data_5VM6 # _model_server_result.job_id DToGiD-ZWit0CKLpcO61Cg _model_server_result.datetime_utc '2025-07-17 17:27:55' _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 5vm6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":203}' # _entry.id 5VM6 # _exptl.entry_id 5VM6 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 315.582 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "N-(4-chlorophenyl)-N'-(3,4-dichlorophenyl)urea" _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 111.18 _cell.angle_gamma 90 _cell.entry_id 5VM6 _cell.length_a 36.769 _cell.length_b 36.387 _cell.length_c 44.598 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5VM6 _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _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,H,I _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 D _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 disulf ? disulf1 A SG CYS 24 A CYS 24 1_555 A SG CYS 98 A CYS 98 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.998 ? metalc ? metalc1 A OE2 GLU 48 A GLU 48 1_555 G NA NA . A NA 206 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.562 ? metalc ? metalc2 C O4 SO4 . A SO4 202 1_555 G NA NA . A NA 206 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.672 ? metalc ? metalc3 G NA NA . A NA 206 1_555 I O HOH . A HOH 364 1_655 ? ? ? ? ? ? ? ? ? ? ? ? 2.453 ? # _chem_comp.formula 'C13 H9 Cl3 N2 O' _chem_comp.formula_weight 315.582 _chem_comp.id 9EG _chem_comp.mon_nstd_flag . _chem_comp.name "N-(4-chlorophenyl)-N'-(3,4-dichlorophenyl)urea" _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 C6 C5 9EG doub 1 n y C6 C1 9EG sing 2 n y CL1 C1 9EG sing 3 n n C5 C4 9EG sing 4 n y C1 C2 9EG doub 5 n y O9 C8 9EG doub 6 n n C4 N7 9EG sing 7 n n C4 C3 9EG doub 8 n y C15 C16 9EG doub 9 n y C15 C14 9EG sing 10 n y C8 N7 9EG sing 11 n n C8 N1 9EG sing 12 n n C16 C11 9EG sing 13 n y C2 C3 9EG sing 14 n y CL3 C14 9EG sing 15 n n C14 C13 9EG doub 16 n y C11 N1 9EG sing 17 n n C11 C12 9EG doub 18 n y C13 C12 9EG sing 19 n y C13 CL2 9EG sing 20 n n C12 H1 9EG sing 21 n n N1 H2 9EG sing 22 n n C5 H3 9EG sing 23 n n C6 H4 9EG sing 24 n n C2 H5 9EG sing 25 n n C3 H6 9EG sing 26 n n N7 H7 9EG sing 27 n n C15 H8 9EG sing 28 n n C16 H9 9EG sing 29 n n # _atom_sites.entry_id 5VM6 _atom_sites.fract_transf_matrix[1][1] 0.027197 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.010535 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.027482 _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] 0.024046 _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 SO4 A 1 201 1 SO4 SO4 . C 2 SO4 A 1 202 1 SO4 SO4 . D 3 9EG A 1 203 1 9EG TCC . E 2 SO4 A 1 204 1 SO4 SO4 . F 2 SO4 A 1 205 1 SO4 SO4 . G 4 NA A 1 206 1 NA NA . H 2 SO4 A 1 207 1 SO4 SO4 . I 5 HOH A 1 301 7 HOH HOH . I 5 HOH A 2 302 78 HOH HOH . I 5 HOH A 3 303 28 HOH HOH . I 5 HOH A 4 304 54 HOH HOH . I 5 HOH A 5 305 2 HOH HOH . I 5 HOH A 6 306 99 HOH HOH . I 5 HOH A 7 307 15 HOH HOH . I 5 HOH A 8 308 90 HOH HOH . I 5 HOH A 9 309 4 HOH HOH . I 5 HOH A 10 310 35 HOH HOH . I 5 HOH A 11 311 77 HOH HOH . I 5 HOH A 12 312 29 HOH HOH . I 5 HOH A 13 313 91 HOH HOH . I 5 HOH A 14 314 71 HOH HOH . I 5 HOH A 15 315 45 HOH HOH . I 5 HOH A 16 316 39 HOH HOH . I 5 HOH A 17 317 82 HOH HOH . I 5 HOH A 18 318 25 HOH HOH . I 5 HOH A 19 319 52 HOH HOH . I 5 HOH A 20 320 64 HOH HOH . I 5 HOH A 21 321 66 HOH HOH . I 5 HOH A 22 322 36 HOH HOH . I 5 HOH A 23 323 18 HOH HOH . I 5 HOH A 24 324 80 HOH HOH . I 5 HOH A 25 325 14 HOH HOH . I 5 HOH A 26 326 23 HOH HOH . I 5 HOH A 27 327 69 HOH HOH . I 5 HOH A 28 328 10 HOH HOH . I 5 HOH A 29 329 57 HOH HOH . I 5 HOH A 30 330 47 HOH HOH . I 5 HOH A 31 