data_9HR9 # _entry.id 9HR9 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.406 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB 9HR9 pdb_00009hr9 10.2210/pdb9hr9/pdb WWPDB D_1292143994 ? ? BMRB 34971 ? 10.13018/BMR34971 # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date _pdbx_audit_revision_history.part_number 1 'Structure model' 1 0 2025-09-17 ? 2 'Structure model' 1 1 2025-10-01 ? 3 'Structure model' 1 2 2025-10-22 ? # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Database references' 2 3 'Structure model' 'Database references' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 2 'Structure model' citation 2 2 'Structure model' citation_author 3 3 'Structure model' citation # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 2 'Structure model' '_citation.country' 2 2 'Structure model' '_citation.journal_abbrev' 3 2 'Structure model' '_citation.journal_id_CSD' 4 2 'Structure model' '_citation.journal_id_ISSN' 5 2 'Structure model' '_citation.pdbx_database_id_DOI' 6 2 'Structure model' '_citation.pdbx_database_id_PubMed' 7 2 'Structure model' '_citation.title' 8 2 'Structure model' '_citation.year' 9 3 'Structure model' '_citation.journal_volume' 10 3 'Structure model' '_citation.page_first' 11 3 'Structure model' '_citation.page_last' # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr . _pdbx_database_status.entry_id 9HR9 _pdbx_database_status.recvd_initial_deposition_date 2024-12-17 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site PDBE _pdbx_database_status.process_site PDBE _pdbx_database_status.status_code_cs . _pdbx_database_status.status_code_nmr_data REL _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y # loop_ _pdbx_database_related.db_name _pdbx_database_related.details _pdbx_database_related.db_id _pdbx_database_related.content_type PDB Cryo-EM 9HR6 unspecified BMRB 'SSNMR structure of amyloid fibrils formed by human RIPK1' 34971 unspecified # _pdbx_contact_author.id 3 _pdbx_contact_author.email mmompean@iqf.csic.es _pdbx_contact_author.name_first Miguel _pdbx_contact_author.name_last Mompean _pdbx_contact_author.name_mi ? _pdbx_contact_author.role 'principal investigator/group leader' _pdbx_contact_author.identifier_ORCID 0000-0002-5608-3648 # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Polonio, P.' 1 0009-0006-0786-4655 'Escobedo-Gonzales, F.C.' 2 0000-0003-0778-2255 'Titaux-Delgado, G.A.' 3 0000-0002-3103-9085 'Mompean, M.' 4 0000-0002-5608-3648 # _citation.abstract ? _citation.abstract_id_CAS ? _citation.book_id_ISBN ? _citation.book_publisher ? _citation.book_publisher_city ? _citation.book_title ? _citation.coordinate_linkage ? _citation.country NE _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'Biomol.Nmr Assign.' _citation.journal_id_ASTM ? _citation.journal_id_CSD ? _citation.journal_id_ISSN 1874-270X _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 19 _citation.language ? _citation.page_first 299 _citation.page_last 304 _citation.title 'Resonance assignments of the human receptor interacting protein kinase 1 (RIPK1) in its fibrillar conformation.' _citation.year 2025 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1007/s12104-025-10249-y _citation.pdbx_database_id_PubMed 40952585 _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Polonio, P.' 1 ? primary 'Mompean, M.' 2 ? # _entity.id 1 _entity.type polymer _entity.src_method man _entity.pdbx_description 'Receptor-interacting serine/threonine-protein