data_5M7U # _model_server_result.job_id q_7dkC9uEBiTTu6GpA3O-A _model_server_result.datetime_utc '2024-10-10 23:32:44' _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 5m7u # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":1001}' # _entry.id 5M7U # _exptl.entry_id 5M7U _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 390.397 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-[(2~{R},3~{S},4~{R},5~{R})-5-(hydroxymethyl)-3,4-bis(oxidanyl)-1-[3-[3-(trifluoromethyl)phenyl]propyl]pyrrolidin-2-yl]-~{N}-methyl-ethanamide _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 5M7U _cell.length_a 101.23 _cell.length_b 101.23 _cell.length_c 284.673 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5M7U _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 21 2' # _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 _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 ? 2 C N N ? 2 D N N # _struct_conn.conn_type_id disulf _struct_conn.details ? _struct_conn.id disulf1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 663 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 663 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id SG _struct_conn.ptnr2_label_comp_id CYS _struct_conn.ptnr2_label_seq_id 663 _struct_conn.ptnr2_auth_asym_id B _struct_conn.ptnr2_auth_comp_id CYS _struct_conn.ptnr2_auth_seq_id 663 _struct_conn.ptnr2_symmetry 6_555 _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 2.53 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C18 H25 F3 N2 O4' _chem_comp.formula_weight 390.397 _chem_comp.id XHA _chem_comp.mon_nstd_flag . _chem_comp.name 2-[(2~{R},3~{S},4~{R},5~{R})-5-(hydroxymethyl)-3,4-bis(oxidanyl)-1-[3-[3-(trifluoromethyl)phenyl]propyl]pyrrolidin-2-yl]-~{N}-methyl-ethanamide _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 F1 C17 XHA sing 376 n n F2 C17 XHA sing 377 n n C17 F3 XHA sing 378 n n C17 C16 XHA sing 379 n n C15 C16 XHA doub 380 n y C15 C14 XHA sing 381 n y C16 C18 XHA sing 382 n y C14 C13 XHA doub 383 n y C18 C12 XHA doub 384 n y C13 C12 XHA sing 385 n y C12 C11 XHA sing 386 n n C11 C10 XHA sing 387 n n C10 C9 XHA sing 388 n n C4 C5 XHA sing 389 n n C4 C3 XHA sing 390 n n C4 N2 XHA sing 391 n n C5 C6 XHA sing 392 n n C5 O2 XHA sing 393 n n C9 N2 XHA sing 394 n n C3 C2 XHA sing 395 n n C6 O3 XHA sing 396 n n C6 C7 XHA sing 397 n n O4 C8 XHA sing 398 n n N2 C7 XHA sing 399 n n C7 C8 XHA sing 400 n n C2 N1 XHA sing 401 n n C2 O1 XHA doub 402 n n N1 C1 XHA sing 403 n n C4 H1 XHA sing 404 n n C14 H2 XHA sing 405 n n C5 H3 XHA sing 406 n n C6 H4 XHA sing 407 n n C11 H5 XHA sing 408 n n C11 H6 XHA sing 409 n n C7 H7 XHA sing 410 n n C8 H8 XHA sing 411 n n C8 H9 XHA sing 412 n n C9 H10 XHA sing 413 n n C9 H11 XHA sing 414 n n C10 H12 XHA sing 415 n n C10 H13 XHA sing 416 n n C13 H14 XHA sing 417 n n N1 H15 XHA sing 418 n n C3 H17 XHA sing 419 n n C3 H18 XHA sing 420 n n C1 H19 XHA sing 421 n n C1 H20 XHA sing 422 n n C1 H21 XHA sing 423 n n O2 H22 XHA sing 424 n n O3 H23 XHA sing 425 n n O4 H24 XHA sing 426 n n C15 H25 XHA sing 427 n n C18 H26 XHA sing 428 n