data_9F9K # _model_server_result.job_id rvjlAjmx5lsRqQPoXrOghQ _model_server_result.datetime_utc '2024-11-14 17:09:04' _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 9f9k # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":604}' # _entry.id 9F9K # _exptl.entry_id 9F9K _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 308.288 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '5-oxidanyl-6-oxidanylidene-2-(4-phenylphenyl)-1H-pyrimidine-4-carboxylic acid' _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 91.37 _cell.angle_gamma 90 _cell.entry_id 9F9K _cell.length_a 71.264 _cell.length_b 79.066 _cell.length_c 84.836 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9F9K _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,E,F,G,H 1 1 C,D 2 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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 G N N ? 4 H N 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 metalc ? metalc1 A OD1 ASP 64 A ASP 307 1_555 E MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.247 ? metalc ? metalc2 A OD2 ASP 64 A ASP 307 1_555 F MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.14 ? metalc ? metalc3 A OE1 GLU 90 A GLU 333 1_555 F MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.546 ? metalc ? metalc4 A O ARG 91 A ARG 334 1_555 F MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.949 ? metalc ? metalc5 E MG MG . A MG 601 1_555 G O1 A1IA7 . A A1IA7 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.124 ? metalc ? metalc6 E MG MG . A MG 601 1_555 G O3 A1IA7 . A A1IA7 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.789 ? metalc ? metalc7 F MG MG . A MG 602 1_555 G O3 A1IA7 . A A1IA7 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.934 ? metalc ? metalc8 F MG MG . A MG 602 1_555 G O A1IA7 . A A1IA7 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.248 ? # _chem_comp.formula 'C17 H12 N2 O4' _chem_comp.formula_weight 308.288 _chem_comp.id A1IA7 _chem_comp.mon_nstd_flag . _chem_comp.name '5-oxidanyl-6-oxidanylidene-2-(4-phenylphenyl)-1H-pyrimidine-4-carboxylic 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 C C1 A1IA7 doub 1 n y C1 C2 A1IA7 sing 2 n y C2 C3 A1IA7 doub 3 n y C4 C3 A1IA7 sing 4 n y C5 C4 A1IA7 doub 5 n y C C5 A1IA7 sing 6 n y C3 C6 A1IA7 sing 7 n n C6 C7 A1IA7 doub 8 n y C7 C8 A1IA7 sing 9 n y C8 C9 A1IA7 doub 10 n y C10 C9 A1IA7 sing 11 n y C11 C10 A1IA7 doub 12 n y C6 C11 A1IA7 sing 13 n y C9 C12 A1IA7 sing 14 n n C12 N A1IA7 sing 15 n n N C13 A1IA7 sing 16 n n O C13 A1IA7 doub 17 n n C13 C14 A1IA7 sing 18 n n C14 C15 A1IA7 doub 19 n n N1 C15 A1IA7 sing 20 n n C12 N1 A1IA7 doub 21 n n C15 C16 A1IA7 sing 22 n n C16 O1 A1IA7 doub 23 n n O2 C16 A1IA7 sing 24 n n O3 C14 A1IA7 sing 25 n n C1 H2 A1IA7 sing 26 n n C2 H3 A1IA7 sing 27 n n C7 H6 A1IA7 sing 28 n n C8 H7 A1IA7 sing 29 n n C10 H8 A1IA7 sing 30 n n C11 H9 A1IA7 sing 31 n n O2 H10 A1IA7 sing 32 n n O3 H11 A1IA7 sing 33 n n N H A1IA7 sing 34 n n C4 H4 A1IA7 sing 35 n n C5 H5 A1IA7 sing 36 n n C H1 A1IA7 sing 37 n n # _atom_sites.entry_id 9F9K _atom_sites.fract_transf_matrix[1][1] 0.014032 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000336 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012648 _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] 0.011791 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code E 3 MG A 1 601 1 MG MG . F 3 MG A 1 602 2 MG MG . G 4 A1IA7 A 1 603 1 A1IA7 INH . H 4 A1IA7 A 1 604 2 A1IA7 INH . # 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 C1 A1IA7 . . . H 4 1.519 25.072 5.239 1 72.79 ? C1 A1IA7 604 A 1 HETATM 2 C C2 A1IA7 . . . H 4 1.423 25.928 6.323 1 72.72 ? C2 A1IA7 604 A 1 HETATM 3 C C3 A1IA7 . . . H 4 2.569 26.419 6.947 1 72.71 ? C3 A1IA7 604 A 1 HETATM 4 C C7 A1IA7 . . . H 4 1.235 27.695 8.642 1 72.69 ? C7 A1IA7 604 A 1 HETATM 5 C C8 A1IA7 . . . H 4 1.142 28.553 9.723 1 72.78 ? C8 A1IA7 604 A 1 HETATM 6 C C9 A1IA7 . . . H 4 2.288 29.085 10.307 1 73.01 ? C9 A1IA7 604 A 1 HETATM 7 C C10 A1IA7 . . . H 4 3.527 28.734 9.779 1 72.93 ? C10 A1IA7 604 A 1 HETATM 8 C C11 A1IA7 . . . H 4 3.615 27.876 8.699 1 72.84 ? C11 A1IA7 604 A 1 HETATM 9 C C12 A1IA7 . . . H 4 2.192 29.999 11.458 1 73.47 ? C12 A1IA7 604 A 1 HETATM 10 C C13 A1IA7 . . . H 4 3.426 31.23 13.157 1 74.02 ? C13 A1IA7 604 A 1 HETATM 11 C C14 A1IA7 . . . H 4 2.133 31.693 13.594 1 74.16 ? C14 A1IA7 604 A 1 HETATM 12 C C15 A1IA7 . . . H 4 1.014 31.279 12.943 1 74.03 ? C15 A1IA7 604 A 1 HETATM 13 C C16 A1IA7 . . . H 4 -0.332 31.76 13.398 1 74.08 ? C16 A1IA7 604 A 1 HETATM 14 O O1 A1IA7 . . . H 4 -0.448 32.743 14.126 1 73.85 ? O1 A1IA7 604 A 1 HETATM 15 O O2 A1IA7 . . . H 4 -1.377 31.07 12.973 1 74.26 ? O2 A1IA7 604 A 1 HETATM 16 O O3 A1IA7 . . . H 4 2.141 32.514 14.636 1 74.36 ? O3 A1IA7 604 A 1 HETATM 17 O O A1IA7 . . . H 4 4.508 31.538 13.671 1 73.9 ? O A1IA7 604 A 1 HETATM 18 N N A1IA7 . . . H 4 3.368 30.382 12.073 1 73.84 ? N A1IA7 604 A 1 HETATM 19 N N1 A1IA7 . . . H 4 1.008 30.417 11.849 1 73.7 ? N1 A1IA7 604 A 1 HETATM 20 C C6 A1IA7 . . . H 4 2.472 27.338 8.108 1 72.73 ? C6 A1IA7 604 A 1 HETATM 21 C C4 A1IA7 . . . H 4 3.811 26.026 6.448 1 72.7 ? C4 A1IA7 604 A 1 HETATM 22 C C5 A1IA7 . . . H 4 3.899 25.171 5.363 1 72.82 ? C5 A1IA7 604 A 1 HETATM 23 C C A1IA7 . . . H 4 2.755 24.694 4.759 1 72.91 ? C A1IA7 604 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 22 _model_server_stats.query_time_ms 359 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 23 #