data_5IEP # _model_server_result.job_id koJYjOjL5EGbkQQoUrJKGg _model_server_result.datetime_utc '2024-12-24 03:05:41' _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 5iep # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":201}' # _entry.id 5IEP # _exptl.entry_id 5IEP _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 400.637 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 3-{2-[1-(5-HYDROXY-1,5-DIMETHYL-HEXYL)-7A-METHYL-OCTAHYDRO-INDEN-4-YLIDENE]-ETHYLIDENE}-4-METHYLENE-CYCLOHEXANOL _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 5IEP _cell.length_a 71.848 _cell.length_b 71.848 _cell.length_c 60.787 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5IEP _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 ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _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 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C27 H44 O2' _chem_comp.formula_weight 400.637 _chem_comp.id VDY _chem_comp.mon_nstd_flag . _chem_comp.name 3-{2-[1-(5-HYDROXY-1,5-DIMETHYL-HEXYL)-7A-METHYL-OCTAHYDRO-INDEN-4-YLIDENE]-ETHYLIDENE}-4-METHYLENE-CYCLOHEXANOL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms '25-HYDROXYVITAMIN D3' # 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 O1 C3 VDY sing 363 n n O1 HO1 VDY sing 364 n n O2 C25 VDY sing 365 n n O2 HO2 VDY sing 366 n n C1 C2 VDY sing 367 n n C1 C10 VDY sing 368 n n C1 H11 VDY sing 369 n n C1 H12 VDY sing 370 n n C2 C3 VDY sing 371 n n C2 H21 VDY sing 372 n n C2 H22 VDY sing 373 n n C3 C4 VDY sing 374 n n C3 H31 VDY sing 375 n n C4 C5 VDY sing 376 n n C4 H41 VDY sing 377 n n C4 H42 VDY sing 378 n n C5 C6 VDY doub 379 z n C5 C10 VDY sing 380 n n C6 C7 VDY sing 381 n n C6 H61 VDY sing 382 n n C7 C8 VDY doub 383 e n C7 H71 VDY sing 384 n n C8 C9 VDY sing 385 n n C8 C14 VDY sing 386 n n C9 C11 VDY sing 387 n n C9 H91 VDY sing 388 n n C9 H92 VDY sing 389 n n C10 C19 VDY doub 390 n n C11 C12 VDY sing 391 n n C11 H111 VDY sing 392 n n C11 H112 VDY sing 393 n n C12 C13 VDY sing 394 n n C12 H121 VDY sing 395 n n C12 H122 VDY sing 396 n n C13 C14 VDY sing 397 n n C13 C17 VDY sing 398 n n C13 C18 VDY sing 399 n n C14 C15 VDY sing 400 n n C14 H141 VDY sing 401 n n C15 C16 VDY sing 402 n n C15 H151 VDY sing 403 n n C15 H152 VDY sing 404 n n C16 C17 VDY sing 405 n n C16 H161 VDY sing 406 n n C16 H162 VDY sing 407 n n C17 C20 VDY sing 408 n n C17 H171 VDY sing 409 n n C18 H181 VDY sing 410 n n C18 H182 VDY sing 411 n n C18 H183 VDY sing 412 n n C19 H191 VDY sing 413 n n C19 H192 VDY sing 414 n n C20 C21 VDY sing 415 n n C20 C22 VDY sing 416 n n C20 H201 VDY sing 417 n n C21 H211 VDY sing 418 n n C21 H212 VDY sing 419 n n C21 H213 VDY sing 420 n n C22 C23 VDY sing 421 n n C22 H221 