n # _atom_sites.entry_id 5M7U _atom_sites.fract_transf_matrix[1][1] 0.009878 _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] 0.009878 _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] 0.003513 _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 XHA A 1 1001 1 XHA DRG . D 2 XHA B 1 1001 2 XHA DRG . E 3 HOH A 1 1101 41 HOH HOH . E 3 HOH A 2 1102 1 HOH HOH . E 3 HOH A 3 1103 209 HOH HOH . E 3 HOH A 4 1104 45 HOH HOH . E 3 HOH A 5 1105 20 HOH HOH . E 3 HOH A 6 1106 1 HOH HOH . E 3 HOH A 7 1107 210 HOH HOH . E 3 HOH A 8 1108 22 HOH HOH . E 3 HOH A 9 1109 27 HOH HOH . E 3 HOH A 10 1110 31 HOH HOH . E 3 HOH A 11 1111 19 HOH HOH . E 3 HOH A 12 1112 70 HOH HOH . E 3 HOH A 13 1113 21 HOH HOH . E 3 HOH A 14 1114 30 HOH HOH . E 3 HOH A 15 1115 73 HOH HOH . E 3 HOH A 16 1116 16 HOH HOH . E 3 HOH A 17 1117 71 HOH HOH . E 3 HOH A 18 1118 3 HOH HOH . F 3 HOH B 1 1101 47 HOH HOH . F 3 HOH B 2 1102 2 HOH HOH . F 3 HOH B 3 1103 212 HOH HOH . F 3 HOH B 4 1104 69 HOH HOH . F 3 HOH B 5 1105 208 HOH HOH . F 3 HOH B 6 1106 1 HOH HOH . F 3 HOH B 7 1107 40 HOH HOH . F 3 HOH B 8 1108 46 HOH HOH . F 3 HOH B 9 1109 32 HOH HOH . F 3 HOH B 10 1110 50 HOH HOH . F 3 HOH B 11 1111 42 HOH HOH . F 3 HOH B 12 1112 53 HOH HOH . F 3 HOH B 13 1113 205 HOH HOH . F 3 HOH B 14 1114 5 HOH HOH . F 3 HOH B 15 1115 43 HOH HOH . F 3 HOH B 16 1116 211 HOH HOH . F 3 HOH B 17 1117 64 HOH HOH . F 3 HOH B 18 1118 41 HOH HOH . F 3 HOH B 19 1119 44 HOH HOH . F 3 HOH B 20 1120 48 HOH HOH . F 3 HOH B 21 1121 213 HOH HOH . F 3 HOH B 22 1122 38 HOH HOH . F 3 HOH B 23 1123 2 HOH HOH . F 3 HOH B 24 1124 37 HOH HOH . F 3 HOH B 25 1125 22 HOH HOH . F 3 HOH B 26 1126 72 HOH HOH . F 3 HOH B 27 1127 207 HOH HOH . F 3 HOH B 28 1128 36 HOH HOH . F 3 HOH B 29 1129 69 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 C4 XHA . A . C 2 -15.995 3.197 37.309 0.2 75.18 ? C4 XHA 1001 A 1 HETATM 2 C C4 XHA . B . C 2 -16.13 3.149 37.28 0.8 57.32 ? C4 XHA 1001 A 1 HETATM 3 C C14 XHA . A . C 2 -13.637 8.074 33.154 0.2 70.09 ? C14 XHA 1001 A 1 HETATM 4 C C14 XHA . B . C 2 -15.188 7.132 33.128 0.8 71.97 ? C14 XHA 1001 A 1 HETATM 5 C C5 XHA . A . C 2 -15.146 1.92 37.4 0.2 75.22 ? C5 XHA 1001 A 1 HETATM 6 C C5 XHA . B . C 2 -15.275 1.873 37.183 0.8 55.75 ? C5 XHA 1001 A 1 HETATM 7 C C6 XHA . A . C 2 -13.78 2.442 37.866 0.2 74.38 ? C6 XHA 1001 A 1 HETATM 8 C C6 XHA . B . C 2 -13.896 2.379 37.635 0.8 53.86 ? C6 XHA 1001 A 1 HETATM 9 C C11 XHA . A . C 2 -15.881 7.287 36.115 0.2 71.2 ? C11 XHA 1001 A 1 HETATM 10 C C11 XHA . B . C 2 -15.939 7.534 36.84 0.8 65.5 ? C11 XHA 1001 A 1 HETATM 11 C C7 XHA . A . C 2 -14.176 3.501 38.893 0.2 74.33 ? C7 XHA 1001 A 1 HETATM 12 C C7 XHA . B . C 2 -14.275 3.245 38.839 0.8 54.94 ? C7 XHA 1001 A 1 HETATM 13 C C8 XHA . A . C 2 -13.058 4.477 39.232 0.2 73.65 ? C8 XHA 1001 A 1 HETATM 14 C C8 XHA . B . C 2 -13.099 4.03 39.412 0.8 51.6 ? C8 XHA 1001 A 1 HETATM 15 C C9 XHA . A . C 2 -14.983 5.423 37.587 0.2 73.7 ? C9 XHA 1001 A 1 HETATM 16 C C9 XHA . B . C 2 -15.113 5.353 37.795 0.8 62 ? C9 XHA 1001 A 1 HETATM 17 C C10 XHA . A . C 2 -15.985 5.841 36.528 0.2 