crystallography X-ray X-ray x-ray diffraction predetermined predetermined participant predetermined Yang M., He S., Chen X., Huang Z., Zhou Z., Zhou Z., Chen Q., Chen S., Kang S. Virus - Publications including interactions involving viral proteins chenshd5@mail.sysu.edu.cn,kangss@mail2.sysu.edu.cn Accepted 2021-APR-06 AT 18:58 BST AT 18:58 BST by KALPANAP Frontiers in chemistry 2020 Only protein-protein interactions imex curation imex curation ncap_sars2 Nucleoprotein N Nucleocapsid protein protein protein SARS-CoV-2 SARS-CoV-2 SARS-CoV-2 Severe acute respiratory syndrome coronavirus 2 2019-nCoV MSDNGPQNQRNAPRITFGGPSDSTGSNQNGERSGARSKQRRPQGLPNNTASWFTALTQHGKEDLKFPRGQGVPINTNSSPDDQIGYYRRATRRIRGGDGKMKDLSPRWYFYYLGTGPEAGLPYGANKDGIIWVATEGALNTPKDHIGTRNPANNAAIVLQLPQGTTLPKGFYAEGSRGGSQASSRSSSRSRNSSRNSTPGSSRGTSPARMAGNGGDAALALLLLDRLNQLESKMSGKGQQQQGQTVTKKSAAEASKKPRQKRTATKAYNVTQAFGRRGPEQTQGNFGDQELIRQGTDYKHWPQIAQFAPSASAFFGMSRIGMEVTPSGTWLTYTGAIKLDDKDPNFKDQVILLNKHIDAYKTFPPTEPKKDKKKKADETQALPQRQKKQQTVTLLPAADLDDFSKQLQQSMSSADSTQA duplex-trs-2 ds rna ds rna double stranded ribonucleic acid chemical synthesis Chemical synthesis (Chemical synthesis) AAACGAAC imperfectly paired duplex trs-1_chain_a rna ribonucleic acid RNA rna chemical synthesis Chemical synthesis (Chemical synthesis) ACGAAC trs-2 rna ribonucleic acid RNA rna chemical synthesis Chemical synthesis (Chemical synthesis) AAACGAAC duplex-trs-1 ds rna ds rna double stranded ribonucleic acid chemical synthesis Chemical synthesis (Chemical synthesis) ACGAAC imperfectly paired duplex trs-2_chain_b-1 rna ribonucleic acid RNA rna chemical synthesis Chemical synthesis (Chemical synthesis) AAGUUCGUUU imperfectly paired duplex trs-2_chain_a rna ribonucleic acid RNA rna chemical synthesis Chemical synthesis (Chemical synthesis) AAACGAAC trs-1 rna ribonucleic acid RNA rna chemical synthesis Chemical synthesis (Chemical synthesis) ACGAAC trs-3 rna ribonucleic acid RNA rna chemical synthesis Chemical synthesis (Chemical synthesis) AAACGAACUU duplex trs-3 ds rna ds rna double stranded ribonucleic acid chemical synthesis Chemical synthesis (Chemical synthesis) AAACGAACUU imperfectly paired duplex trs-1_chain_b imperfectly paired duplex trs-1_chain_b rna ribonucleic acid RNA rna chemical synthesis Chemical synthesis (Chemical synthesis) GUUCGUUU n-76 4 5 unspecified role unspecified role neutral component neutral component purified purified ctd sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain direct interaction direct interaction Table 1 n-77 3 5 unspecified role unspecified role neutral component neutral component purified purified ctd sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain direct interaction direct interaction 2E n-78 3 5 unspecified role unspecified role neutral component neutral component purified purified ctd sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain P0DTC9:p.Ser327Cys mutation mutation certain certain sequence position certain certain certain sequence position certain S C Thu Apr 22 12:10:26 BST 2021 This feature has been corrected as a result of our quality control procedures. The original label was 'p.Ser327Cys' Cys327 disulfide crosslinked residues disulfide crosslinked residues certain certain sequence position certain certain certain sequence position certain 5 unspecified role unspecified role neutral component neutral component purified purified ctd sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain P0DTC9:p.Ser327Cys mutation mutation certain certain sequence position certain certain certain sequence position certain S C Thu Apr 22 10:35:44 BST 2021 This feature has been corrected as a result of our quality control procedures. The original label was 'p.Ser327Cys' Cys327 disulfide crosslinked residues disulfide crosslinked residues certain certain sequence position certain certain certain sequence position certain 26 30 direct interaction direct interaction 2E The mutants are in a higher polymerization state than the WT dimer. n-n-49 3 5 unspecified role unspecified role neutral component neutral component purified purified ctd sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain P0DTC9:p.[Gln289Cys;Arg293Cys] mutation mutation certain certain sequence position certain certain certain sequence position certain Q C certain certain sequence position certain certain certain sequence position certain R C Thu Apr 22 12:11:25 BST 2021 This feature has been corrected as a result of our quality control procedures. The original label was 'p.[Gln289Cys;Arg293Cys]' Cys289 disulfide crosslinked residues disulfide crosslinked residues certain certain sequence position certain certain certain sequence position certain Q C Cys293 disulfide crosslinked residues disulfide crosslinked residues certain certain sequence position certain certain certain sequence position certain R C 5 unspecified role unspecified role neutral component neutral component purified purified ctd sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain P0DTC9:p.[Gln289Cys;Arg293Cys] mutation mutation certain certain sequence position certain certain certain sequence position certain Q C certain certain sequence position certain certain certain sequence position certain R C Thu Apr 22 12:07:37 BST 2021 This feature has been corrected as a result of our quality control procedures. The original label was 'p.