data_5OP6 # _model_server_result.job_id 3QLUPVE3jgouXRn3u2AvTQ _model_server_result.datetime_utc '2024-11-24 04:06:37' _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 5op6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":404}' # _entry.id 5OP6 # _exptl.entry_id 5OP6 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 393.434 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '2-[[1,3-dicyclohexyl-4-oxidanyl-2,6-bis(oxidanylidene)pyrimidin-5-yl]carbonylamino]ethanoic 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 5OP6 _cell.length_a 86.21 _cell.length_b 86.21 _cell.length_c 147.07 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5OP6 _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 41 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 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 201 A HIS 199 1_555 B ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? metalc ? metalc2 A OD2 ASP 203 A ASP 201 1_555 B ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.992 ? metalc ? metalc3 A NE2 HIS 281 A HIS 279 1_555 B ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? metalc ? metalc4 B ZN ZN . A ZN 401 1_555 E O19 A0W . A A0W 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? metalc ? metalc5 B ZN ZN . A ZN 401 1_555 E O11 A0W . A A0W 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.207 ? # _chem_comp.formula 'C19 H27 N3 O6' _chem_comp.formula_weight 393.434 _chem_comp.id A0W _chem_comp.mon_nstd_flag . _chem_comp.name '2-[[1,3-dicyclohexyl-4-oxidanyl-2,6-bis(oxidanylidene)pyrimidin-5-yl]carbonylamino]ethanoic 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 O17 C16 A0W doub 1 n n C16 C15 A0W sing 2 n n C16 O18 A0W sing 3 n n C15 N14 A0W sing 4 n n O19 C13 A0W doub 5 n n N14 C13 A0W sing 6 n n C13 C12 A0W sing 7 n n O11 C10 A0W sing 8 n n C12 C10 A0W doub 9 n n C12 C20 A0W sing 10 n n O28 C20 A0W doub 11 n n C10 N03 A0W sing 12 n n C20 N21 A0W sing 13 n n N03 C04 A0W sing 14 n n N03 C02 A0W sing 15 n n C05 C04 A0W sing 16 n n C05 C06 A0W sing 17 n n N21 C02 A0W sing 18 n n N21 C22 A0W sing 19 n n C09 C04 A0W sing 20 n n C09 C08 A0W sing 21 n n C02 O01 A0W doub 22 n n C06 C07 A0W sing 23 n n C07 C08 A0W sing 24 n n C22 C23 A0W sing 25 n n C22 C27 A0W sing 26 n n C23 C24 A0W sing 27 n n C27 C26 A0W sing 28 n n C24 C25 A0W sing 29 n n C26 C25 A0W sing 30 n n C04 H041 A0W sing 31 n n C05 H052 A0W sing 32 n n C05 H051 A0W sing 33 n n C06 H061 A0W sing 34 n n C06 H062 A0W sing 35 n n C07 H072 A0W sing 36 n n C07 H071 A0W sing 37 n n C08 H081 A0W sing 38 n n C08 H082 A0W sing 39 n n C09 H092 A0W sing 40 n n C09 H091 A0W sing 41 n n O11 H111 A0W sing 42 n n N14 H141 A0W sing 43 n n C15 H151 A0W sing 44 n n C15 H152 A0W sing 45 n n O18 H1 A0W sing 46 n n C22 H221 A0W sing 47 n n C23 H232 A0W sing 48 n n C23 H231 A0W sing 49 n n C24 H241 A0W sing 50 n n C24 H242 A0W sing 51 n n C25 H251 A0W sing 52 n n C25 H252 A0W sing 53 n n C26 H262 A0W sing 54 n n C26 H261 A0W sing 55 n n C27 H272 A0W sing 56 n n C27 H271 A0W sing 57 n n # _atom_sites.entry_id 5OP6 _atom_sites.fract_transf_matrix[1][1] 