kinase 1' _entity.formula_weight 2513.842 _entity.pdbx_number_of_molecules 1 _entity.pdbx_ec 2.7.11.1 _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.details ? # _entity_name_com.entity_id 1 _entity_name_com.name 'Cell death protein RIP,Receptor-interacting protein 1,RIP-1' # _entity_poly.entity_id 1 _entity_poly.type 'polypeptide(L)' _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code IKYTIYNSTGIQIGAYNYMEIG _entity_poly.pdbx_seq_one_letter_code_can IKYTIYNSTGIQIGAYNYMEIG _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 ILE n 1 2 LYS n 1 3 TYR n 1 4 THR n 1 5 ILE n 1 6 TYR n 1 7 ASN n 1 8 SER n 1 9 THR n 1 10 GLY n 1 11 ILE n 1 12 GLN n 1 13 ILE n 1 14 GLY n 1 15 ALA n 1 16 TYR n 1 17 ASN n 1 18 TYR n 1 19 MET n 1 20 GLU n 1 21 ILE n 1 22 GLY n # _entity_src_gen.entity_id 1 _entity_src_gen.pdbx_src_id 1 _entity_src_gen.pdbx_alt_source_flag sample _entity_src_gen.pdbx_seq_type 'Biological sequence' _entity_src_gen.pdbx_beg_seq_num 1 _entity_src_gen.pdbx_end_seq_num 22 _entity_src_gen.gene_src_common_name human _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene 'RIPK1, RIP, RIP1' _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain ? _entity_src_gen.gene_src_tissue ? _entity_src_gen.gene_src_tissue_fraction ? _entity_src_gen.gene_src_details ? _entity_src_gen.pdbx_gene_src_fragment ? _entity_src_gen.pdbx_gene_src_scientific_name 'Homo sapiens' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 9606 _entity_src_gen.pdbx_gene_src_variant ? _entity_src_gen.pdbx_gene_src_cell_line ? _entity_src_gen.pdbx_gene_src_atcc ? _entity_src_gen.pdbx_gene_src_organ ? _entity_src_gen.pdbx_gene_src_organelle ? _entity_src_gen.pdbx_gene_src_cell ? _entity_src_gen.pdbx_gene_src_cellular_location ? _entity_src_gen.host_org_common_name ? _entity_src_gen.pdbx_host_org_scientific_name 'Escherichia coli BL21(DE3)' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 469008 _entity_src_gen.host_org_genus ? _entity_src_gen.pdbx_host_org_gene ? _entity_src_gen.pdbx_host_org_organ ? _entity_src_gen.host_org_species ? _entity_src_gen.pdbx_host_org_tissue ? _entity_src_gen.pdbx_host_org_tissue_fraction ? _entity_src_gen.pdbx_host_org_strain ? _entity_src_gen.pdbx_host_org_variant ? _entity_src_gen.pdbx_host_org_cell_line ? _entity_src_gen.pdbx_host_org_atcc ? _entity_src_gen.pdbx_host_org_culture_collection ? _entity_src_gen.pdbx_host_org_cell ? _entity_src_gen.pdbx_host_org_organelle ? _entity_src_gen.pdbx_host_org_cellular_location ? _entity_src_gen.pdbx_host_org_vector_type ? _entity_src_gen.pdbx_host_org_vector ? _entity_src_gen.host_org_details ? _entity_src_gen.expression_system_id ? _entity_src_gen.plasmid_name pET11a _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight ALA 'L-peptide linking' y ALANINE ? 'C3 H7 N O2' 89.093 ASN 'L-peptide linking' y ASPARAGINE ? 'C4 H8 N2 O3' 132.118 GLN 'L-peptide linking' y GLUTAMINE ? 'C5 H10 N2 O3' 146.144 GLU 'L-peptide linking' y 'GLUTAMIC ACID' ? 'C5 H9 N O4' 147.129 GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067 ILE 'L-peptide linking' y ISOLEUCINE ? 'C6 H13 N O2' 131.173 LYS 'L-peptide linking' y LYSINE ? 'C6 H15 N2 O2 1' 147.195 MET 'L-peptide linking' y METHIONINE ? 'C5 H11 N O2 S' 149.211 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 TYR 'L-peptide linking' y TYROSINE ? 