data_7N8F # _model_server_result.job_id 6ohmGNy2tjel7fNInQJ55g _model_server_result.datetime_utc '2024-11-25 23:34:14' _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 7n8f # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":204}' # _entry.id 7N8F # _exptl.entry_id 7N8F _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 481.501 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'benzyl [2-(5-hydroxy-4-{[2-(2-methoxypyridin-4-yl)ethyl]carbamoyl}-6-oxo-1,6-dihydropyrimidin-2-yl)propan-2-yl]carbamate' _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 7N8F _cell.length_a 89.887 _cell.length_b 89.887 _cell.length_c 133.89 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7N8F _symmetry.cell_setting ? _symmetry.Int_Tables_number 97 _symmetry.space_group_name_Hall 'I 4 2' _symmetry.space_group_name_H-M 'I 4 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details octameric _pdbx_struct_assembly.oligomeric_count 8 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4,5,6,7,8 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_665 -x+1,-y+1,z -1 0 0 0 -1 0 0 0 1 89.887 89.887 0 3 'crystal symmetry operation' 3_655 -y+1,x,z 0 -1 0 1 0 0 0 0 1 89.887 0 0 4 'crystal symmetry operation' 4_565 y,-x+1,z 0 1 0 -1 0 0 0 0 1 0 89.887 0 5 'crystal symmetry operation' 5_655 -x+1,y,-z -1 0 0 0 1 0 0 0 -1 89.887 0 0 6 'crystal symmetry operation' 6_565 x,-y+1,-z 1 0 0 0 -1 0 0 0 -1 0 89.887 0 7 'crystal symmetry operation' 7_555 y,x,-z 0 1 0 1 0 0 0 0 -1 0 0 0 8 'crystal symmetry operation' 8_665 -y+1,-x+1,-z 0 -1 0 -1 0 0 0 0 -1 89.887 89.887 0 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id E _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 metalc ? metalc1 A NE2 HIS 61 A HIS 41 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.16 ? metalc ? metalc2 A OE2 GLU 81 A GLU 80 1_555 C MN MN . A MN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.464 ? metalc ? metalc3 A OD2 ASP 109 A ASP 108 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.195 ? metalc ? metalc4 A OD1 ASP 109 A ASP 108 1_555 C MN MN . A MN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.187 ? metalc ? metalc5 A OE2 GLU 120 A GLU 119 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.529 ? metalc ? metalc6 A O ILE 121 A ILE 120 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.092 ? metalc ? metalc7 B MN MN . A MN 201 1_555 E O03 R3J . A R3J 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.27 ? metalc ? metalc8 B MN MN . A MN 201 1_555 E O04 R3J . A R3J 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.133 ? metalc ? metalc9 C MN MN . A MN 202 1_555 E O02 R3J . A R3J 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.58 ? metalc ? metalc10 C MN MN . A MN 202 1_555 E O03 R3J . A R3J 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.36 ? metalc ? metalc11 C MN MN . A