data_5OD1 # _model_server_result.job_id Nk1l9B6050yDgRyfrPa0tg _model_server_result.datetime_utc '2024-11-12 23:18:07' _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 5od1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":102}' # _entry.id 5OD1 # _exptl.entry_id 5OD1 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 424.362 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '[2-oxidanylidene-7-[oxidanyl-[(1~{S})-1-phenylethyl]phosphoryl]oxy-chromen-4-yl]methanesulfonic 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 5OD1 _cell.length_a 32.349 _cell.length_b 46.877 _cell.length_c 112.621 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5OD1 _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 2 2 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 _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 3 _struct_asym.id C _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 ND1 HIS 37 A HIS 35 1_555 B ZN ZN . A ZN 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? metalc ? metalc2 A NE2 HIS 63 A HIS 61 1_555 B ZN ZN . A ZN 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? metalc ? metalc3 A NE2 HIS 67 A HIS 65 1_555 B ZN ZN . A ZN 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? metalc ? metalc4 B ZN ZN . A ZN 101 1_555 C O1 9RQ . A 9RQ 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.828 ? # _chem_comp.formula 'C18 H17 O8 P S' _chem_comp.formula_weight 424.362 _chem_comp.id 9RQ _chem_comp.mon_nstd_flag . _chem_comp.name '[2-oxidanylidene-7-[oxidanyl-[(1~{S})-1-phenylethyl]phosphoryl]oxy-chromen-4-yl]methanesulfonic 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 C4 C5 9RQ doub 1 n y C4 C3 9RQ sing 2 n y C14 C13 9RQ sing 3 n n C14 S1 9RQ sing 4 n n C5 C6 9RQ sing 5 n y C6 C7 9RQ doub 6 n y C11 C10 9RQ doub 7 n y C11 C12 9RQ sing 8 n y C7 C8 9RQ sing 9 n y C8 C3 9RQ doub 10 n y C9 C10 9RQ sing 11 n y C9 O2 9RQ sing 12 n n C9 C18 9RQ doub 13 n y C12 C13 9RQ sing 14 n n C12 C17 9RQ doub 15 n y C13 C15 9RQ doub 16 n n C3 C1 9RQ sing 17 n n O1 P1 9RQ sing 18 n n P1 C1 9RQ sing 19 n n P1 O2 9RQ sing 20 n n P1 O8 9RQ doub 21 n n C1 C2 9RQ sing 22 n n S1 O3 9RQ sing 23 n n S1 O4 9RQ doub 24 n n S1 O5 9RQ doub 25 n n C15 C16 9RQ sing 26 n n C16 O6 9RQ sing 27 n n C16 O7 9RQ doub 28 n n O6 C17 9RQ sing 29 n n C17 C18 9RQ sing 30 n y C4 H5 9RQ sing 31 n n C14 H12 9RQ sing 32 n n C14 H13 9RQ sing 33 n n C5 H6 9RQ sing 34 n n C6 H7 9RQ sing 35 n n C11 H11 9RQ sing 36 n n C7 H8 9RQ sing 37 n n C8 H9 9RQ sing 38 n n C10 H10 9RQ sing 39 n n O1 H17 9RQ sing 40 n n C1 H1 9RQ sing 41 n n C2 H3 9RQ sing 42 n n C2 H4 9RQ sing 43 n n C2 H2 9RQ sing 44 n n O3 H14 9RQ sing 45 n n C15 H15 9RQ sing 46 n n C18 H16 9RQ sing 47 n n # _atom_sites.entry_id 5OD1 _atom_sites.fract_transf_matrix[1][1] 0.030913 _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] 0.021332 _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] 0.008879 _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 1 101 1 ZN ZN . C 3 9RQ A 1 102 1 9RQ DRG . D 4 GOL A 1 103 1 GOL GOL . E 5 HOH A 1 201 82 HOH HOH . E 5 HOH A 2 202 49 HOH HOH . E 5 HOH A 3 203 46 HOH HOH . E 5 