'C9 H11 N O3' 181.189 # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 ILE 1 529 529 ILE ILE A . n A 1 2 LYS 2 530 530 LYS LYS A . n A 1 3 TYR 3 531 531 TYR TYR A . n A 1 4 THR 4 532 532 THR THR A . n A 1 5 ILE 5 533 533 ILE ILE A . n A 1 6 TYR 6 534 534 TYR TYR A . n A 1 7 ASN 7 535 535 ASN ASN A . n A 1 8 SER 8 536 536 SER SER A . n A 1 9 THR 9 537 537 THR THR A . n A 1 10 GLY 10 538 538 GLY GLY A . n A 1 11 ILE 11 539 539 ILE ILE A . n A 1 12 GLN 12 540 540 GLN GLN A . n A 1 13 ILE 13 541 541 ILE ILE A . n A 1 14 GLY 14 542 542 GLY GLY A . n A 1 15 ALA 15 543 543 ALA ALA A . n A 1 16 TYR 16 544 544 TYR TYR A . n A 1 17 ASN 17 545 545 ASN ASN A . n A 1 18 TYR 18 546 546 TYR TYR A . n A 1 19 MET 19 547 547 MET MET A . n A 1 20 GLU 20 548 548 GLU GLU A . n A 1 21 ILE 21 549 549 ILE ILE A . n A 1 22 GLY 22 550 550 GLY GLY A . n # _exptl.absorpt_coefficient_mu ? _exptl.absorpt_correction_T_max ? _exptl.absorpt_correction_T_min ? _exptl.absorpt_correction_type ? _exptl.absorpt_process_details ? _exptl.entry_id 9HR9 _exptl.crystals_number ? _exptl.details ? _exptl.method 'SOLID-STATE NMR' _exptl.method_details ? # _struct.entry_id 9HR9 _struct.title 'SSNMR structure of amyloid fibrils formed by human RIPK1' _struct.pdbx_model_details ? _struct.pdbx_formula_weight ? _struct.pdbx_formula_weight_method ? _struct.pdbx_model_type_details ? _struct.pdbx_CASP_flag N # _struct_keywords.entry_id 9HR9 _struct_keywords.text 'Amyloid, kinase, PROTEIN FIBRIL' _struct_keywords.pdbx_keywords 'PROTEIN FIBRIL' # _struct_asym.id A _struct_asym.pdbx_blank_PDB_chainid_flag N _struct_asym.pdbx_modified N _struct_asym.entity_id 1 _struct_asym.details ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code RIPK1_HUMAN _struct_ref.pdbx_db_accession Q13546 _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code IKYTIYNSTGIQIGAYNYMEIG _struct_ref.pdbx_align_begin 529 # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 9HR9 _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 1 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 22 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q13546 _struct_ref_seq.db_align_beg 529 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 550 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 529 _struct_ref_seq.pdbx_auth_seq_align_end 550 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support 'NMR Distance Restraints' _pdbx_struct_assembly_auth_evidence.details 'not applicable' # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0 _pdbx_struct_oper_list.matrix[1][2] 0.0 _pdbx_struct_oper_list.matrix[1][3] 0.0 _pdbx_struct_oper_list.vector[1] 0.0 _pdbx_struct_oper_list.matrix[2][1] 0.0 _pdbx_struct_oper_list.matrix[2][2] 1.0 _pdbx_struct_oper_list.matrix[2][3] 0.0 _pdbx_struct_oper_list.vector[2] 0.0 _pdbx_struct_oper_list.matrix[3][1] 0.0 _pdbx_struct_oper_list.matrix[3][2] 0.0 _pdbx_struct_oper_list.matrix[3][3] 1.0 _pdbx_struct_oper_list.vector[3] 0.0 # _pdbx_entry_details.entry_id 9HR9 _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.has_ligand_of_interest ? _pdbx_entry_details.has_protein_modification N # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 CB A TYR 531 ? ? CG A TYR 531 ? ? CD2 A TYR 531 ? ? 116.39 121.00 -4.61 0.60 N 2 1 CB A TYR 531 ? ? CG A TYR 531 ? ? CD1 A TYR 531 ? ? 125.67 121.00 4.67 0.60 N 3 1 CB A TYR 534 ? ? CG A TYR 534 ? ? CD2 A TYR 534 ? ? 115.68 121.00 -5.32 0.60 N 4 1 CB A TYR 534 ? ? CG A TYR 534 ? ? CD1 A TYR 534 ? ? 126.93 121.00 5.93 0.60 N 5 2 CB A TYR 531 ? ? CG A TYR 531 ? ? CD2 A TYR 531 ? ? 