MN 202 1_555 H O HOH . A HOH 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? metalc ? metalc12 C MN MN . A MN 202 1_555 H O HOH . A HOH 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.178 ? # _chem_comp.formula 'C24 H27 N5 O6' _chem_comp.formula_weight 481.501 _chem_comp.id R3J _chem_comp.mon_nstd_flag . _chem_comp.name 'benzyl [2-(5-hydroxy-4-{[2-(2-methoxypyridin-4-yl)ethyl]carbamoyl}-6-oxo-1,6-dihydropyrimidin-2-yl)propan-2-yl]carbamate' _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 C01 O01 R3J sing 386 n n O01 C22 R3J sing 387 n n N01 C22 R3J doub 388 n y N01 C02 R3J sing 389 n y C22 C21 R3J sing 390 n y C02 C03 R3J doub 391 n y C21 C04 R3J doub 392 n y C03 C04 R3J sing 393 n y C04 C05 R3J sing 394 n n C24 C12 R3J sing 395 n n C05 C06 R3J sing 396 n n C06 N02 R3J sing 397 n n C23 C12 R3J sing 398 n n N02 C07 R3J sing 399 n n C12 C11 R3J sing 400 n n C12 N05 R3J sing 401 n n N04 C11 R3J doub 402 n n N04 C08 R3J sing 403 n n C07 O02 R3J doub 404 n n C07 C08 R3J sing 405 n n C11 N03 R3J sing 406 n n C08 C09 R3J doub 407 n n N03 C10 R3J sing 408 n n C09 C10 R3J sing 409 n n C09 O03 R3J sing 410 n n C10 O04 R3J doub 411 n n C21 H1 R3J sing 412 n n C23 H2 R3J sing 413 n n C23 H3 R3J sing 414 n n C23 H4 R3J sing 415 n n C24 H5 R3J sing 416 n n C24 H6 R3J sing 417 n n C24 H7 R3J sing 418 n n C01 H8 R3J sing 419 n n C01 H9 R3J sing 420 n n C01 H10 R3J sing 421 n n C02 H11 R3J sing 422 n n C03 H12 R3J sing 423 n n C05 H13 R3J sing 424 n n C05 H14 R3J sing 425 n n C06 H15 R3J sing 426 n n C06 H16 R3J sing 427 n n N02 H17 R3J sing 428 n n O03 H18 R3J sing 429 n n N03 H19 R3J sing 430 n n N05 H20 R3J sing 431 n n N05 C25 R3J sing 432 n n C25 O26 R3J sing 433 n n C25 O25 R3J doub 434 n n O26 C26 R3J sing 435 n n C26 C27 R3J sing 436 n n C27 C28 R3J sing 437 n y C28 C29 R3J doub 438 n y C29 C30 R3J sing 439 n y C30 C31 R3J doub 440 n y C31 C32 R3J sing 441 n y C32 C27 R3J doub 442 n y C26 H21 R3J sing 443 n n C26 H22 R3J sing 444 n n C28 H23 R3J sing 445 n n C29 H24 R3J sing 446 n n C30 H25 R3J sing 447 n n C31 H26 R3J sing 448 n n C32 H27 R3J sing 449 n n # _atom_sites.entry_id 7N8F _atom_sites.fract_transf_matrix[1][1] 0.011125 _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] 0.011125 _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] 0.007469 _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 B 2 MN A 1 201 201 MN MN . C 2 MN A 1 202 202 MN MN . D 3 QQ4 A 1 203 401 QQ4 PVP . E 4 R3J A 1 204 402 R3J 288 . F 5 SO4 A 1 205 1 SO4 SO4 . G 5 SO4 A 1 206 2 SO4 SO4 . H 6 HOH A 1 301 5 HOH HOH . H 6 HOH A 2 302 13 HOH HOH . H 6 HOH A 3 303 8 HOH HOH . H 6 HOH A 4 304 1 HOH HOH . H 6 HOH A 5 305 9 HOH HOH . H 6 HOH A 6 306 3 HOH HOH . H 6 HOH A 7 307 2 HOH HOH . H 6 HOH A 8 308 11 HOH HOH . H 6 HOH A 9 309 4 HOH HOH . H 6 HOH A 10 310 12 HOH HOH . H 6 HOH A 11 311 6 