0.0116 _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] 0.0116 _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] 0.006799 _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 ZN A 1 401 1 ZN ZN . C 3 SO4 A 1 402 1 SO4 SO4 . D 3 SO4 A 1 403 1 SO4 SO4 . E 4 A0W A 1 404 1 A0W PNH . F 5 GOL A 1 405 1 GOL GOL . G 6 HOH A 1 501 137 HOH HOH . G 6 HOH A 2 502 11 HOH HOH . G 6 HOH A 3 503 79 HOH HOH . G 6 HOH A 4 504 125 HOH HOH . G 6 HOH A 5 505 9 HOH HOH . G 6 HOH A 6 506 105 HOH HOH . G 6 HOH A 7 507 15 HOH HOH . G 6 HOH A 8 508 138 HOH HOH . G 6 HOH A 9 509 129 HOH HOH . G 6 HOH A 10 510 141 HOH HOH . G 6 HOH A 11 511 139 HOH HOH . G 6 HOH A 12 512 136 HOH HOH . G 6 HOH A 13 513 140 HOH HOH . G 6 HOH A 14 514 68 HOH HOH . G 6 HOH A 15 515 51 HOH HOH . G 6 HOH A 16 516 1 HOH HOH . G 6 HOH A 17 517 3 HOH HOH . G 6 HOH A 18 518 5 HOH HOH . G 6 HOH A 19 519 99 HOH HOH . G 6 HOH A 20 520 98 HOH HOH . G 6 HOH A 21 521 130 HOH HOH . G 6 HOH A 22 522 134 HOH HOH . G 6 HOH A 23 523 102 HOH HOH . G 6 HOH A 24 524 142 HOH HOH . G 6 HOH A 25 525 39 HOH HOH . G 6 HOH A 26 526 2 HOH HOH . G 6 HOH A 27 527 4 HOH HOH . G 6 HOH A 28 528 8 HOH HOH . G 6 HOH A 29 529 120 HOH HOH . G 6 HOH A 30 530 144 HOH HOH . G 6 HOH A 31 531 131 HOH HOH . G 6 HOH A 32 532 7 HOH HOH . G 6 HOH A 33 533 14 HOH HOH . G 6 HOH A 34 534 62 HOH HOH . G 6 HOH A 35 535 145 HOH HOH . G 6 HOH A 36 536 26 HOH HOH . G 6 HOH A 37 537 116 HOH HOH . G 6 HOH A 38 538 115 HOH HOH . G 6 HOH A 39 539 67 HOH HOH . G 6 HOH A 40 540 44 HOH HOH . G 6 HOH A 41 541 25 HOH HOH . G 6 HOH A 42 542 143 HOH HOH . G 6 HOH A 43 543 124 HOH HOH . G 6 HOH A 44 544 146 HOH HOH . G 6 HOH A 45 545 132 HOH HOH . G 6 HOH A 46 546 147 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 O O01 A0W . . . E 4 -15.846 21.434 -1.136 1 64.99 ? O01 A0W 404 A 1 HETATM 2 C C02 A0W . . . E 4 -16.079 21.514 -2.316 1 67.95 ? C02 A0W 404 A 1 HETATM 3 N N03 A0W . . . E 4 -15.834 20.353 -3.174 1 68.04 ? N03 A0W 404 A 1 HETATM 4 C C04 A0W . . . E 4 -15.311 19.158 -2.495 1 73.57 ? C04 A0W 404 A 1 HETATM 5 C C05 A0W . . . E 4 -16.04 17.973 -3.088 1 74.02 ? C05 A0W 404 A 1 HETATM 6 C C06 A0W . . . E 4 -15.683 16.718 -2.3 1 73.94 ? C06 A0W 404 A 1 HETATM 7 C C07 A0W . . . E 4 -14.19 16.502 -2.198 1 76.42 ? C07 A0W 404 A 1 HETATM 8 C C08 A0W . . . E 4 -13.419 17.747 -1.774 1 74.96 ? C08 A0W 404 A 1 HETATM 9 C C09 A0W . . . E 4 -13.821 18.974 -2.576 1 71.42 ? C09 A0W 404 A 1 HETATM 10 C C10 A0W . . . E 4 -16.103 20.422 -4.576 1 66.88 ? C10 A0W 404 A 1 HETATM 11 O O11 A0W . . . E 4 -15.879 19.332 -5.421 1 67.02 ? O11 A0W 404 A 1 HETATM 12 C C12 A0W . . . E 4 -16.633 21.695 -5.128 1 64.9 ? C12 A0W 404 A 1 HETATM 13 C C13 A0W . . . E 4 -16.943 21.88 -6.623 1 58.93 ? C13 A0W 404 A 1 HETATM 14 N N14 A0W . . . E 4 -17.308 23.2 -7.05 1 56.07 ? N14 A0W 404 A 1 HETATM 15 C C15 A0W . . . E 4 -17.613 23.494 -8.431 1 53.66 ? C15 A0W 404 A 1 HETATM 16 C C16 A0W . . . E 4 -17.948 24.994 -8.533 1 51.42 ? C16 A0W 404 A 1 HETATM 17 O O17 A0W . . . E 4 -18.572 25.446 -9.541 1 56.78 ? O17 A0W 404 A 1 HETATM 18 O