HOH A 4 204 88 HOH HOH . E 5 HOH A 5 205 89 HOH HOH . E 5 HOH A 6 206 12 HOH HOH . E 5 HOH A 7 207 137 HOH HOH . E 5 HOH A 8 208 72 HOH HOH . E 5 HOH A 9 209 20 HOH HOH . E 5 HOH A 10 210 7 HOH HOH . E 5 HOH A 11 211 21 HOH HOH . E 5 HOH A 12 212 28 HOH HOH . E 5 HOH A 13 213 59 HOH HOH . E 5 HOH A 14 214 113 HOH HOH . E 5 HOH A 15 215 85 HOH HOH . E 5 HOH A 16 216 17 HOH HOH . E 5 HOH A 17 217 65 HOH HOH . E 5 HOH A 18 218 16 HOH HOH . E 5 HOH A 19 219 66 HOH HOH . E 5 HOH A 20 220 1 HOH HOH . E 5 HOH A 21 221 102 HOH HOH . E 5 HOH A 22 222 112 HOH HOH . E 5 HOH A 23 223 73 HOH HOH . E 5 HOH A 24 224 64 HOH HOH . E 5 HOH A 25 225 51 HOH HOH . E 5 HOH A 26 226 53 HOH HOH . E 5 HOH A 27 227 109 HOH HOH . E 5 HOH A 28 228 25 HOH HOH . E 5 HOH A 29 229 117 HOH HOH . E 5 HOH A 30 230 55 HOH HOH . E 5 HOH A 31 231 83 HOH HOH . E 5 HOH A 32 232 2 HOH HOH . E 5 HOH A 33 233 33 HOH HOH . E 5 HOH A 34 234 60 HOH HOH . E 5 HOH A 35 235 61 HOH HOH . E 5 HOH A 36 236 8 HOH HOH . E 5 HOH A 37 237 6 HOH HOH . E 5 HOH A 38 238 32 HOH HOH . E 5 HOH A 39 239 4 HOH HOH . E 5 HOH A 40 240 68 HOH HOH . E 5 HOH A 41 241 105 HOH HOH . E 5 HOH A 42 242 30 HOH HOH . E 5 HOH A 43 243 50 HOH HOH . E 5 HOH A 44 244 19 HOH HOH . E 5 HOH A 45 245 22 HOH HOH . E 5 HOH A 46 246 54 HOH HOH . E 5 HOH A 47 247 77 HOH HOH . E 5 HOH A 48 248 11 HOH HOH . E 5 HOH A 49 249 3 HOH HOH . E 5 HOH A 50 250 62 HOH HOH . E 5 HOH A 51 251 93 HOH HOH . E 5 HOH A 52 252 31 HOH HOH . E 5 HOH A 53 253 110 HOH HOH . E 5 HOH A 54 254 56 HOH HOH . E 5 HOH A 55 255 103 HOH HOH . E 5 HOH A 56 256 63 HOH HOH . E 5 HOH A 57 257 91 HOH HOH . E 5 HOH A 58 258 37 HOH HOH . E 5 HOH A 59 259 124 HOH HOH . E 5 HOH A 60 260 90 HOH HOH . E 5 HOH A 61 261 35 HOH HOH . E 5 HOH A 62 262 86 HOH HOH . E 5 HOH A 63 263 57 HOH HOH . E 5 HOH A 64 264 14 HOH HOH . E 5 HOH A 65 265 42 HOH HOH . E 5 HOH A 66 266 108 HOH HOH . E 5 HOH A 67 267 10 HOH HOH . E 5 HOH A 68 268 52 HOH HOH . E 5 HOH A 69 269 87 HOH HOH . E 5 HOH A 70 270 15 HOH HOH . E 5 HOH A 71 271 18 HOH HOH . E 5 HOH A 72 272 74 HOH HOH . E 5 HOH A 73 273 39 HOH HOH . E 5 HOH A 74 274 106 HOH HOH . E 5 HOH A 75 275 139 HOH HOH . E 5 HOH A 76 276 131 HOH HOH . E 5 HOH A 77 277 123 HOH HOH . E 5 HOH A 78 278 76 HOH HOH . E 5 HOH A 79 279 23 HOH HOH . E 5 HOH A 80 280 107 HOH HOH . E 5 HOH A 81 281 119 HOH HOH . E 5 HOH A 82 282 75 HOH HOH . E 5 HOH A 83 283 136 HOH HOH . E 5 HOH A 84 284 29 HOH HOH . E 5 HOH A 85 285 47 HOH HOH . E 5 HOH A 86 286 26 HOH HOH . E 5 HOH A 87 287 38 HOH HOH . E 5 HOH A 88 288 58 HOH HOH . E 5 HOH A 89 289 13 HOH HOH . E 5 HOH A 90 290 45 HOH HOH . E 5 HOH A 91 291 70 HOH HOH . E 5 HOH A 92 292 114 HOH HOH . E 5 HOH A 93 293 67 HOH HOH . E 5 HOH A 94 294 34 HOH HOH . E 5 HOH A 95 295 78 HOH HOH . E 5 HOH A 96 296 132 HOH HOH . E 5 HOH A 97 297 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 C C4 9RQ . . . C 3 34.266 13.176 17.741 1 17.83 ? C4 9RQ 102 A 1 HETATM 2 C C14 9RQ . . . C 3 43.398 18.075 20.104 1 49.79 ? C14 9RQ 102 A 1 HETATM 3 C C5 9RQ . . . C 3 33.146 12.507 18.214 1 21.2 ? C5 9RQ 102 A 1 HETATM 4 C C6 9RQ . . . C 3 33.089 11.136 18.174 1 20.59 ? C6 9RQ 102 A 1 HETATM 5 C C11 9RQ . . . C 3 40.797 16.71 19.376 1 24.23 ? C11 9RQ 102 A 1 HETATM 6 C C7 9RQ . . . C 3 34.162 10.436 17.667 1 21.54 ? C7 9RQ 102 A 1 HETATM 7 C C8 9RQ . . . C 3 35.28 11.097 17.186 1 18.88 ? C8 9RQ 102 A 1 HETATM 8 C C9 9RQ . . . C 3 39.499 15.567 17.741 1 17.3 ? C9 9RQ 102 A 1 HETATM 9 C C10 9RQ . . . C 3 39.621 16.116 19.014 1 21.3 ? C10 9RQ 102 A 1 HETATM 10 C C12 9RQ . . . C 3 41.896 16.746 18.51 1 24.19 ? C12 9RQ 102 A 1 HETATM 11 C C13 9RQ . . . C 3 43.185 17.35 18.803 1 32.29 ? C13 9RQ 102 A 1 HETATM 12 C C3 9RQ . . . C 3 35.368 12.48 17.286 1 16.5 ? C3 9RQ 102 A 1 HETATM 13 O O1 9RQ . . . C 3 36.736 14.317 19.326 1 13.51 -1 O1 9RQ 102 A 1 HETATM 14 P P1 9RQ . . . C 3 37.569 13.812 18.161 1 15.3 ? P1 9RQ 102 A 1 HETATM 15 C C1 9RQ . . . C 3 36.562 13.25 16.747 1 17.19 ? C1 9RQ 102 A 1 HETATM 16 C C2 9RQ . . . C 3 37.394 12.532 15.693 1 18.88 ? C2 9RQ 102 A 1 HETATM 17 O O2 9RQ . . . C 3 38.287 15.015 17.365 1 16.84 ? O2 9RQ 102 A 1 HETATM 18 S S1 9RQ . . . C 3 44.073 17.118 21.448 1 84.63 ? S1 9RQ 102 A 1 HETATM 19 O O3 9RQ . . . C 3 44.658 15.866 20.745 1 102.66 ? O3 9RQ 102 A 1 HETATM 20 O O4 9RQ . . . C 3 45.12 17.981 21.911 1 112.73 ? O4 9RQ 102 A 1 HETATM 21 O O5 9RQ . . . C 3 42.973 16.816 22.317 1 80.21 ? O5 9RQ 102 A 1 HETATM 22 C C15 9RQ . . . C 3 44.139 17.316 17.854 1 39.03 ? C15 9RQ 102 A 1 HETATM 23 C C16 9RQ . . . C 3 43.955 16.688 16.587 1 36.57 ? C16 9RQ 102 A 1 HETATM 24 O O6 9RQ . . . C 3 42.724 16.139 16.321 1 37.14 ? O6 9RQ 102 A 1 HETATM 25 O O7 9RQ . . . C 3 44.758 16.581 15.701 1 52.66 ? O7 9RQ 102 A 1 HETATM 26 C C17 9RQ . . . C 3 41.713 16.192 17.243 1 25.26 ? C17 9RQ 102 A 1 HETATM 27 C C18 9RQ . . . C 3 40.543 15.599 16.845 1 20.9 ? C18 9RQ 102 A 1 HETATM 28 O O8 9RQ . . . C 3 38.581 12.764 18.542 1 17.56 ? O8 9RQ 102 A 1 HETATM 29 H H5 9RQ . . . C 3 34.3 14.118 17.791 1 18.27 ? H5 9RQ 102 A 1 HETATM 30 H H6 9RQ . . . C 3 32.417 12.998 18.558 1 19.86 ? H6 9RQ 102 A 1 HETATM 31 H H7 9RQ . . . C 3 32.323 10.68 18.482 1 19.83 ? H7 9RQ 102 A 1 HETATM 32 H H11 9RQ . . . C 3 40.873 17.079 20.233 1 24.05 ? H11 9RQ 102 A 1 HETATM 33 H H8 9RQ . . . C 3 34.128 9.494 17.633 1 21.04 ? H8 9RQ 102 A 1 HETATM 34 H H9 9RQ . . . C 3 36.013 10.599 16.865 1 18.7 ? H9 9RQ 102 A 1 HETATM 35 H H10 9RQ . . . C 3 38.889 16.116 19.605 1 20.49 ? H10 9RQ 102 A 1 HETATM 36 H H3 9RQ . . . C 3 37.875 11.798 16.105 1 19.05 ? H3 9RQ 102 A 1 HETATM 37 H H4 9RQ . . . C 3 38.028 13.152 15.303 1 18.51 ? H4 9RQ 102 A 1 HETATM 38 H H2 9RQ . . . C 3 36.811 12.188 15 1 18.95 ? H2 9RQ 102 A 1 HETATM 39 H H15 9RQ . . . C 3 44.98 17.699 18.043 1 35.48 ? H15 9RQ 102 A 1 HETATM 40 H H16 9RQ . . . C 3 40.451 15.214 15.99 1 20.79 ? H16 9RQ 102 A 1 HETATM 41 H H1 9RQ . . . C 3 36.211 14.065 16.323 1 17.37 ? H1 9RQ 102 A 1 HETATM 42 H H12 9RQ . . . C 3 42.545 18.458 20.391 1 45.93 ? H12 9RQ 102 A 1 HETATM 43 H H13 9RQ . . . C 3 44.003 18.824 19.929 1 46.98 ? H13 9RQ 102 A 1 HETATM 44 H H14 9RQ . . . C 3 45.14 15.523 21.151 0 104.1 ? H14 9RQ 102 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 314 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 44 #