HOH HOH . H 6 HOH A 12 312 10 HOH HOH . H 6 HOH A 13 313 7 HOH HOH . H 6 HOH A 14 314 15 HOH HOH . H 6 HOH A 15 315 14 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 C C10 R3J . . . E 4 38.815 15.734 17.741 1 69.91 ? C10 R3J 204 A 1 HETATM 2 C C11 R3J . . . E 4 38.286 14.942 15.611 1 89.98 ? C11 R3J 204 A 1 HETATM 3 C C12 R3J . . . E 4 37.229 14.556 14.518 1 85.63 ? C12 R3J 204 A 1 HETATM 4 C C21 R3J . . . E 4 41.663 12.983 12.17 1 94.2 ? C21 R3J 204 A 1 HETATM 5 C C22 R3J . . . E 4 40.916 11.896 11.709 1 92.21 ? C22 R3J 204 A 1 HETATM 6 C C23 R3J . . . E 4 36.308 15.8 14.247 1 76.26 ? C23 R3J 204 A 1 HETATM 7 C C24 R3J . . . E 4 37.964 14.199 13.235 1 100.72 ? C24 R3J 204 A 1 HETATM 8 N N01 R3J . . . E 4 40.059 12.055 10.672 1 112.7 ? N01 R3J 204 A 1 HETATM 9 C C02 R3J . . . E 4 39.921 13.265 10.077 1 96.3 ? C02 R3J 204 A 1 HETATM 10 C C03 R3J . . . E 4 40.666 14.361 10.532 1 84.51 ? C03 R3J 204 A 1 HETATM 11 C C04 R3J . . . E 4 41.527 14.204 11.574 1 96.59 ? C04 R3J 204 A 1 HETATM 12 C C05 R3J . . . E 4 42.355 15.415 12.08 1 98.86 ? C05 R3J 204 A 1 HETATM 13 C C06 R3J . . . E 4 41.791 15.923 13.441 1 103.7 ? C06 R3J 204 A 1 HETATM 14 N N02 R3J . . . E 4 42.611 15.366 14.575 1 93.84 ? N02 R3J 204 A 1 HETATM 15 C C07 R3J . . . E 4 42.037 14.992 15.88 1 67.94 ? C07 R3J 204 A 1 HETATM 16 O O02 R3J . . . E 4 42.758 14.564 16.712 1 95.34 ? O02 R3J 204 A 1 HETATM 17 C C08 R3J . . . E 4 40.514 15.141 16.209 1 88.73 ? C08 R3J 204 A 1 HETATM 18 C C09 R3J . . . E 4 40.124 15.607 17.45 1 63.46 ? C09 R3J 204 A 1 HETATM 19 O O03 R3J . . . E 4 41.112 15.96 18.435 1 84.04 ? O03 R3J 204 A 1 HETATM 20 O O04 R3J . . . E 4 38.485 16.139 18.811 1 59.92 ? O04 R3J 204 A 1 HETATM 21 N N03 R3J . . . E 4 37.898 15.411 16.843 1 78.14 ? N03 R3J 204 A 1 HETATM 22 N N04 R3J . . . E 4 39.596 14.816 15.323 1 95.93 ? N04 R3J 204 A 1 HETATM 23 N N05 R3J . . . E 4 36.386 13.392 14.931 1 101.38 ? N05 R3J 204 A 1 HETATM 24 C C25 R3J . . . E 4 35.632 13.397 16.21 1 114.55 ? C25 R3J 204 A 1 HETATM 25 O O26 R3J . . . E 4 36.3 13.108 17.433 1 130.3 ? O26 R3J 204 A 1 HETATM 26 O O25 R3J . . . E 4 34.491 13.638 16.209 1 118.26 ? O25 R3J 204 A 1 HETATM 27 C C26 R3J . . . E 4 36.718 11.737 17.567 1 117.23 ? C26 R3J 204 A 1 HETATM 28 C C27 R3J . . . E 4 38.208 11.584 17.046 1 100.98 ? C27 R3J 204 A 1 HETATM 29 C C28 R3J . . . E 4 38.45 11.134 15.778 1 108.63 ? C28 R3J 204 A 1 HETATM 30 C C29 R3J . . . E 4 39.764 11.001 15.32 1 114.31 ? C29 R3J 204 A 1 HETATM 31 C C30 R3J . . . E 4 40.83 11.327 16.158 1 109.58 ? C30 R3J 204 A 1 HETATM 32 C C31 R3J . . . E 4 40.585 11.78 17.435 1 113.37 ? C31 R3J 204 A 1 HETATM 33 C C32 R3J . . . E 4 39.277 11.911 17.885 1 110.39 ? C32 R3J 204 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 23 _model_server_stats.query_time_ms 301 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 33 #