O18 A0W . . . E 4 -17.608 25.777 -7.603 1 45.08 ? O18 A0W 404 A 1 HETATM 19 O O19 A0W . . . E 4 -16.871 20.957 -7.405 1 55.06 ? O19 A0W 404 A 1 HETATM 20 C C20 A0W . . . E 4 -16.868 22.856 -4.254 1 67.34 ? C20 A0W 404 A 1 HETATM 21 N N21 A0W . . . E 4 -16.599 22.768 -2.865 1 70.76 ? N21 A0W 404 A 1 HETATM 22 C C22 A0W . . . E 4 -16.823 23.899 -1.99 1 75.56 ? C22 A0W 404 A 1 HETATM 23 C C23 A0W . . . E 4 -15.415 24.287 -1.605 1 75.64 ? C23 A0W 404 A 1 HETATM 24 C C24 A0W . . . E 4 -15.386 25.411 -0.589 1 77.61 ? C24 A0W 404 A 1 HETATM 25 C C25 A0W . . . E 4 -16.245 25.11 0.61 1 77.56 ? C25 A0W 404 A 1 HETATM 26 C C26 A0W . . . E 4 -17.651 24.727 0.215 1 78.23 ? C26 A0W 404 A 1 HETATM 27 C C27 A0W . . . E 4 -17.667 23.589 -0.785 1 76.31 ? C27 A0W 404 A 1 HETATM 28 O O28 A0W . . . E 4 -17.297 23.882 -4.726 1 67.01 ? O28 A0W 404 A 1 HETATM 29 H H041 A0W . . . E 4 -15.554 19.219 -1.549 1 88.28 ? H041 A0W 404 A 1 HETATM 30 H H052 A0W . . . E 4 -15.774 17.86 -4.019 1 88.83 ? H052 A0W 404 A 1 HETATM 31 H H051 A0W . . . E 4 -17.006 18.126 -3.04 1 88.83 ? H051 A0W 404 A 1 HETATM 32 H H061 A0W . . . E 4 -16.084 15.944 -2.741 1 88.73 ? H061 A0W 404 A 1 HETATM 33 H H062 A0W . . . E 4 -16.054 16.796 -1.395 1 88.73 ? H062 A0W 404 A 1 HETATM 34 H H072 A0W . . . E 4 -13.856 16.211 -3.071 1 91.71 ? H072 A0W 404 A 1 HETATM 35 H H071 A0W . . . E 4 -14.021 15.793 -1.547 1 91.71 ? H071 A0W 404 A 1 HETATM 36 H H081 A0W . . . E 4 -13.592 17.918 -0.824 1 89.95 ? H081 A0W 404 A 1 HETATM 37 H H082 A0W . . . E 4 -12.467 17.586 -1.897 1 89.95 ? H082 A0W 404 A 1 HETATM 38 H H092 A0W . . . E 4 -13.374 19.764 -2.21 1 85.71 ? H092 A0W 404 A 1 HETATM 39 H H091 A0W . . . E 4 -13.56 18.854 -3.506 1 85.71 ? H091 A0W 404 A 1 HETATM 40 H H111 A0W . . . E 4 -16.565 19.249 -5.987 1 80.43 ? H111 A0W 404 A 1 HETATM 41 H H141 A0W . . . E 4 -17.347 23.868 -6.436 1 67.28 ? H141 A0W 404 A 1 HETATM 42 H H151 A0W . . . E 4 -16.833 23.288 -8.996 1 64.39 ? H151 A0W 404 A 1 HETATM 43 H H152 A0W . . . E 4 -18.388 22.959 -8.724 1 64.39 ? H152 A0W 404 A 1 HETATM 44 H H221 A0W . . . E 4 -17.235 24.628 -2.498 1 90.67 ? H221 A0W 404 A 1 HETATM 45 H H232 A0W . . . E 4 -14.934 24.574 -2.41 1 90.77 ? H232 A0W 404 A 1 HETATM 46 H H231 A0W . . . E 4 -14.964 23.506 -1.226 1 90.77 ? H231 A0W 404 A 1 HETATM 47 H H241 A0W . . . E 4 -15.71 26.236 -1.016 1 93.13 ? H241 A0W 404 A 1 HETATM 48 H H242 A0W . . . E 4 -14.459 25.548 -0.291 1 93.13 ? H242 A0W 404 A 1 HETATM 49 H H251 A0W . . . E 4 -16.282 25.911 1.188 1 93.07 ? H251 A0W 404 A 1 HETATM 50 H H252 A0W . . . E 4 -15.847 24.38 1.109 1 93.07 ? H252 A0W 404 A 1 HETATM 51 H H262 A0W . . . E 4 -18.148 24.451 1.023 1 93.87 ? H262 A0W 404 A 1 HETATM 52 H H261 A0W . . . E 4 -18.09 25.5 -0.18 1 93.87 ? H261 A0W 404 A 1 HETATM 53 H H272 A0W . . . E 4 -17.323 22.779 -0.353 1 91.58 ? H272 A0W 404 A 1 HETATM 54 H H271 A0W . . . E 4 -18.587 23.431 -1.072 1 91.58 ? H271 A0W 404 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 37 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 328 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 54 #