data_3RDP # _model_server_result.job_id NOGxtXnsDs4hRtBvIb-PHA _model_server_result.datetime_utc '2024-12-26 21:55:38' _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 3rdp # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":601}' # _entry.id 3RDP # _exptl.entry_id 3RDP _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 230.236 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 6-[(2R)-2-(fluoromethyl)-3-hydroxy-propyl]-1,5-dimethyl-pyrimidine-2,4-dione _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 90 _cell.angle_gamma 90 _cell.entry_id 3RDP _cell.length_a 114.187 _cell.length_b 118.283 _cell.length_c 108.871 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3RDP _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 PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 D N N ? 3 G N N # _chem_comp.formula 'C10 H15 F N2 O3' _chem_comp.formula_weight 230.236 _chem_comp.id NMF _chem_comp.mon_nstd_flag . _chem_comp.name 6-[(2R)-2-(fluoromethyl)-3-hydroxy-propyl]-1,5-dimethyl-pyrimidine-2,4-dione _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 F C14 NMF sing 237 n n C1 N1 NMF sing 238 n n C1 O1 NMF doub 239 n n C1 N2 NMF sing 240 n n N1 C5 NMF sing 241 n n N1 C6 NMF sing 242 n n C2 N2 NMF sing 243 n n C2 O2 NMF doub 244 n n C2 C3 NMF sing 245 n n C3 C4 NMF sing 246 n n C3 C5 NMF doub 247 n n O3 C13 NMF sing 248 n n C5 C11 NMF sing 249 n n C11 C12 NMF sing 250 n n C12 C13 NMF sing 251 n n C12 C14 NMF sing 252 n n N2 HN2 NMF sing 253 n n O3 HO3 NMF sing 254 n n C4 H4 NMF sing 255 n n C4 H4A NMF sing 256 n n C4 H4B NMF sing 257 n n C6 H6 NMF sing 258 n n C6 H6A NMF sing 259 n n C6 H6B NMF sing 260 n n C11 H11 NMF sing 261 n n C11 H11A NMF sing 262 n n C12 H12 NMF sing 263 n n C13 H13 NMF sing 264 n n C13 H13A NMF sing 265 n n C14 H14 NMF sing 266 n n C14 H14A NMF sing 267 n n # _atom_sites.entry_id 3RDP _atom_sites.fract_transf_matrix[1][1] 0.008758 _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] 0.008454 _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] 0.009185 _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 C 2 SO4 A 1 1 1 SO4 SO4 . D 3 NMF A 1 601 601 NMF NMF . E 2 SO4 B 1 2 2 SO4 SO4 . F 2 SO4 B 1 3 3 SO4 SO4 . G 3 NMF B 1 601 601 NMF NMF . H 4 HOH A 1 21 21 HOH HOH . H 4 HOH A 2 37 37 HOH HOH . H 4 HOH A 3 38 38 HOH HOH . H 4 HOH A 4 39 39 HOH HOH . H 4 HOH A 5 40 40 HOH HOH . H 4 HOH A 6 41 41 HOH HOH . H 4 HOH A 7 42 42 HOH HOH . H 4 HOH A 8 43 43 HOH HOH . H 4 HOH A 9 44 44 HOH HOH . H 4 HOH A 10 45 45 HOH HOH . H 4 HOH A 11 377 46 HOH HOH . H 4 HOH A 12 378 47 HOH HOH . H 4 HOH A 13 379 48 HOH HOH . H 4 HOH A 14 380 49 HOH HOH . H 4 HOH A 15 381 51 HOH HOH . H 4 HOH A 16 382 52 HOH HOH . H 4 HOH A 17 383 53 HOH HOH . H 4 HOH A 18 384 54 HOH HOH . H 4 HOH A 19 385 55 HOH HOH . H 4 HOH A 20 386 56 HOH HOH . H 4 HOH A 21 387 57 HOH HOH . H 4 HOH A 22 388 58 HOH HOH . H 4 HOH A 23 389 59 HOH HOH . H 4 HOH A 24 390 60 HOH HOH . H 4 HOH A 25 391 61 HOH HOH . H 4 HOH A 26 392 62 HOH HOH . H 4 HOH A 