115.54 121.00 -5.46 0.60 N 6 2 CB A TYR 531 ? ? CG A TYR 531 ? ? CD1 A TYR 531 ? ? 126.97 121.00 5.97 0.60 N 7 2 CB A TYR 534 ? ? CG A TYR 534 ? ? CD2 A TYR 534 ? ? 115.97 121.00 -5.03 0.60 N 8 2 CB A TYR 534 ? ? CG A TYR 534 ? ? CD1 A TYR 534 ? ? 126.65 121.00 5.65 0.60 N 9 4 CB A TYR 534 ? ? CG A TYR 534 ? ? CD2 A TYR 534 ? ? 115.69 121.00 -5.31 0.60 N 10 4 CB A TYR 534 ? ? CG A TYR 534 ? ? CD1 A TYR 534 ? ? 126.89 121.00 5.89 0.60 N 11 6 CB A TYR 531 ? ? CG A TYR 531 ? ? CD2 A TYR 531 ? ? 116.99 121.00 -4.01 0.60 N 12 6 CB A TYR 531 ? ? CG A TYR 531 ? ? CD1 A TYR 531 ? ? 125.14 121.00 4.14 0.60 N 13 6 CB A TYR 534 ? ? CG A TYR 534 ? ? CD2 A TYR 534 ? ? 115.37 121.00 -5.63 0.60 N 14 6 CB A TYR 534 ? ? CG A TYR 534 ? ? CD1 A TYR 534 ? ? 127.37 121.00 6.37 0.60 N 15 7 CB A TYR 531 ? ? CG A TYR 531 ? ? CD2 A TYR 531 ? ? 116.10 121.00 -4.90 0.60 N 16 7 CB A TYR 531 ? ? CG A TYR 531 ? ? CD1 A TYR 531 ? ? 126.54 121.00 5.54 0.60 N 17 7 CB A TYR 534 ? ? CG A TYR 534 ? ? CD2 A TYR 534 ? ? 115.99 121.00 -5.01 0.60 N 18 7 CB A TYR 534 ? ? CG A TYR 534 ? ? CD1 A TYR 534 ? ? 126.78 121.00 5.78 0.60 N 19 8 CB A TYR 531 ? ? CG A TYR 531 ? ? CD2 A TYR 531 ? ? 115.42 121.00 -5.58 0.60 N 20 8 CB A TYR 531 ? ? CG A TYR 531 ? ? CD1 A TYR 531 ? ? 126.97 121.00 5.97 0.60 N 21 8 CB A TYR 534 ? ? CG A TYR 534 ? ? CD2 A TYR 534 ? ? 115.98 121.00 -5.02 0.60 N 22 8 CB A TYR 534 ? ? CG A TYR 534 ? ? CD1 A TYR 534 ? ? 126.69 121.00 5.69 0.60 N 23 9 CB A TYR 534 ? ? CG A TYR 534 ? ? CD2 A TYR 534 ? ? 115.81 121.00 -5.19 0.60 N 24 9 CB A TYR 534 ? ? CG A TYR 534 ? ? CD1 A TYR 534 ? ? 126.74 121.00 5.74 0.60 N # loop_ _pdbx_validate_torsion.id _pdbx_validate_torsion.PDB_model_num _pdbx_validate_torsion.auth_comp_id _pdbx_validate_torsion.auth_asym_id _pdbx_validate_torsion.auth_seq_id _pdbx_validate_torsion.PDB_ins_code _pdbx_validate_torsion.label_alt_id _pdbx_validate_torsion.phi _pdbx_validate_torsion.psi 1 1 LYS A 530 ? ? -69.99 -92.21 2 1 TYR A 531 ? ? 48.51 158.39 3 1 ASN A 535 ? ? -41.98 80.56 4 1 TYR A 544 ? ? -47.65 85.11 5 2 LYS A 530 ? ? -71.61 -86.82 6 2 TYR A 531 ? ? 55.78 152.68 7 2 ASN A 535 ? ? -36.92 78.98 8 2 TYR A 544 ? ? -49.03 81.30 9 3 LYS A 530 ? ? -77.52 -81.36 10 3 TYR A 531 ? ? 48.10 162.00 11 3 ASN A 535 ? ? -55.04 103.90 12 3 TYR A 544 ? ? -44.31 81.15 13 4 LYS A 530 ? ? -87.90 -72.87 14 4 TYR A 531 ? ? 71.19 92.04 15 4 ASN A 535 ? ? -37.00 90.53 16 4 TYR A 544 ? ? -49.39 84.35 17 4 GLU A 548 ? ? -152.03 88.19 18 5 TYR A 531 ? ? 67.61 111.97 19 5 SER A 536 ? ? 178.98 157.17 20 5 TYR A 544 ? ? -53.07 83.02 21 5 GLU A 548 ? ? -152.47 82.43 22 6 LYS A 530 ? ? -74.65 -78.68 23 6 TYR A 531 ? ? 48.16 160.63 24 6 ASN A 535 ? ? -29.42 84.42 25 6 TYR A 544 ? ? -42.59 81.41 26 7 LYS A 530 ? ? 54.51 -85.26 27 7 TYR A 531 ? ? 52.27 162.82 28 7 TYR A 544 ? ? -52.67 84.43 29 7 GLU A 548 ? ? -152.97 80.38 30 8 LYS A 530 ? ? -70.66 -74.86 31 8 TYR A 531 ? ? 53.68 165.38 32 8 ASN A 535 ? ? -39.11 73.20 33 8 TYR A 544 ? ? -57.95 88.81 34 9 LYS A 530 ? ? -90.20 -64.28 35 9 TYR A 531 ? ? 46.78 167.13 36 9 ASN A 535 ? ? -46.67 77.90 37 9 TYR A 544 ? ? -45.53 79.93 38 10 LYS A 530 ? ? 57.34 -103.50 39 10 TYR A 531 ? ? 