331 72 HOH HOH . I 5 HOH A 32 332 24 HOH HOH . I 5 HOH A 33 333 16 HOH HOH . I 5 HOH A 34 334 49 HOH HOH . I 5 HOH A 35 335 11 HOH HOH . I 5 HOH A 36 336 31 HOH HOH . I 5 HOH A 37 337 44 HOH HOH . I 5 HOH A 38 338 8 HOH HOH . I 5 HOH A 39 339 34 HOH HOH . I 5 HOH A 40 340 1 HOH HOH . I 5 HOH A 41 341 19 HOH HOH . I 5 HOH A 42 342 53 HOH HOH . I 5 HOH A 43 343 43 HOH HOH . I 5 HOH A 44 344 61 HOH HOH . I 5 HOH A 45 345 89 HOH HOH . I 5 HOH A 46 346 12 HOH HOH . I 5 HOH A 47 347 98 HOH HOH . I 5 HOH A 48 348 32 HOH HOH . I 5 HOH A 49 349 50 HOH HOH . I 5 HOH A 50 350 56 HOH HOH . I 5 HOH A 51 351 13 HOH HOH . I 5 HOH A 52 352 21 HOH HOH . I 5 HOH A 53 353 65 HOH HOH . I 5 HOH A 54 354 3 HOH HOH . I 5 HOH A 55 355 86 HOH HOH . I 5 HOH A 56 356 46 HOH HOH . I 5 HOH A 57 357 48 HOH HOH . I 5 HOH A 58 358 62 HOH HOH . I 5 HOH A 59 359 85 HOH HOH . I 5 HOH A 60 360 5 HOH HOH . I 5 HOH A 61 361 40 HOH HOH . I 5 HOH A 62 362 42 HOH HOH . I 5 HOH A 63 363 60 HOH HOH . I 5 HOH A 64 364 63 HOH HOH . I 5 HOH A 65 365 6 HOH HOH . I 5 HOH A 66 366 9 HOH HOH . I 5 HOH A 67 367 37 HOH HOH . I 5 HOH A 68 368 22 HOH HOH . I 5 HOH A 69 369 75 HOH HOH . I 5 HOH A 70 370 76 HOH HOH . I 5 HOH A 71 371 41 HOH HOH . I 5 HOH A 72 372 59 HOH HOH . I 5 HOH A 73 373 67 HOH HOH . I 5 HOH A 74 374 79 HOH HOH . I 5 HOH A 75 375 26 HOH HOH . I 5 HOH A 76 376 95 HOH HOH . I 5 HOH A 77 377 74 HOH HOH . I 5 HOH A 78 378 84 HOH HOH . I 5 HOH A 79 379 92 HOH HOH . I 5 HOH A 80 380 68 HOH HOH . I 5 HOH A 81 381 58 HOH HOH . I 5 HOH A 82 382 88 HOH HOH . I 5 HOH A 83 383 73 HOH HOH . I 5 HOH A 84 384 51 HOH HOH . I 5 HOH A 85 385 93 HOH HOH . I 5 HOH A 86 386 30 HOH HOH . I 5 HOH A 87 387 27 HOH HOH . I 5 HOH A 88 388 97 HOH HOH . I 5 HOH A 89 389 83 HOH HOH . I 5 HOH A 90 390 96 HOH HOH . I 5 HOH A 91 391 38 HOH HOH . I 5 HOH A 92 392 33 HOH HOH . I 5 HOH A 93 393 20 HOH HOH . I 5 HOH A 94 394 94 HOH HOH . I 5 HOH A 95 395 17 HOH HOH . I 5 HOH A 96 396 81 HOH HOH . I 5 HOH A 97 397 55 HOH HOH . I 5 HOH A 98 398 70 HOH HOH . I 5 HOH A 99 399 87 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 C12 9EG . . . D 3 37.966 -14.291 -0.694 1 9.51 ? C12 9EG 203 A 1 HETATM 2 C C11 9EG . . . D 3 36.753 -13.702 -0.362 1 9.53 ? C11 9EG 203 A 1 HETATM 3 CL CL2 9EG . . . D 3 39.633 -15.897 -2.164 1 11.69 ? CL2 9EG 203 A 1 HETATM 4 CL CL1 9EG . . . D 3 40.131 -6.451 4.315 1 7.55 ? CL1 9EG 203 A 1 HETATM 5 C C8 9EG . . . D 3 37.531 -12.114 1.317 1 9.52 ? C8 9EG 203 A 1 HETATM 6 N N1 9EG . . . D 3 36.566 -12.792 0.641 1 9.33 ? N1 9EG 203 A 1 HETATM 7 C C4 9EG . . . D 3 37.938 -9.921 2.351 1 8.12 ? C4 9EG 203 A 1 HETATM 8 C C5 9EG . . . D 3 37.245 -8.818 2.869 1 7.84 ? C5 9EG 203 A 1 HETATM 9 C C6 9EG . . . D 3 37.904 -7.753 3.472 1 7.73 ? C6 9EG 203 A 1 HETATM 10 C C1 9EG . . . D 3 39.272 -7.803 3.58 1 7.48 ? C1 9EG 203 A 1 HETATM 11 C C2 9EG . . . D 3 39.98 -8.883 3.094 1 7.6 ? C2 9EG 203 A 1 HETATM 12 C C3 9EG . . . D 3 39.32 -9.944 2.48 1 7.42 ? C3 9EG 203 A 1 HETATM 13 N N7 9EG . . . D 3 37.183 -10.9 1.781 1 8.34 ? N7 9EG 203 A 1 HETATM 14 O O9 9EG . . . D 3 38.663 -12.542 1.431 1 11.74 ? O9 9EG 203 A 1 HETATM 15 C C13 9EG . . . D 3 38.037 -15.188 -1.76 1 10.31 ? C13 9EG 203 A 1 HETATM 16 C C14 9EG . . . D 3 36.936 -15.497 -2.526 1 11.13 ? C14 9EG 203 A 1 HETATM 17 C C15 9EG . . . D 3 35.713 -14.92 -2.198 1 10.3 ? C15 9EG 203 A 1 HETATM 18 C C16 9EG . . . D 3 35.643 -14.03 -1.128 1 9.71 ? C16 9EG 203 A 1 HETATM 19 CL CL3 9EG . . . D 3 37.023 -16.617 -3.932 1 14.7 ? CL3 9EG 203 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 18 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 318 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 19 #