27 393 63 HOH HOH . H 4 HOH A 28 394 64 HOH HOH . H 4 HOH A 29 395 65 HOH HOH . H 4 HOH A 30 396 66 HOH HOH . H 4 HOH A 31 397 67 HOH HOH . H 4 HOH A 32 398 68 HOH HOH . H 4 HOH A 33 399 75 HOH HOH . H 4 HOH A 34 400 76 HOH HOH . H 4 HOH A 35 401 77 HOH HOH . H 4 HOH A 36 402 78 HOH HOH . H 4 HOH A 37 403 79 HOH HOH . I 4 HOH B 1 1 1 HOH HOH . I 4 HOH B 2 4 4 HOH HOH . I 4 HOH B 3 5 5 HOH HOH . I 4 HOH B 4 6 6 HOH HOH . I 4 HOH B 5 7 7 HOH HOH . I 4 HOH B 6 8 8 HOH HOH . I 4 HOH B 7 9 9 HOH HOH . I 4 HOH B 8 10 10 HOH HOH . I 4 HOH B 9 11 11 HOH HOH . I 4 HOH B 10 12 12 HOH HOH . I 4 HOH B 11 13 13 HOH HOH . I 4 HOH B 12 14 14 HOH HOH . I 4 HOH B 13 15 15 HOH HOH . I 4 HOH B 14 16 16 HOH HOH . I 4 HOH B 15 17 17 HOH HOH . I 4 HOH B 16 18 18 HOH HOH . I 4 HOH B 17 19 19 HOH HOH . I 4 HOH B 18 20 20 HOH HOH . I 4 HOH B 19 22 22 HOH HOH . I 4 HOH B 20 23 23 HOH HOH . I 4 HOH B 21 24 24 HOH HOH . I 4 HOH B 22 25 25 HOH HOH . I 4 HOH B 23 26 26 HOH HOH . I 4 HOH B 24 27 27 HOH HOH . I 4 HOH B 25 28 28 HOH HOH . I 4 HOH B 26 29 29 HOH HOH . I 4 HOH B 27 30 30 HOH HOH . I 4 HOH B 28 31 31 HOH HOH . I 4 HOH B 29 32 32 HOH HOH . I 4 HOH B 30 33 33 HOH HOH . I 4 HOH B 31 34 34 HOH HOH . I 4 HOH B 32 35 35 HOH HOH . I 4 HOH B 33 36 36 HOH HOH . I 4 HOH B 34 377 2 HOH HOH . I 4 HOH B 35 378 3 HOH HOH . I 4 HOH B 36 379 50 HOH HOH . I 4 HOH B 37 380 69 HOH HOH . I 4 HOH B 38 381 70 HOH HOH . I 4 HOH B 39 382 71 HOH HOH . I 4 HOH B 40 383 72 HOH HOH . I 4 HOH B 41 384 73 HOH HOH . I 4 HOH B 42 385 74 HOH HOH . I 4 HOH B 43 386 80 HOH HOH . I 4 HOH B 44 387 81 HOH HOH . # 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 F F NMF . . . D 3 50.278 25.116 53.877 1 39.21 ? F NMF 601 A 1 HETATM 2 C C1 NMF . . . D 3 45.817 26.288 55.325 1 39.21 ? C1 NMF 601 A 1 HETATM 3 N N1 NMF . . . D 3 46.945 25.368 55.201 1 39.21 ? N1 NMF 601 A 1 HETATM 4 O O1 NMF . . . D 3 45.881 27.209 56.131 1 39.21 ? O1 NMF 601 A 1 HETATM 5 C C2 NMF . . . D 3 44.714 25.044 53.689 1 39.21 ? C2 NMF 601 A 1 HETATM 6 N N2 NMF . . . D 3 44.687 26.08 54.522 1 39.21 ? N2 NMF 601 A 1 HETATM 7 O O2 NMF . . . D 3 43.623 24.844 52.924 1 39.21 ? O2 NMF 601 A 1 HETATM 8 C C3 NMF . . . D 3 45.787 24.11 53.524 1 39.21 ? C3 NMF 601 A 1 HETATM 9 O O3 NMF . . . D 3 50.322 22.015 51.63 1 39.21 ? O3 NMF 601 A 1 HETATM 10 C C4 NMF . . . D 3 45.602 23.015 52.537 1 39.21 ? C4 NMF 601 A 1 HETATM 11 C C5 NMF . . . D 3 46.914 24.298 54.308 1 39.21 ? C5 NMF 601 A 1 HETATM 12 C C6 NMF . . . D 3 48.098 25.632 56.075 1 39.21 ? C6 NMF 601 A 1 HETATM 13 C C11 NMF . . . D 3 48.08 23.338 54.167 1 39.21 ? C11 NMF 601 A 1 HETATM 14 C C12 NMF . . . D 3 48.92 23.446 52.881 1 39.21 ? C12 NMF 601 A 1 HETATM 15 C C13 NMF . . . D 3 50.092 22.431 52.946 1 39.21 ? C13 NMF 601 A 1 HETATM 16 C C14 NMF . . . D 3 49.586 24.827 52.76 1 39.21 ? C14 NMF 601 A 1 # _model_server_stats.io_time_ms 45 _model_server_stats.parse_time_ms 20 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 254 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 16 #