data_5VL2 # _model_server_result.job_id vcVUcZVNKgNCLnrUQp8YDA _model_server_result.datetime_utc '2025-07-15 21:39:41' _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 5vl2 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"M","auth_seq_id":201}' # _entry.id 5VL2 # _exptl.entry_id 5VL2 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 315.582 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "N-(4-chlorophenyl)-N'-(3,4-dichlorophenyl)urea" _entity.pdbx_number_of_molecules 8 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 111.66 _cell.angle_gamma 90 _cell.entry_id 5VL2 _cell.length_a 98.803 _cell.length_b 55.304 _cell.length_c 103.426 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5VL2 _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? tetrameric 4 author_defined_assembly 1 ? tetrameric 4 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,F,H,I,K,N,P,Q,S,V,X 1 1 B,D,E,G,J,L,M,O,R,T,U,W 2 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 I N N ? 2 J N N ? 2 K N N ? 2 L N N ? 2 M N N ? 2 N N N ? 2 O N N ? 2 P N 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 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf2 B SG CYS 24 B CYS 24 1_555 B SG CYS 98 B CYS 98 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.088 ? disulf ? disulf3 C SG CYS 24 C CYS 24 1_555 C SG CYS 98 C CYS 98 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? disulf ? disulf4 D SG CYS 24 D CYS 24 1_555 D SG CYS 98 D CYS 98 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.066 ? disulf ? disulf5 E SG CYS 24 E CYS 24 1_555 E SG CYS 98 E CYS 98 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.015 ? disulf ? disulf6 F SG CYS 24 F CYS 24 1_555 F SG CYS 98 F CYS 98 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf7 G SG CYS 24 G CYS 24 1_555 G SG CYS 98 G CYS 98 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.071 ? disulf ? disulf8 H SG CYS 24 H CYS 24 1_555 H SG CYS 98 H CYS 98 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.069 ? # _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 5VL2 _atom_sites.fract_transf_matrix[1][1] 0.010121 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004019 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018082 _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] 0.010403 _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 I 2 9EG A 1 201 1 9EG TCC . J 2 9EG B 1 201 2 9EG TCC . K 2 9EG C 1 201 3 9EG TCC . L 2 9EG