data_5YWY # _model_server_result.job_id Pbsub8sKjQD-QtM5wU1-ug _model_server_result.datetime_utc '2025-03-06 18:50:31' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 5ywy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":501}' # _entry.id 5YWY # _exptl.entry_id 5YWY _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 404.434 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '4-[4-cyano-2-[[(2R)-2-(4-fluoranylnaphthalen-1-yl)propanoyl]amino]phenyl]butanoic acid' _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 5YWY _cell.length_a 100.98 _cell.length_b 390.15 _cell.length_c 79.36 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5YWY _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 # _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 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order disulf ? disulf1 A SG CYS 92 A CYS 92 1_555 A SG CYS 170 A CYS 170 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf2 B SG CYS 41 H CYS 41 1_555 B SG CYS 115 H CYS 115 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf3 B SG CYS 155 H CYS 155 1_555 C SG CYS 236 L CYS 236 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf4 B SG CYS 167 H CYS 167 1_555 B SG CYS 222 H CYS 222 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf5 C SG CYS 45 L CYS 45 1_555 C SG CYS 110 L CYS 110 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf6 C SG CYS 156 L CYS 156 1_555 C SG CYS 216 L CYS 216 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? # _chem_comp.formula 'C24 H21 F N2 O3' _chem_comp.formula_weight 404.434 _chem_comp.id 7UR _chem_comp.mon_nstd_flag . _chem_comp.name '4-[4-cyano-2-[[(2R)-2-(4-fluoranylnaphthalen-1-yl)propanoyl]amino]phenyl]butanoic acid' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag C28 C29 7UR sing 1 n y C28 C27 7UR doub 2 n y C29 C30 7UR doub 3 n y F01 C02 7UR sing 4 n n C27 C26 7UR sing 5 n y C30 C02 7UR sing 6 n y C30 C25 7UR sing 7 n y C02 C03 7UR doub 8 n y C26 C25 7UR doub 9 n y C25 C05 7UR sing 10 n y C03 C04 7UR sing 11 n y O22 C20 7UR doub 12 n n C05 C04 7UR doub 13 n y C05 C06 7UR sing 14 n n C20 C19 7UR sing 15 n n C20 O21 7UR sing 16 n n C19 C18 7UR sing 17 n n C06 C24 7UR sing 18 n n C06 C07 7UR sing 19 n n N08 C07 7UR sing 20 n n N08 C09 7UR sing 21 n n C18 C17 7UR sing 22 n n C07 O23 7UR doub 23 n n C09 C10 7UR doub 24 n y C09 C16 7UR sing 25 n y C17 C16 7UR sing 26 n n C10 C11 7UR sing 27 n y C16 C15 7UR doub 28 n y C11 C12 7UR sing 29 n n C11 C14 7UR doub 30 n y C12 N13 7UR trip 31 n n C15 C14 7UR sing 32 n y C10 H1 7UR sing 33 n n C15 H2 7UR sing 34 n n C17 H3 7UR sing 35 n n C17 H4 7UR sing 36 n n C24 H5 7UR sing 37 n n C24 H6 7UR sing 38 n n C24 H7 7UR sing 39 n n C26 H8 7UR sing 40 n n C28 H9 7UR sing 41 n n C03 H10 7UR sing 42 n n C04 H11 7UR sing 43 n n C06 H12 7UR sing 44 n n N08 H13 7UR sing 45 n n C14 H14 7UR sing 46 n n C18 H15 7UR sing 47 n n C18 H16 7UR sing 48 n n C19 H17 7UR sing 49 n n C19 H18 7UR sing 50 n n O21 H19 7UR sing 51 n n C27 H20 7UR sing 52 n n C29 H21 7UR sing 53 n n # _atom_sites.entry_id 5YWY _atom_sites.fract_transf_matrix[1][1] 0.009903 