VDY sing 422 n n C22 H222 VDY sing 423 n n C23 C24 VDY sing 424 n n C23 H231 VDY sing 425 n n C23 H232 VDY sing 426 n n C24 C25 VDY sing 427 n n C24 H241 VDY sing 428 n n C24 H242 VDY sing 429 n n C25 C26 VDY sing 430 n n C25 C27 VDY sing 431 n n C26 H261 VDY sing 432 n n C26 H262 VDY sing 433 n n C26 H263 VDY sing 434 n n C27 H271 VDY sing 435 n n C27 H272 VDY sing 436 n n C27 H273 VDY sing 437 n n # _atom_sites.entry_id 5IEP _atom_sites.fract_transf_matrix[1][1] 0.013918 _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] 0.013918 _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] 0.016451 _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 VDY A 1 201 1 VDY VDY . C 3 HOH A 1 301 17 HOH HOH . C 3 HOH A 2 302 76 HOH HOH . C 3 HOH A 3 303 18 HOH HOH . C 3 HOH A 4 304 45 HOH HOH . C 3 HOH A 5 305 12 HOH HOH . C 3 HOH A 6 306 39 HOH HOH . C 3 HOH A 7 307 48 HOH HOH . C 3 HOH A 8 308 3 HOH HOH . C 3 HOH A 9 309 10 HOH HOH . C 3 HOH A 10 310 5 HOH HOH . C 3 HOH A 11 311 13 HOH HOH . C 3 HOH A 12 312 47 HOH HOH . C 3 HOH A 13 313 20 HOH HOH . C 3 HOH A 14 314 7 HOH HOH . C 3 HOH A 15 315 14 HOH HOH . C 3 HOH A 16 316 69 HOH HOH . C 3 HOH A 17 317 34 HOH HOH . C 3 HOH A 18 318 15 HOH HOH . C 3 HOH A 19 319 78 HOH HOH . C 3 HOH A 20 320 42 HOH HOH . C 3 HOH A 21 321 26 HOH HOH . C 3 HOH A 22 322 4 HOH HOH . C 3 HOH A 23 323 35 HOH HOH . C 3 HOH A 24 324 61 HOH HOH . C 3 HOH A 25 325 23 HOH HOH . C 3 HOH A 26 326 1 HOH HOH . C 3 HOH A 27 327 60 HOH HOH . C 3 HOH A 28 328 24 HOH HOH . C 3 HOH A 29 329 50 HOH HOH . C 3 HOH A 30 330 51 HOH HOH . C 3 HOH A 31 331 56 HOH HOH . C 3 HOH A 32 332 54 HOH HOH . C 3 HOH A 33 333 68 HOH HOH . C 3 HOH A 34 334 49 HOH HOH . C 3 HOH A 35 335 8 HOH HOH . C 3 HOH A 36 336 36 HOH HOH . C 3 HOH A 37 337 2 HOH HOH . C 3 HOH A 38 338 11 HOH HOH . C 3 HOH A 39 339 41 HOH HOH . C 3 HOH A 40 340 28 HOH HOH . C 3 HOH A 41 341 16 HOH HOH . C 3 HOH A 42 342 59 HOH HOH . C 3 HOH A 43 343 53 HOH HOH . C 3 HOH A 44 344 79 HOH HOH . C 3 HOH A 45 345 29 HOH HOH . C 3 HOH A 46 346 77 HOH HOH . C 3 HOH A 47 347 19 HOH HOH . C 3 HOH A 48 348 37 HOH HOH . C 3 HOH A 49 349 38 HOH HOH . C 3 HOH A 50 350 32 HOH HOH . C 3 HOH A 51 351 70 HOH HOH . C 3 HOH A 52 352 9 HOH HOH . C 3 HOH A 53 353 31 HOH HOH . C 3 HOH A 54 354 6 HOH HOH . C 3 HOH A 55 355 33 HOH HOH . C 3 HOH A 56 356 58 HOH HOH . C 3 HOH A 57 357 44 HOH HOH . C 3 HOH A 58 358 30 HOH HOH . C 3 HOH A 59 359 66 HOH HOH . C 3 HOH A 60 360 57 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 O1 VDY . . . B 2 17.502 -10.738 -6.827 1 58.3 ? O1 VDY 201 A 1 HETATM 2 O O2 VDY . . . B 2 16.177 2.056 3.706 1 28.98 ? O2 VDY 201 A 1 HETATM 3 C C1 VDY . . . B 2 20.073 -8.43 -5.26 1 48.78 ? C1 VDY 201 A 1 HETATM 4 