D 1 201 4 9EG TCC . M 2 9EG E 1 201 5 9EG TCC . N 2 9EG F 1 201 6 9EG TCC . O 2 9EG G 1 201 7 9EG TCC . P 2 9EG H 1 201 8 9EG TCC . Q 3 HOH A 1 301 138 HOH HOH . Q 3 HOH A 2 302 7 HOH HOH . Q 3 HOH A 3 303 146 HOH HOH . Q 3 HOH A 4 304 140 HOH HOH . Q 3 HOH A 5 305 144 HOH HOH . Q 3 HOH A 6 306 2 HOH HOH . Q 3 HOH A 7 307 1 HOH HOH . Q 3 HOH A 8 308 143 HOH HOH . Q 3 HOH A 9 309 141 HOH HOH . Q 3 HOH A 10 310 4 HOH HOH . Q 3 HOH A 11 311 129 HOH HOH . Q 3 HOH A 12 312 12 HOH HOH . Q 3 HOH A 13 313 132 HOH HOH . Q 3 HOH A 14 314 16 HOH HOH . Q 3 HOH A 15 315 127 HOH HOH . Q 3 HOH A 16 316 145 HOH HOH . Q 3 HOH A 17 317 11 HOH HOH . Q 3 HOH A 18 318 6 HOH HOH . Q 3 HOH A 19 319 10 HOH HOH . Q 3 HOH A 20 320 53 HOH HOH . Q 3 HOH A 21 321 13 HOH HOH . Q 3 HOH A 22 322 8 HOH HOH . Q 3 HOH A 23 323 9 HOH HOH . Q 3 HOH A 24 324 128 HOH HOH . Q 3 HOH A 25 325 3 HOH HOH . Q 3 HOH A 26 326 142 HOH HOH . Q 3 HOH A 27 327 139 HOH HOH . Q 3 HOH A 28 328 131 HOH HOH . Q 3 HOH A 29 329 133 HOH HOH . Q 3 HOH A 30 330 81 HOH HOH . R 3 HOH B 1 301 151 HOH HOH . R 3 HOH B 2 302 18 HOH HOH . R 3 HOH B 3 303 126 HOH HOH . R 3 HOH B 4 304 21 HOH HOH . R 3 HOH B 5 305 17 HOH HOH . R 3 HOH B 6 306 153 HOH HOH . R 3 HOH B 7 307 119 HOH HOH . R 3 HOH B 8 308 121 HOH HOH . R 3 HOH B 9 309 24 HOH HOH . R 3 HOH B 10 310 148 HOH HOH . R 3 HOH B 11 311 31 HOH HOH . R 3 HOH B 12 312 20 HOH HOH . R 3 HOH B 13 313 30 HOH HOH . R 3 HOH B 14 314 27 HOH HOH . R 3 HOH B 15 315 118 HOH HOH . R 3 HOH B 16 316 22 HOH HOH . R 3 HOH B 17 317 29 HOH HOH . R 3 HOH B 18 318 35 HOH HOH . R 3 HOH B 19 319 86 HOH HOH . R 3 HOH B 20 320 28 HOH HOH . R 3 HOH B 21 321 26 HOH HOH . R 3 HOH B 22 322 150 HOH HOH . R 3 HOH B 23 323 152 HOH HOH . R 3 HOH B 24 324 149 HOH HOH . R 3 HOH B 25 325 155 HOH HOH . R 3 HOH B 26 326 154 HOH HOH . R 3 HOH B 27 327 36 HOH HOH . R 3 HOH B 28 328 25 HOH HOH . S 3 HOH C 1 301 160 HOH HOH . S 3 HOH C 2 302 188 HOH HOH . S 3 HOH C 3 303 43 HOH HOH . S 3 HOH C 4 304 189 HOH HOH . S 3 HOH C 5 305 162 HOH HOH . S 3 HOH C 6 306 161 HOH HOH . S 3 HOH C 7 307 46 HOH HOH . S 3 HOH C 8 308 54 HOH HOH . S 3 HOH C 9 309 49 HOH HOH . S 3 HOH C 10 310 14 HOH HOH . S 3 HOH C 11 311 156 HOH HOH . S 3 HOH C 12 312 157 HOH HOH . S 3 HOH C 13 313 130 HOH HOH . S 3 HOH C 14 314 50 HOH HOH . S 3 HOH C 15 315 51 HOH HOH . S 3 HOH C 16 316 37 HOH HOH . S 3 HOH C 17 317 187 HOH HOH . S 3 HOH C 18 318 45 HOH HOH . S 3 HOH C 19 319 135 HOH HOH . S 