72.96 97.87 40 10 ASN A 535 ? ? -45.11 83.75 41 10 TYR A 544 ? ? -54.51 96.15 42 10 GLU A 548 ? ? -156.50 87.44 # loop_ _pdbx_validate_peptide_omega.id _pdbx_validate_peptide_omega.PDB_model_num _pdbx_validate_peptide_omega.auth_comp_id_1 _pdbx_validate_peptide_omega.auth_asym_id_1 _pdbx_validate_peptide_omega.auth_seq_id_1 _pdbx_validate_peptide_omega.PDB_ins_code_1 _pdbx_validate_peptide_omega.label_alt_id_1 _pdbx_validate_peptide_omega.auth_comp_id_2 _pdbx_validate_peptide_omega.auth_asym_id_2 _pdbx_validate_peptide_omega.auth_seq_id_2 _pdbx_validate_peptide_omega.PDB_ins_code_2 _pdbx_validate_peptide_omega.label_alt_id_2 _pdbx_validate_peptide_omega.omega 1 1 LYS A 530 ? ? TYR A 531 ? ? -148.53 2 3 LYS A 530 ? ? TYR A 531 ? ? -148.01 3 5 ASN A 535 ? ? SER A 536 ? ? -149.28 4 6 LYS A 530 ? ? TYR A 531 ? ? -146.83 5 7 LYS A 530 ? ? TYR A 531 ? ? -143.18 6 8 LYS A 530 ? ? TYR A 531 ? ? -147.77 # loop_ _pdbx_validate_planes.id _pdbx_validate_planes.PDB_model_num _pdbx_validate_planes.auth_comp_id _pdbx_validate_planes.auth_asym_id _pdbx_validate_planes.auth_seq_id _pdbx_validate_planes.PDB_ins_code _pdbx_validate_planes.label_alt_id _pdbx_validate_planes.rmsd _pdbx_validate_planes.type 1 1 TYR A 534 ? ? 0.092 'SIDE CHAIN' 2 5 TYR A 544 ? ? 0.079 'SIDE CHAIN' 3 6 TYR A 534 ? ? 0.080 'SIDE CHAIN' 4 7 TYR A 544 ? ? 0.076 'SIDE CHAIN' 5 10 TYR A 531 ? ? 0.081 'SIDE CHAIN' # _pdbx_nmr_ensemble.entry_id 9HR9 _pdbx_nmr_ensemble.conformers_calculated_total_number 100 _pdbx_nmr_ensemble.conformers_submitted_total_number 10 _pdbx_nmr_ensemble.conformer_selection_criteria 'target function' _pdbx_nmr_ensemble.representative_conformer ? _pdbx_nmr_ensemble.average_constraints_per_residue ? _pdbx_nmr_ensemble.average_constraint_violations_per_residue ? _pdbx_nmr_ensemble.maximum_distance_constraint_violation ? _pdbx_nmr_ensemble.average_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_upper_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_lower_distance_constraint_violation ? _pdbx_nmr_ensemble.distance_constraint_violation_method ? _pdbx_nmr_ensemble.maximum_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.average_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.torsion_angle_constraint_violation_method ? # _pdbx_nmr_representative.entry_id 9HR9 _pdbx_nmr_representative.conformer_id 1 _pdbx_nmr_representative.selection_criteria 'lowest energy' # _pdbx_nmr_sample_details.solution_id 1 _pdbx_nmr_sample_details.contents '25 % w/w [U-100% 13C; U-100% 15N] protein, 75 % w/w None protein, 100% H2O' _pdbx_nmr_sample_details.solvent_system '100% H2O' _pdbx_nmr_sample_details.label 13C15_diluted _pdbx_nmr_sample_details.type 'fibrous protein' _pdbx_nmr_sample_details.details '1:4 labelled:unlabelled hRIPK1 (RHIM)' # _pdbx_nmr_exptl_sample.solution_id 1 _pdbx_nmr_exptl_sample.component protein _pdbx_nmr_exptl_sample.concentration 25 _pdbx_nmr_exptl_sample.concentration_range ? _pdbx_nmr_exptl_sample.concentration_units '% w/w' _pdbx_nmr_exptl_sample.isotopic_labeling '[U-100% 13C; U-100% 15N]' # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.temperature 310 _pdbx_nmr_exptl_sample_conditions.pressure_units atm _pdbx_nmr_exptl_sample_conditions.pressure 1 _pdbx_nmr_exptl_sample_conditions.pH 7.4 _pdbx_nmr_exptl_sample_conditions.ionic_strength 0 _pdbx_nmr_exptl_sample_conditions.details ;Fibrils in water at pH 7.4 (dialyzed from 20 mM Tris) ; _pdbx_nmr_exptl_sample_conditions.ionic_strength_err ? _pdbx_nmr_exptl_sample_conditions.ionic_strength_units mM _pdbx_nmr_exptl_sample_conditions.label conditions_1 _pdbx_nmr_exptl_sample_conditions.pH_err ? _pdbx_nmr_exptl_sample_conditions.pH_units pH _pdbx_nmr_exptl_sample_conditions.pressure_err ? _pdbx_nmr_exptl_sample_conditions.temperature_err 1 _pdbx_nmr_exptl_sample_conditions.temperature_units