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.002563 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.012601 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # _pdbx_nonpoly_scheme.asym_id D _pdbx_nonpoly_scheme.entity_id 4 _pdbx_nonpoly_scheme.mon_id 7UR _pdbx_nonpoly_scheme.pdb_strand_id A _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 501 _pdbx_nonpoly_scheme.auth_seq_num 501 _pdbx_nonpoly_scheme.pdb_mon_id 7UR _pdbx_nonpoly_scheme.auth_mon_id 7UR _pdbx_nonpoly_scheme.pdb_ins_code . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 C C10 7UR . . . D 4 -46.011 -41.342 1.397 1 126.01 ? C10 7UR 501 A 1 HETATM 2 C C15 7UR . . . D 4 -46.436 -43.776 2.622 1 127.18 ? C15 7UR 501 A 1 HETATM 3 C C17 7UR . . . D 4 -44.478 -44.811 1.394 1 114.52 ? C17 7UR 501 A 1 HETATM 4 C C20 7UR . . . D 4 -42.782 -46.033 -0.951 1 131.23 ? C20 7UR 501 A 1 HETATM 5 C C24 7UR . . . D 4 -40.426 -40.988 0.475 1 116.36 ? C24 7UR 501 A 1 HETATM 6 C C26 7UR . . . D 4 -40.467 -42.155 -2.861 1 97.12 ? C26 7UR 501 A 1 HETATM 7 C C28 7UR . . . D 4 -40.141 -41.725 -5.204 1 85.47 ? C28 7UR 501 A 1 HETATM 8 F F01 7UR . . . D 4 -42.689 -38.409 -4.906 1 121.8 ? F01 7UR 501 A 1 HETATM 9 C C02 7UR . . . D 4 -42.431 -39.164 -3.797 1 115.02 ? C02 7UR 501 A 1 HETATM 10 C C03 7UR . . . D 4 -43.013 -38.832 -2.579 1 113.81 ? C03 7UR 501 A 1 HETATM 11 C C04 7UR . . . D 4 -42.754 -39.601 -1.448 1 114.8 ? C04 7UR 501 A 1 HETATM 12 C C05 7UR . . . D 4 -41.914 -40.704 -1.538 1 115.04 ? C05 7UR 501 A 1 HETATM 13 C C06 7UR . . . D 4 -41.617 -41.557 -0.295 1 117.93 ? C06 7UR 501 A 1 HETATM 14 C C07 7UR . . . D 4 -42.825 -41.721 0.633 1 126.18 ? C07 7UR 501 A 1 HETATM 15 N N08 7UR . . . D 4 -44.084 -42.269 0.159 1 130.18 ? N08 7UR 501 A 1 HETATM 16 C C09 7UR . . . D 4 -45.184 -42.41 1.098 1 129.83 ? C09 7UR 501 A 1 HETATM 17 C C11 7UR . . . D 4 -47.054 -41.486 2.298 1 120.63 ? C11 7UR 501 A 1 HETATM 18 C C12 7UR . . . D 4 -47.955 -40.291 2.6 1 116.3 ? C12 7UR 501 A 1 HETATM 19 N N13 7UR . . . D 4 -48.617 -39.397 2.816 1 120.69 ? N13 7UR 501 A 1 HETATM 20 C C14 7UR . . . D 4 -47.27 -42.707 2.914 1 124.66 ? C14 7UR 501 A 1 HETATM 21 C C16 7UR . . . D 4 -45.396 -43.627 1.719 1 125.1 ? C16 7UR 501 A 1 HETATM 22 C C18 7UR . . . D 4 -45.019 -45.626 0.214 1 112.22 ? C18 7UR 501 A 1 HETATM 23 C C19 7UR . . . D 4 -44.024 -46.666 -0.316 1 119.24 ? C19 7UR 501 A 1 HETATM 24 O O21 7UR . . . D 4 -41.734 -45.866 -0.273 1 130.85 -1 O21 7UR 501 A 1 HETATM 25 O O22 7UR . . . D 4 -42.811 -45.677 -2.157 1 146.23 ? O22 7UR 501 A 1 HETATM 26 O O23 7UR . . . D 4 -42.728 -41.407 1.771 1 136.36 ? O23 7UR 501 A 1 HETATM 27 C C25 7UR . . . D 4 -41.321 -41.039 -2.772 1 109.06 ? C25 7UR 501 A 1 HETATM 28 C C27 7UR . . . D 4 -39.881 -42.492 -4.074 1 85.14 ? C27 7UR 501 A 1 HETATM 29 C C29 7UR . . . D 4 -40.984 -40.623 -5.118 1 99.13 ? C29 7UR 501 A 1 HETATM 30 C C30 7UR . . . D 4 -41.577 -40.281 -3.888 1 109.89 ? C30 7UR 501 A 1 # _model_server_stats.io_time_ms 18 _model_server_stats.parse_time_ms 33 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 273 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 30 #