3 HOH C 20 320 15 HOH HOH . S 3 HOH C 21 321 52 HOH HOH . S 3 HOH C 22 322 40 HOH HOH . S 3 HOH C 23 323 38 HOH HOH . S 3 HOH C 24 324 48 HOH HOH . S 3 HOH C 25 325 134 HOH HOH . S 3 HOH C 26 326 39 HOH HOH . S 3 HOH C 27 327 47 HOH HOH . S 3 HOH C 28 328 158 HOH HOH . S 3 HOH C 29 329 41 HOH HOH . S 3 HOH C 30 330 55 HOH HOH . S 3 HOH C 31 331 159 HOH HOH . S 3 HOH C 32 332 42 HOH HOH . T 3 HOH D 1 301 117 HOH HOH . T 3 HOH D 2 302 68 HOH HOH . T 3 HOH D 3 303 163 HOH HOH . T 3 HOH D 4 304 72 HOH HOH . T 3 HOH D 5 305 125 HOH HOH . T 3 HOH D 6 306 166 HOH HOH . T 3 HOH D 7 307 70 HOH HOH . T 3 HOH D 8 308 173 HOH HOH . T 3 HOH D 9 309 64 HOH HOH . T 3 HOH D 10 310 71 HOH HOH . T 3 HOH D 11 311 91 HOH HOH . T 3 HOH D 12 312 65 HOH HOH . T 3 HOH D 13 313 32 HOH HOH . T 3 HOH D 14 314 120 HOH HOH . T 3 HOH D 15 315 171 HOH HOH . T 3 HOH D 16 316 167 HOH HOH . T 3 HOH D 17 317 63 HOH HOH . T 3 HOH D 18 318 66 HOH HOH . T 3 HOH D 19 319 74 HOH HOH . T 3 HOH D 20 320 165 HOH HOH . T 3 HOH D 21 321 57 HOH HOH . T 3 HOH D 22 322 170 HOH HOH . T 3 HOH D 23 323 124 HOH HOH . T 3 HOH D 24 324 168 HOH HOH . T 3 HOH D 25 325 58 HOH HOH . T 3 HOH D 26 326 33 HOH HOH . T 3 HOH D 27 327 67 HOH HOH . T 3 HOH D 28 328 69 HOH HOH . T 3 HOH D 29 329 172 HOH HOH . T 3 HOH D 30 330 169 HOH HOH . U 3 HOH E 1 301 176 HOH HOH . U 3 HOH E 2 302 178 HOH HOH . U 3 HOH E 3 303 62 HOH HOH . U 3 HOH E 4 304 76 HOH HOH . U 3 HOH E 5 305 77 HOH HOH . U 3 HOH E 6 306 19 HOH HOH . U 3 HOH E 7 307 147 HOH HOH . U 3 HOH E 8 308 175 HOH HOH . U 3 HOH E 9 309 84 HOH HOH . U 3 HOH E 10 310 184 HOH HOH . U 3 HOH E 11 311 177 HOH HOH . U 3 HOH E 12 312 79 HOH HOH . U 3 HOH E 13 313 185 HOH HOH . U 3 HOH E 14 314 60 HOH HOH . U 3 HOH E 15 315 89 HOH HOH . U 3 HOH E 16 316 83 HOH HOH . U 3 HOH E 17 317 90 HOH HOH . U 3 HOH E 18 318 174 HOH HOH . U 3 HOH E 19 319 78 HOH HOH . U 3 HOH E 20 320 73 HOH HOH . U 3 HOH E 21 321 82 HOH HOH . U 3 HOH E 22 322 88 HOH HOH . U 3 HOH E 23 323 75 HOH HOH . U 3 HOH E 24 324 61 HOH HOH . U 3 HOH E 25 325 87 HOH HOH . U 3 HOH E 26 326 186 HOH HOH . U 3 HOH E 27 327 59 HOH HOH . V 3 HOH F 1 301 98 HOH HOH . V 3 HOH F 2 302 96 HOH HOH . V 3 HOH F 3 303 93 HOH HOH . V 3 HOH F 4 304 97 HOH HOH . V 3 HOH F 5 305 94 HOH HOH . V 3 HOH F 6 306 116 HOH HOH . V 3 HOH F 7 307 92 HOH HOH . V 3 HOH F 8 308 100 HOH HOH . V 3 HOH F 9 309 95 HOH HOH . W 3 HOH G 1 301 85 HOH HOH . W 3 HOH G 2 302 164 HOH HOH . W 3 HOH G 3 303 