K # loop_ _pdbx_nmr_exptl.experiment_id _pdbx_nmr_exptl.conditions_id _pdbx_nmr_exptl.solution_id _pdbx_nmr_exptl.type _pdbx_nmr_exptl.spectrometer_id _pdbx_nmr_exptl.sample_state 1 1 1 NCACX 1 isotropic 2 1 1 NCOCX 1 isotropic 3 1 1 CANCOCX 1 isotropic 4 1 1 'CORD 20 ms' 1 isotropic 5 1 1 'CORD 50 ms' 1 isotropic 6 1 1 'CORD 100 ms' 1 isotropic 7 1 1 'CORD 500 ms' 1 isotropic # _pdbx_nmr_refine.entry_id 9HR9 _pdbx_nmr_refine.method 'molecular dynamics' _pdbx_nmr_refine.details '100 structures calculated with cyana and 10 lowest-energy conformers refined using GROMACS' _pdbx_nmr_refine.software_ordinal 2 # loop_ _pdbx_nmr_software.ordinal _pdbx_nmr_software.classification _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.authors 1 'structure calculation' CYANA ? 'Guntert, Mumenthaler and Wuthrich' 2 refinement GROMACS ? https://doi.org/10.5281/zenodo.11148638 3 'chemical shift assignment' 'CcpNmr Analysis' ? CCPN # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal ALA N N N N 1 ALA CA C N S 2 ALA C C N N 3 ALA O O N N 4 ALA CB C N N 5 ALA OXT O N N 6 ALA H H N N 7 ALA H2 H N N 8 ALA HA H N N 9 ALA HB1 H N N 10 ALA HB2 H N N 11 ALA HB3 H N N 12 ALA HXT H N N 13 ASN N N N N 14 ASN CA C N S 15 ASN C C N N 16 ASN O O N N 17 ASN CB C N N 18 ASN CG C N N 19 ASN OD1 O N N 20 ASN ND2 N N N 21 ASN OXT O N N 22 ASN H H N N 23 ASN H2 H N N 24 ASN HA H N N 25 ASN HB2 H N N 26 ASN HB3 H N N 27 ASN HD21 H N N 28 ASN HD22 H N N 29 ASN HXT H N N 30 GLN N N N N 31 GLN CA C N S 32 GLN C C N N 33 GLN O O N N 34 GLN CB C N N 35 GLN CG C N N 36 GLN CD C N N 37 GLN OE1 O N N 38 GLN NE2 N N N 39 GLN OXT O N N 40 GLN H H N N 41 GLN H2 H N N 42 GLN HA H N N 43 GLN HB2 H N N 44 GLN HB3 H N N 45 GLN HG2 H N N 46 GLN HG3 H N N 47 GLN HE21 H N N 48 GLN HE22 H N N 49 GLN HXT H N N 50 GLU N N N N 51 GLU CA C N S 52 GLU C C N N 53 GLU O O N N 54 GLU CB C N N 55 GLU CG C N N 56 GLU CD C N N 57 GLU OE1 O N N 58 GLU OE2 O N N 59 GLU OXT O N N 60 GLU H H N N 61 GLU H2 H N N 62 GLU HA H N N 63 GLU HB2 H N N 64 GLU HB3 H N N 65 GLU HG2 H N N 66 GLU HG3 H N N 67 GLU HE2 H N N 68 GLU HXT H N N 69 GLY N N N N 70 GLY CA C N N 71 GLY C C N N 72 GLY O O N N 73 GLY OXT O N N 74 GLY H H N N 75 GLY H2 H N N 76 GLY HA2 H N N 77 GLY HA3 H N N 78 GLY HXT H N N 79 ILE N N N N 80 ILE CA C N S 81 ILE C C N N 82 ILE O O N N 83 ILE CB C N S 84 ILE CG1 C N N 85 ILE CG2 C N N 86 ILE CD1 C N N 87 ILE OXT O N N 88 ILE H H N N 89 ILE H2 H N N 90 ILE HA H N N 91 ILE HB H N N 92 ILE HG12 H N N 93 ILE HG13 H N N 94 ILE HG21 H N N 95 ILE HG22 H N N 96 ILE HG23 H N N 97 ILE HD11 H N N 98 ILE HD12 H N N 99 ILE HD13 H N N 100 ILE HXT H N N 101 LYS N N N N 102 LYS CA C N S 103 LYS C C N N 104 LYS O O N N 105 LYS CB C N N 106 LYS CG C N N 107 LYS CD C N N 108 LYS CE C N N 109 LYS NZ N N N 110 LYS OXT O N N 111 LYS H H N N 112 LYS H2 H N N 113 LYS HA H N N 114 LYS HB2 H N N 115 LYS HB3 H N N 116 LYS HG2 H N N 117 LYS HG3 H N N 118 LYS HD2 H N N 119 LYS HD3 H N N 120 LYS HE2 H N N 121 LYS HE3 H N N 122 LYS HZ1 H N N 123 LYS HZ2 H N N 124 LYS HZ3 H N N 125 LYS HXT H N N 126 MET N N N N 127 MET CA C N S 128 MET C C N N 129 MET O O N N 130 MET CB C N N 131 MET CG C N N 132 MET SD S N N 133 MET CE C N N 134 MET OXT O N N 135 MET H H N N 136 MET H2 H N N 137 MET HA H N N 138 MET HB2 H N N 139 MET HB3 H N N 140 MET HG2 H N N 141 MET HG3 H N N 142 MET HE1 H N N 143 MET HE2 H N N 144 MET HE3 H N N 145 MET HXT H N N 146 SER N N N N 