C C2 VDY . . . B 2 19.488 -9.549 -6.124 1 52.79 ? C2 VDY 201 A 1 HETATM 5 C C3 VDY . . . B 2 17.984 -9.766 -5.905 1 52.59 ? C3 VDY 201 A 1 HETATM 6 C C4 VDY . . . B 2 17.182 -8.496 -6.131 1 49.04 ? C4 VDY 201 A 1 HETATM 7 C C5 VDY . . . B 2 17.826 -7.348 -5.396 1 49.05 ? C5 VDY 201 A 1 HETATM 8 C C6 VDY . . . B 2 17.195 -6.706 -4.416 1 47.78 ? C6 VDY 201 A 1 HETATM 9 C C7 VDY . . . B 2 17.708 -5.437 -3.912 1 41.1 ? C7 VDY 201 A 1 HETATM 10 C C8 VDY . . . B 2 16.889 -4.594 -3.312 1 43.44 ? C8 VDY 201 A 1 HETATM 11 C C9 VDY . . . B 2 15.43 -4.609 -3.634 1 41.1 ? C9 VDY 201 A 1 HETATM 12 C C10 VDY . . . B 2 19.266 -7.202 -5.527 1 47.54 ? C10 VDY 201 A 1 HETATM 13 C C11 VDY . . . B 2 14.677 -4.163 -2.432 1 40.7 ? C11 VDY 201 A 1 HETATM 14 C C12 VDY . . . B 2 15.106 -2.778 -2.017 1 35.88 ? C12 VDY 201 A 1 HETATM 15 C C13 VDY . . . B 2 16.542 -2.783 -1.639 1 39.21 ? C13 VDY 201 A 1 HETATM 16 C C14 VDY . . . B 2 17.336 -3.233 -2.886 1 39.74 ? C14 VDY 201 A 1 HETATM 17 C C15 VDY . . . B 2 18.759 -3.119 -2.404 1 40.04 ? C15 VDY 201 A 1 HETATM 18 C C16 VDY . . . B 2 18.711 -1.902 -1.456 1 37.67 ? C16 VDY 201 A 1 HETATM 19 C C17 VDY . . . B 2 17.246 -1.484 -1.362 1 33.39 ? C17 VDY 201 A 1 HETATM 20 C C18 VDY . . . B 2 16.725 -3.725 -0.492 1 39.69 ? C18 VDY 201 A 1 HETATM 21 C C19 VDY . . . B 2 19.752 -6.239 -6.259 1 48.72 ? C19 VDY 201 A 1 HETATM 22 C C20 VDY . . . B 2 16.986 -0.855 -0.02 1 33.33 ? C20 VDY 201 A 1 HETATM 23 C C21 VDY . . . B 2 15.5 -0.678 0.13 1 35.99 ? C21 VDY 201 A 1 HETATM 24 C C22 VDY . . . B 2 17.704 0.488 0.024 1 37.24 ? C22 VDY 201 A 1 HETATM 25 C C23 VDY . . . B 2 17.285 1.39 1.176 1 37.25 ? C23 VDY 201 A 1 HETATM 26 C C24 VDY . . . B 2 17.96 0.992 2.467 1 34.67 ? C24 VDY 201 A 1 HETATM 27 C C25 VDY . . . B 2 17.546 1.832 3.659 1 31.58 ? C25 VDY 201 A 1 HETATM 28 C C26 VDY . . . B 2 17.9 1.099 4.914 1 32.66 ? C26 VDY 201 A 1 HETATM 29 C C27 VDY . . . B 2 18.269 3.158 3.678 1 32.83 ? C27 VDY 201 A 1 HETATM 30 H HO1 VDY . . . B 2 16.544 -10.769 -6.729 1 69.96 ? HO1 VDY 201 A 1 HETATM 31 H HO2 VDY . . . B 2 15.747 1.201 3.785 1 34.78 ? HO2 VDY 201 A 1 HETATM 32 H H11 VDY . . . B 2 21.107 -8.247 -5.532 1 58.53 ? H11 VDY 201 A 1 HETATM 33 H H12 VDY . . . B 2 20.011 -8.694 -4.21 1 58.53 ? H12 VDY 201 A 1 HETATM 34 H H21 VDY . . . B 2 20.014 -10.475 -5.89 1 63.34 ? H21 VDY 201 A 1 HETATM 35 H H22 VDY . . . B 2 19.651 -9.305 -7.171 1 63.34 ? H22 VDY 201 A 1 HETATM 36 H H31 VDY . . . B 2 17.81 -10.119 -4.892 1 63.1 ? H31 VDY 201 A 1 HETATM 37 H H41 VDY . . . B 2 16.174 -8.644 -5.752 1 58.85 ? H41 VDY 201 A 1 HETATM 38 H H42 VDY . . . B 2 17.138 -8.281 -7.194 1 58.85 ? H42 VDY 201 A 1 HETATM 39 H H61 VDY . . . B 2 16.326 -7.151 -3.96 1 57.34 ? H61 VDY 201 A 1 HETATM 40 H H71 VDY . . . B 2 18.761 -5.235 -3.94 1 49.32 ? H71 VDY 201 A 1 HETATM 41 H H91 VDY . . . B 2 15.232 -3.933 -4.458 1 49.31 ? H91 VDY 201 A 1 HETATM 42 H H92 VDY . . . B 2 15.095 -5.607 -3.887 1 49.31 ? H92 VDY 201 A 1 HETATM 43 H H111 VDY . . . B 2 13.615 -4.164 -2.654 1 48.84 ? H111 VDY 201 A 1 HETATM 44 H H112 VDY . . . B 2 14.876 -4.858 -1.623 1 48.84 ? H112 VDY 201 A 1 HETATM 45 H H121 VDY . . . B 2 14.967 -2.1 -2.85 1 43.06 ? H121 VDY 201 A 1 HETATM 46 H H122 VDY . . . B 2 14.501 -2.47 -1.175 1 43.06 ? H122 VDY 201 A 1 HETATM 47 H H141 VDY . . . B 2 17.169 -2.53 -3.691 1 47.69 ? H141 VDY 201 A 1 HETATM 48 H H151 VDY . . . B 2 19.425 -2.931 -3.239 1 48.05 ? H151 VDY 201 A 1 HETATM 49 H H152 VDY . . . B 2 19.056 -4.018 -1.879 1 48.05 ? H152 VDY 201 A 1 HETATM 50 H H161 VDY . . . B 2 19.298 -1.085 -1.861 1 45.21 ? H161 VDY 201 A 1 HETATM 51 H H162 VDY . . . B 2 19.082 -2.173 -0.475 1 45.21 ? H162 VDY 201 A 1 HETATM 52 H H171 VDY . . . B 2 17.017 -0.77 -2.142 1 40.07 ? H171 VDY 201 A 1 HETATM 53 H H181 VDY . . . B 2 16.391 -4.71 -0.788 1 47.63 ? H181 VDY 201 A 1 HETATM 54 H H182 VDY . . . B 2 17.768 -3.765 -0.206 1 47.63 ? H182 VDY 201 A 1 HETATM 55 H H183 VDY . . . B 2 16.135 -3.382 0.351 1 47.63 ? H183 VDY 201 A 1 HETATM 56 H H191 VDY . . . B 2 19.304 -5.263 -6.206 1 58.46 ? H191 VDY 201 A 1 HETATM 57 H H192 VDY . . . B 2 20.41 -6.483 -7.077 1 58.46 ? H192 VDY 201 A 1 HETATM 58 H H201 VDY . . . B 2 17.361 -1.495 0.766 1 39.99 ? H201 VDY 201 A 1 HETATM 59 H H211 VDY . . . B 2 15.084 -0.384 -0.827 1 43.19 ? H211 VDY 201 A 1 HETATM 60 H H212 VDY . . . B 2 15.062 -1.621 0.437 1 43.19 ? H212 VDY 201 A 1 HETATM 61 H H213 VDY . . . B 2 15.267 0.073 0.874 1 43.19 ? H213 VDY 201 A 1 HETATM 62 H H221 VDY . . . B 2 18.772 0.315 0.091 1 44.69 ? H221 VDY 201 A 1 HETATM 63 H H222 VDY . . . B 2 17.504 1.001 -0.909 1 44.69 ? H222 VDY 201 A 1 HETATM 64 H H231 VDY . . . B 2 17.544 2.416 0.938 1 44.7 ? H231 VDY 201 A 1 HETATM 65 H H232 VDY . . . B 2 16.212 1.327 1.311 1 44.7 ? H232 VDY 201 A 1 HETATM 66 H H241 VDY . . . B 2 17.718 -0.043 2.674 1 41.61 ? H241 VDY 201 A 1 HETATM 67 H H242 VDY . . . B 2 19.03 1.082 2.332 1 41.61 ? H242 VDY 201 A 1 HETATM 68 H H261 VDY . . . B 2 17.843 1.781 5.753 1 39.19 ? H261 VDY 201 A 1 HETATM 69 H H262 VDY . . . B 2 17.197 0.289 5.05 1 39.19 ? H262 VDY 201 A 1 HETATM 70 H H263 VDY . . . B 2 18.903 0.702 4.834 1 39.19 ? H263 VDY 201 A 1 HETATM 71 H H271 VDY . . . B 2 19.338 2.983 3.717 1 39.4 ? H271 VDY 201 A 1 HETATM 72 H H272 VDY . . . B 2 18.026 3.718 2.781 1 39.4 ? H272 VDY 201 A 1 HETATM 73 H H273 VDY . . . B 2 17.962 3.719 4.555 1 39.4 ? H273 VDY 201 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 337 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 73 #