136 HOH HOH . W 3 HOH G 4 304 107 HOH HOH . W 3 HOH G 5 305 102 HOH HOH . W 3 HOH G 6 306 123 HOH HOH . W 3 HOH G 7 307 106 HOH HOH . W 3 HOH G 8 308 103 HOH HOH . W 3 HOH G 9 309 104 HOH HOH . W 3 HOH G 10 310 105 HOH HOH . W 3 HOH G 11 311 101 HOH HOH . W 3 HOH G 12 312 180 HOH HOH . W 3 HOH G 13 313 122 HOH HOH . W 3 HOH G 14 314 179 HOH HOH . W 3 HOH G 15 315 109 HOH HOH . X 3 HOH H 1 301 114 HOH HOH . X 3 HOH H 2 302 182 HOH HOH . X 3 HOH H 3 303 112 HOH HOH . X 3 HOH H 4 304 190 HOH HOH . X 3 HOH H 5 305 113 HOH HOH . X 3 HOH H 6 306 110 HOH HOH . X 3 HOH H 7 307 137 HOH HOH . X 3 HOH H 8 308 181 HOH HOH . X 3 HOH H 9 309 115 HOH HOH . X 3 HOH H 10 310 99 HOH HOH . X 3 HOH H 11 311 183 HOH HOH . X 3 HOH H 12 312 111 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 . . . M 2 -49.112 -15.551 -25.179 1 42.14 ? C12 9EG 201 E 1 HETATM 2 C C11 9EG . . . M 2 -48.903 -16.852 -25.657 1 40.54 ? C11 9EG 201 E 1 HETATM 3 CL CL2 9EG . . . M 2 -48.548 -12.795 -24.956 1 51.19 ? CL2 9EG 201 E 1 HETATM 4 CL CL1 9EG . . . M 2 -52.953 -25.241 -26.397 1 37.48 ? CL1 9EG 201 E 1 HETATM 5 C C8 9EG . . . M 2 -49.957 -19.069 -25.729 1 32.77 ? C8 9EG 201 E 1 HETATM 6 N N1 9EG . . . M 2 -49.791 -17.82 -25.254 1 33.62 ? N1 9EG 201 E 1 HETATM 7 C C4 9EG . . . M 2 -51.496 -20.959 -25.567 1 31.62 ? C4 9EG 201 E 1 HETATM 8 C C5 9EG . . . M 2 -52.33 -21.621 -24.685 1 31.76 ? C5 9EG 201 E 1 HETATM 9 C C6 9EG . . . M 2 -52.765 -22.924 -24.923 1 32.55 ? C6 9EG 201 E 1 HETATM 10 C C1 9EG . . . M 2 -52.386 -23.584 -26.079 1 33.62 ? C1 9EG 201 E 1 HETATM 11 C C2 9EG . . . M 2 -51.555 -22.954 -26.974 1 32.97 ? C2 9EG 201 E 1 HETATM 12 C C3 9EG . . . M 2 -51.112 -21.659 -26.723 1 34.76 ? C3 9EG 201 E 1 HETATM 13 N N7 9EG . . . M 2 -51.038 -19.722 -25.21 1 30.06 ? N7 9EG 201 E 1 HETATM 14 O O9 9EG . . . M 2 -49.205 -19.558 -26.585 1 28.01 ? O9 9EG 201 E 1 HETATM 15 C C13 9EG . . . M 2 -48.281 -14.487 -25.558 1 48.03 ? C13 9EG 201 E 1 HETATM 16 C C14 9EG . . . M 2 -47.233 -14.727 -26.435 1 49.06 ? C14 9EG 201 E 1 HETATM 17 C C15 9EG . . . M 2 -47.012 -16.006 -26.928 1 45.92 ? C15 9EG 201 E 1 HETATM 18 C C16 9EG . . . M 2 -47.834 -17.066 -26.542 1 44.33 ? C16 9EG 201 E 1 HETATM 19 CL CL3 9EG . . . M 2 -46.169 -13.37 -26.934 1 55.29 ? CL3 9EG 201 E 1 # _model_server_stats.io_time_ms 50 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 21 _model_server_stats.query_time_ms 290 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 19 #