147 SER CA C N S 148 SER C C N N 149 SER O O N N 150 SER CB C N N 151 SER OG O N N 152 SER OXT O N N 153 SER H H N N 154 SER H2 H N N 155 SER HA H N N 156 SER HB2 H N N 157 SER HB3 H N N 158 SER HG H N N 159 SER HXT H N N 160 THR N N N N 161 THR CA C N S 162 THR C C N N 163 THR O O N N 164 THR CB C N R 165 THR OG1 O N N 166 THR CG2 C N N 167 THR OXT O N N 168 THR H H N N 169 THR H2 H N N 170 THR HA H N N 171 THR HB H N N 172 THR HG1 H N N 173 THR HG21 H N N 174 THR HG22 H N N 175 THR HG23 H N N 176 THR HXT H N N 177 TYR N N N N 178 TYR CA C N S 179 TYR C C N N 180 TYR O O N N 181 TYR CB C N N 182 TYR CG C Y N 183 TYR CD1 C Y N 184 TYR CD2 C Y N 185 TYR CE1 C Y N 186 TYR CE2 C Y N 187 TYR CZ C Y N 188 TYR OH O N N 189 TYR OXT O N N 190 TYR H H N N 191 TYR H2 H N N 192 TYR HA H N N 193 TYR HB2 H N N 194 TYR HB3 H N N 195 TYR HD1 H N N 196 TYR HD2 H N N 197 TYR HE1 H N N 198 TYR HE2 H N N 199 TYR HH H N N 200 TYR HXT H N N 201 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal ALA N CA sing N N 1 ALA N H sing N N 2 ALA N H2 sing N N 3 ALA CA C sing N N 4 ALA CA CB sing N N 5 ALA CA HA sing N N 6 ALA C O doub N N 7 ALA C OXT sing N N 8 ALA CB HB1 sing N N 9 ALA CB HB2 sing N N 10 ALA CB HB3 sing N N 11 ALA OXT HXT sing N N 12 ASN N CA sing N N 13 ASN N H sing N N 14 ASN N H2 sing N N 15 ASN CA C sing N N 16 ASN CA CB sing N N 17 ASN CA HA sing N N 18 ASN C O doub N N 19 ASN C OXT sing N N 20 ASN CB CG sing N N 21 ASN CB HB2 sing N N 22 ASN CB HB3 sing N N 23 ASN CG OD1 doub N N 24 ASN CG ND2 sing N N 25 ASN ND2 HD21 sing N N 26 ASN ND2 HD22 sing N N 27 ASN OXT HXT sing N N 28 GLN N CA sing N N 29 GLN N H sing N N 30 GLN N H2 sing N N 31 GLN CA C sing N N 32 GLN CA CB sing N N 33 GLN CA HA sing N N 34 GLN C O doub N N 35 GLN C OXT sing N N 36 GLN CB CG sing N N 37 GLN CB HB2 sing N N 38 GLN CB HB3 sing N N 39 GLN CG CD sing N N 40 GLN CG HG2 sing N N 41 GLN CG HG3 sing N N 42 GLN CD OE1 doub N N 43 GLN CD NE2 sing N N 44 GLN NE2 HE21 sing N N 45 GLN NE2 HE22 sing N N 46 GLN OXT HXT sing N N 47 GLU N CA sing N N 48 GLU N H sing N N 49 GLU N H2 sing N N 50 GLU CA C sing N N 51 GLU CA CB sing N N 52 GLU CA HA sing N N 53 GLU C O doub N N 54 GLU C OXT sing N N 55 GLU CB CG sing N N 56 GLU CB HB2 sing N N 57 GLU CB HB3 sing N N 58 GLU CG CD sing N N 59 GLU CG HG2 sing N N 60 GLU CG HG3 sing N N 61 GLU CD OE1 doub N N 62 GLU CD OE2 sing N N 63 GLU OE2 HE2 sing N N 64 GLU OXT HXT sing N N 65 GLY N CA sing N N 66 GLY N H sing N N 67 GLY N H2 sing N N 68 GLY CA C sing N N 69 GLY CA HA2 sing N N 70 GLY CA HA3 sing N N 71 GLY C O doub N N 72 GLY C OXT sing N N 73 GLY OXT HXT sing N N 74 ILE N CA sing N N 75 ILE N H sing N N 76 ILE N H2 sing N N 77 ILE CA C sing N N 78 ILE CA CB sing N N 79 ILE CA HA sing N N 80 ILE C O doub N N 81 ILE C OXT sing N N 82 ILE CB CG1 sing N N 83 ILE CB CG2 sing N N 84 ILE CB HB sing N N 85 ILE CG1 CD1 sing N N 86 ILE CG1 HG12 sing N N 87 ILE CG1 HG13 sing N N 88 ILE CG2 HG21 sing N N 89 ILE CG2 HG22 sing N N 90 ILE CG2 HG23 sing N N 91 ILE CD1 HD11 sing N N 92 ILE CD1 HD12 sing N N 93 ILE CD1 HD13 sing N N 94 ILE OXT HXT sing N N 95 LYS N CA sing N N 96 LYS N H sing N N 97 LYS N H2 sing N N 98 LYS CA C sing N N 99 LYS CA CB sing N N 100 LYS CA HA sing N N 101 LYS C O doub N N 102 LYS C OXT sing N N 103 LYS CB CG sing N N 104 LYS CB HB2 sing N N 105 LYS CB HB3 sing N N 106 LYS CG CD sing N N 107 LYS CG HG2 sing N N 108 LYS CG HG3 sing N N 109 LYS CD CE sing N N 110 LYS CD