[Gln289Cys;Arg293Cys]' Cys289 disulfide crosslinked residues disulfide crosslinked residues certain certain sequence position certain certain certain sequence position certain Q C Cys293 disulfide crosslinked residues disulfide crosslinked residues certain certain sequence position certain certain certain sequence position certain R C direct interaction direct interaction 2E The mutants are in a higher polymerization state than the WT dimer. Figure 2E gives an R294 C mutation;however there is no Arginine residue at position 294 and figure 2CII refers to R293C, so the use of "R294C" is probably a typo. trs_1-n-2 1 12 unspecified role unspecified role bait bait 5-prime biotin tag biotin tag certain certain sequence position certain certain certain sequence position certain chemical synthesis Chemical synthesis (Chemical synthesis) 5 unspecified role unspecified role prey prey purified purified ctd sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain LKR+CTD sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain CTD+IDR sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain ecoli Escherichia coli (strain K12) direct interaction direct interaction 4C SARS-CoV-2 N-CTD showed a very weak binding affinity, however addition of either IDR to the N-CTD sequence increased binding affinity. trs_2-n-1 1 8 unspecified role unspecified role bait bait 5-prime biotin tag biotin tag certain certain sequence position certain certain certain sequence position certain chemical synthesis Chemical synthesis (Chemical synthesis) 5 unspecified role unspecified role prey prey purified purified ctd sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain LKR+CTD sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain CTD+IDR sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain ecoli Escherichia coli (strain K12) direct interaction direct interaction 4D As the length of the TRS increased, the binding affinities were enhanced. trs_2-n-2 1 13 unspecified role unspecified role bait bait 5-prime biotin tag biotin tag certain certain sequence position certain certain certain sequence position certain chemical synthesis Chemical synthesis (Chemical synthesis) 5 unspecified role unspecified role prey prey purified purified ctd sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain LKR+CTD sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain CTD+IDR sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain ecoli Escherichia coli (strain K12) direct interaction direct interaction 4E As the length of the TRS increased, the binding affinities were enhanced. trs_3-n-1 1 9 unspecified role unspecified role bait bait 5-prime biotin tag biotin tag certain certain sequence position certain certain certain sequence position certain chemical synthesis Chemical synthesis (Chemical synthesis) 5 unspecified role unspecified role prey prey purified purified CTD+IDR sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain ecoli Escherichia coli (strain K12) direct interaction direct interaction 5B duplex_trs_2-n-1 1 6 unspecified role unspecified role bait bait 5-prime biotin tag biotin tag certain certain sequence position certain certain certain sequence position certain chemical synthesis Chemical synthesis (Chemical synthesis) 5 unspecified role unspecified role prey prey purified purified CTD+IDR sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain ecoli Escherichia coli (strain K12) direct interaction direct interaction 5C duplex_trs_2-n-2 1 14 unspecified role unspecified role bait bait 5-prime biotin tag biotin tag certain certain sequence position certain certain certain sequence position certain chemical synthesis Chemical synthesis (Chemical synthesis) 5 unspecified role unspecified role prey prey purified purified CTD+IDR sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain ecoli Escherichia coli (strain K12) direct interaction direct interaction 5D duplex trs_3-n-1 1 15 unspecified role unspecified role bait bait 5-prime biotin tag biotin tag certain certain sequence position certain certain certain sequence position certain chemical synthesis Chemical synthesis (Chemical synthesis) 7 unspecified role unspecified role bait bait 5-prime biotin tag biotin tag certain certain sequence position certain certain certain sequence position certain chemical synthesis Chemical synthesis (Chemical synthesis) 5 unspecified role unspecified role prey prey purified purified CTD+IDR sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain ecoli Escherichia coli (strain K12) direct interaction direct interaction 5E imperfectly paired duplex trs_1_chain_a-n-1 1 10 unspecified role unspecified role bait bait 5-prime biotin tag biotin tag certain certain sequence position certain certain certain sequence position certain chemical synthesis Chemical synthesis (Chemical synthesis) 11 unspecified role unspecified role bait bait 5-prime biotin tag biotin tag certain certain sequence position certain certain certain sequence position certain chemical synthesis Chemical synthesis (Chemical synthesis) 5 unspecified role unspecified role prey prey purified purified CTD+IDR sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain ecoli Escherichia coli (strain K12) direct interaction direct interaction 5F The methods section states:- "Unpaired Duplex TRS2 was obtained by an annealing process of RNA2 with RNA4." However the sequences given in figure 5A correspond to RNA2 and RNA6. n-79 2 5 unspecified role unspecified role neutral component neutral component purified purified ctd sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain direct interaction direct interaction Supp. figure 1B