72.05 ? C10 XHA 1001 A 1 HETATM 18 C C10 XHA . B . C 2 -16.308 6.148 37.301 0.8 63.62 ? C10 XHA 1001 A 1 HETATM 19 C C12 XHA . A . C 2 -15.383 7.463 34.7 0.2 71.07 ? C12 XHA 1001 A 1 HETATM 20 C C12 XHA . B . C 2 -15.247 7.607 35.498 0.8 68.42 ? C12 XHA 1001 A 1 HETATM 21 C C13 XHA . A . C 2 -14.093 7.914 34.45 0.2 70.38 ? C13 XHA 1001 A 1 HETATM 22 C C13 XHA . B . C 2 -15.825 7.059 34.358 0.8 70.9 ? C13 XHA 1001 A 1 HETATM 23 N N1 XHA . A . C 2 -18.889 2.088 39.355 0.2 76.24 ? N1 XHA 1001 A 1 HETATM 24 N N1 XHA . B . C 2 -18.993 1.893 39.258 0.8 60.08 ? N1 XHA 1001 A 1 HETATM 25 N N2 XHA . A . C 2 -15.331 4.154 38.234 0.2 74.37 ? N2 XHA 1001 A 1 HETATM 26 N N2 XHA . B . C 2 -15.439 4.003 38.294 0.8 57.07 ? N2 XHA 1001 A 1 HETATM 27 C C3 XHA . A . C 2 -17.48 2.991 37.626 0.2 75.26 ? C3 XHA 1001 A 1 HETATM 28 C C3 XHA . B . C 2 -17.627 2.933 37.567 0.8 57.02 ? C3 XHA 1001 A 1 HETATM 29 C C1 XHA . A . C 2 -19.322 1.788 40.707 0.2 75.93 ? C1 XHA 1001 A 1 HETATM 30 C C1 XHA . B . C 2 -19.532 1.643 40.584 0.8 60.35 ? C1 XHA 1001 A 1 HETATM 31 C C2 XHA . A . C 2 -17.751 2.722 39.091 0.2 75.73 ? C2 XHA 1001 A 1 HETATM 32 C C2 XHA . B . C 2 -17.974 2.721 39.028 0.8 58.68 ? C2 XHA 1001 A 1 HETATM 33 O O1 XHA . A . C 2 -16.966 3.085 39.968 0.2 75.17 ? O1 XHA 1001 A 1 HETATM 34 O O1 XHA . B . C 2 -17.362 3.31 39.925 0.8 58.24 ? O1 XHA 1001 A 1 HETATM 35 O O2 XHA . A . C 2 -15.697 0.98 38.313 0.2 74.65 ? O2 XHA 1001 A 1 HETATM 36 O O2 XHA . B . C 2 -15.758 0.816 38.002 0.8 52.13 ? O2 XHA 1001 A 1 HETATM 37 O O3 XHA . A . C 2 -12.959 1.425 38.422 0.2 74.14 ? O3 XHA 1001 A 1 HETATM 38 O O3 XHA . B . C 2 -12.989 1.349 38.001 0.8 52.3 ? O3 XHA 1001 A 1 HETATM 39 O O4 XHA . A . C 2 -12.387 4.955 38.077 0.2 72.74 ? O4 XHA 1001 A 1 HETATM 40 O O4 XHA . B . C 2 -12.312 4.658 38.413 0.8 46.56 ? O4 XHA 1001 A 1 HETATM 41 C C15 XHA . A . C 2 -14.454 7.78 32.078 0.2 70.23 ? C15 XHA 1001 A 1 HETATM 42 C C15 XHA . B . C 2 -13.964 7.772 33.011 0.8 71.74 ? C15 XHA 1001 A 1 HETATM 43 C C16 XHA . A . C 2 -15.739 7.324 32.311 0.2 69.82 ? C16 XHA 1001 A 1 HETATM 44 C C16 XHA . B . C 2 -13.375 8.329 34.137 0.8 71.61 ? C16 XHA 1001 A 1 HETATM 45 C C17 XHA . A . C 2 -16.638 7.011 31.154 0.2 70.64 ? C17 XHA 1001 A 1 HETATM 46 C C17 XHA . B . C 2 -12.051 9.031 34.021 0.8 77.29 ? C17 XHA 1001 A 1 HETATM 47 F F1 XHA . A . C 2 -16.446 7.834 30.124 0.2 69.67 ? F1 XHA 1001 A 1 HETATM 48 F F1 XHA . B . C 2 -11.953 9.776 32.911 0.8 82.24 ? F1 XHA 1001 A 1 HETATM 49 F F2 XHA . A . C 2 -16.458 5.78 30.679 0.2 71.82 ? F2 XHA 1001 A 1 HETATM 50 F F2 XHA . B . C 2 -11.811 9.856 35.031 0.8 74.92 ? F2 XHA 1001 A 1 HETATM 51 F F3 XHA . A . C 2 -17.933 7.101 31.459 0.2 68.28 ? F3 XHA 1001 A 1 HETATM 52 F F3 XHA . B . C 2 -11.014 8.198 33.998 0.8 84.05 ? F3 XHA 1001 A 1 HETATM 53 C C18 XHA . A . C 2 -16.195 7.17 33.61 0.2 70.85 ? C18 XHA 1001 A 1 HETATM 54 C C18 XHA . B . C 2 -14.014 8.24 35.366 0.8 69.49 ? C18 XHA 1001 A 1 # _model_server_stats.io_time_ms 23 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 262 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 54 #