HD2 sing N N 111 LYS CD HD3 sing N N 112 LYS CE NZ sing N N 113 LYS CE HE2 sing N N 114 LYS CE HE3 sing N N 115 LYS NZ HZ1 sing N N 116 LYS NZ HZ2 sing N N 117 LYS NZ HZ3 sing N N 118 LYS OXT HXT sing N N 119 MET N CA sing N N 120 MET N H sing N N 121 MET N H2 sing N N 122 MET CA C sing N N 123 MET CA CB sing N N 124 MET CA HA sing N N 125 MET C O doub N N 126 MET C OXT sing N N 127 MET CB CG sing N N 128 MET CB HB2 sing N N 129 MET CB HB3 sing N N 130 MET CG SD sing N N 131 MET CG HG2 sing N N 132 MET CG HG3 sing N N 133 MET SD CE sing N N 134 MET CE HE1 sing N N 135 MET CE HE2 sing N N 136 MET CE HE3 sing N N 137 MET OXT HXT sing N N 138 SER N CA sing N N 139 SER N H sing N N 140 SER N H2 sing N N 141 SER CA C sing N N 142 SER CA CB sing N N 143 SER CA HA sing N N 144 SER C O doub N N 145 SER C OXT sing N N 146 SER CB OG sing N N 147 SER CB HB2 sing N N 148 SER CB HB3 sing N N 149 SER OG HG sing N N 150 SER OXT HXT sing N N 151 THR N CA sing N N 152 THR N H sing N N 153 THR N H2 sing N N 154 THR CA C sing N N 155 THR CA CB sing N N 156 THR CA HA sing N N 157 THR C O doub N N 158 THR C OXT sing N N 159 THR CB OG1 sing N N 160 THR CB CG2 sing N N 161 THR CB HB sing N N 162 THR OG1 HG1 sing N N 163 THR CG2 HG21 sing N N 164 THR CG2 HG22 sing N N 165 THR CG2 HG23 sing N N 166 THR OXT HXT sing N N 167 TYR N CA sing N N 168 TYR N H sing N N 169 TYR N H2 sing N N 170 TYR CA C sing N N 171 TYR CA CB sing N N 172 TYR CA HA sing N N 173 TYR C O doub N N 174 TYR C OXT sing N N 175 TYR CB CG sing N N 176 TYR CB HB2 sing N N 177 TYR CB HB3 sing N N 178 TYR CG CD1 doub Y N 179 TYR CG CD2 sing Y N 180 TYR CD1 CE1 sing Y N 181 TYR CD1 HD1 sing N N 182 TYR CD2 CE2 doub Y N 183 TYR CD2 HD2 sing N N 184 TYR CE1 CZ doub Y N 185 TYR CE1 HE1 sing N N 186 TYR CE2 CZ sing Y N 187 TYR CE2 HE2 sing N N 188 TYR CZ OH sing N N 189 TYR OH HH sing N N 190 TYR OXT HXT sing N N 191 # _pdbx_audit_support.funding_organization 'European Research Council (ERC)' _pdbx_audit_support.country 'European Union' _pdbx_audit_support.grant_number 101042403 _pdbx_audit_support.ordinal 1 # _pdbx_nmr_spectrometer.spectrometer_id 1 _pdbx_nmr_spectrometer.model 'AVANCE NEO' _pdbx_nmr_spectrometer.type ? _pdbx_nmr_spectrometer.manufacturer Bruker _pdbx_nmr_spectrometer.field_strength 600 _pdbx_nmr_spectrometer.details 'HCN CPMAS CryoProbe' # _atom_sites.entry_id 9HR9 _atom_sites.Cartn_transf_matrix[1][1] ? _atom_sites.Cartn_transf_matrix[1][2] ? _atom_sites.Cartn_transf_matrix[1][3] ? _atom_sites.Cartn_transf_matrix[2][1] ? _atom_sites.Cartn_transf_matrix[2][2] ? _atom_sites.Cartn_transf_matrix[2][3] ? _atom_sites.Cartn_transf_matrix[3][1] ? _atom_sites.Cartn_transf_matrix[3][2] ? _atom_sites.Cartn_transf_matrix[3][3] ? _atom_sites.Cartn_transf_vector[1] ? _atom_sites.Cartn_transf_vector[2] ? _atom_sites.Cartn_transf_vector[3] ? _atom_sites.Cartn_transform_axes ? _atom_sites.fract_transf_matrix[1][1] 1.000000 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.000000 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 1.000000 _atom_sites.fract_transf_matrix[2][3] 0.000000 _atom_sites.fract_transf_matrix[3][1] 0.000000 _atom_sites.fract_transf_matrix[3][2] 0.000000 _atom_sites.fract_transf_matrix[3][3] 1.000000 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 _atom_sites.solution_primary ? _atom_sites.solution_secondary ? _atom_sites.solution_hydrogens ? _atom_sites.special_details ? # loop_ _atom_type.symbol C H N O S # loop_ #