data_6PME # _model_server_result.job_id oy6hHog0Muzh8EYSi_JDrw _model_server_result.datetime_utc '2025-08-31 04:51:39' _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 6pme # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"K","auth_seq_id":802}' # _entry.id 6PME # _exptl.entry_id 6PME _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 459.537 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N-[2,4-bis(morpholin-4-yl)phenyl]-3-phenoxybenzamide _entity.pdbx_number_of_molecules 3 _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 6PME _cell.length_a 131.444 _cell.length_b 152.085 _cell.length_c 156.398 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6PME _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 dodecameric _pdbx_struct_assembly.oligomeric_count 12 _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,J,K,L _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_555 -x,-y,z -1 0 0 0 -1 0 0 0 1 0 0 0 3 'crystal symmetry operation' 3_556 -x,y,-z+1 -1 0 0 0 1 0 0 0 -1 0 0 156.398 4 'crystal symmetry operation' 4_556 x,-y,-z+1 1 0 0 0 -1 0 0 0 -1 0 0 156.398 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 E N N ? 3 H N N ? 3 K 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 covale ? covale1 A C TYR 192 A TYR 676 1_555 A N SEP 193 A SEP 677 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale2 A C SEP 193 A SEP 677 1_555 A N THR 194 A THR 678 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.343 ? covale ? covale3 B C TYR 192 B TYR 676 1_555 B N SEP 193 B SEP 677 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale4 B C SEP 193 B SEP 677 1_555 B N THR 194 B THR 678 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.34 ? covale ? covale5 C C TYR 192 C TYR 676 1_555 C N SEP 193 C SEP 677 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale6 C C SEP 193 C SEP 677 1_555 C N THR 194 C THR 678 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.356 ? metalc ? metalc1 A SG CYS 17 A CYS 501 1_555 J ZN ZN . C ZN 801 3_556 ? ? ? ? ? ? ? ? ? ? ? ? 2.2 ? metalc ? metalc2 A NE2 HIS 20 A HIS 504 1_555 D ZN ZN . A ZN 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.866 ? metalc ? metalc3 A SG CYS 95 A CYS 579 1_555 D ZN ZN . A ZN 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.277 ? metalc ? metalc4 A OE1 GLU 97 A GLU 581 1_555 D ZN ZN . A ZN 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2 ? metalc ? metalc5 D ZN ZN . A ZN 801 1_555 B SG CYS 17 B CYS 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.259 ? metalc ? metalc6 B NE2 HIS 20 B HIS 504 1_555 G ZN ZN . B ZN 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.975 ? metalc ? metalc7 B SG CYS 95 B CYS 579 1_555 G ZN ZN . B ZN 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.217 ? metalc ? metalc8 B OE1 GLU 97 B GLU 581 1_555 G ZN ZN . B ZN 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? metalc ? metalc9 G ZN ZN . B ZN 801 1_555 C SG CYS 17 C CYS 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.178 ? metalc ? metalc10 C NE2 HIS 20 C HIS 504 1_555 J ZN ZN . C ZN 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.939 ? metalc ? metalc11 C SG CYS 95 C CYS 579 1_555 J ZN ZN . C ZN 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.222 ? metalc ? metalc12 C OE1 GLU 97 C GLU 581 1_555 J ZN ZN . C ZN 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? # _chem_comp.formula 'C27 H29 N3 O4' _chem_comp.formula_weight 459.537 _chem_comp.id OOY _chem_comp.mon_nstd_flag . _chem_comp.name N-[2,4-bis(morpholin-4-yl)phenyl]-3-phenoxybenzamide _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 O2 C7 OOY sing 237 n n O2 C8 OOY sing 238 n n C7 C6 OOY sing 239 n n C8 C9 OOY sing 240 n n C6 N2 OOY sing 241 n n C9 N2 OOY sing 242 n n N2 C5 OOY sing 243 n n C5 C10 OOY doub 244 n y C5 C4 OOY sing 245 n y C10 C11 OOY sing 246 n y C4 C3 OOY doub 247 n y C12 N3 OOY sing 248 n n C12 C13 OOY sing 249 n n C11 N3 OOY sing 250 n n C11 C2 OOY doub 251 n y C3 C2 OOY sing 252 n y N3 C15 OOY sing 253 n n C2 N1 OOY sing 254 n n C15 C14 OOY sing 255 n n C13 O3 OOY sing 256 n n O3 C14 OOY sing 257 n n N1 C1 OOY sing 258 n n C1 O1 OOY doub 259 n n C1 C16 OOY sing 260 n n C16 C27 OOY doub 261 n y C16 C17 OOY sing 262 n y C27 C20 OOY sing 263 n y C25 C26 OOY doub 264 n y C25 C24 OOY sing 265 n y C26 C21 OOY sing 266 n y C24 C23 OOY doub 267 n y O4 C20 OOY sing 268 n n O4 C21 OOY sing 269 n n C20 C19 OOY doub 270 n y C21 C22 OOY doub 271 n y C17 C18 OOY doub 272 n y C23 C22 OOY sing 273 n y C19 C18 OOY sing 274 n y C4 H1 OOY sing 275 n n C14 H2 OOY sing 276 n n C14 H3 OOY sing 277 n n C6 H4 OOY sing 278 n n C6 H5 OOY sing 279 n n C7 H6 OOY sing 280 n n C7 H7 OOY sing 281 n n C8 H8 OOY sing 282 n n C8 H9 OOY sing 283 n n C9 H10 OOY sing 284 n n C9 H11 OOY sing 285 n n C10 H12 OOY sing 286 n n C12 H13 OOY sing 287 n n C12 H14 OOY sing 288 n n C13 H15 OOY sing 289 n n C13 H16 OOY sing 290 n n N1 H17 OOY sing 291 n n C3 H18 OOY sing 292 n n C15 H19 OOY sing 293 n n C15 H20 OOY sing 294 n n C17 H21 OOY sing 295 n n C18 H22 OOY sing 296 n n C19 H23 OOY sing 297 n n C22 H24 OOY sing 298 n n C23 H25 OOY sing 299 n n C24 H26 OOY sing 300 n n C25 H27 OOY sing 301 n n C26 H28 OOY sing 302 n n C27 H29 OOY sing 303 n n # _atom_sites.entry_id 6PME _atom_sites.fract_transf_matrix[1][1] 0.007608 _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] 0.006575 _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] 0.006394 _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 D 2 ZN A 1 801 1790 ZN ZN . E 3 OOY A 1 802 1801 OOY DRG . F 4 SRT A 1 803 1 SRT SRT . G 2 ZN B 1 801 1790 ZN ZN . H 3 OOY B 1 802 1801 OOY DRG . I 4 SRT B 1 803 2 SRT SRT . J 2 ZN C 1 801 1790 ZN ZN . K 3 OOY C 1 802 1801 OOY DRG . L 5 HOH C 1 901 2 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 OOY . . . K 3 -33.767 27.019 56.352 1 52.08 ? C4 OOY 802 C 1 HETATM 2 C C14 OOY . . . K 3 -30.856 21.682 54.382 1 63.47 ? C14 OOY 802 C 1 HETATM 3 C C5 OOY . . . K 3 -34.672 25.922 56.233 1 57.03 ? C5 OOY 802 C 1 HETATM 4 C C6 OOY . . . K 3 -36.587 27.451 56.194 1 61.25 ? C6 OOY 802 C 1 HETATM 5 C C11 OOY . . . K 3 -32.745 24.472 55.899 1 55.93 ? C11 OOY 802 C 1 HETATM 6 C C7 OOY . . . K 3 -38.091 27.464 56.335 1 62.53 ? C7 OOY 802 C 1 HETATM 7 C C8 OOY . . . K 3 -38.268 25.338 55.335 1 66.17 ? C8 OOY 802 C 1 HETATM 8 C C9 OOY . . . K 3 -36.762 25.277 55.212 1 64.97 ? C9 OOY 802 C 1 HETATM 9 C C10 OOY . . . K 3 -34.123 24.666 55.99 1 56.81 ? C10 OOY 802 C 1 HETATM 10 C C12 OOY . . . K 3 -32.501 22.099 56.627 1 60.42 ? C12 OOY 802 C 1 HETATM 11 C C13 OOY . . . K 3 -31.418 21.06 56.514 1 61.21 ? C13 OOY 802 C 1 HETATM 12 N N1 OOY . . . K 3 -30.484 25.277 55.897 1 48.23 ? N1 OOY 802 C 1 HETATM 13 N N2 OOY . . . K 3 -36.088 26.075 56.251 1 62.15 ? N2 OOY 802 C 1 HETATM 14 C C3 OOY . . . K 3 -32.413 26.839 56.232 1 49.85 ? C3 OOY 802 C 1 HETATM 15 N N3 OOY . . . K 3 -32.288 23.203 55.665 1 59.77 ? N3 OOY 802 C 1 HETATM 16 O O1 OOY . . . K 3 -29.321 27.17 56.517 1 44.95 ? O1 OOY 802 C 1 HETATM 17 C C1 OOY . . . K 3 -29.347 25.989 56.197 1 50.47 ? C1 OOY 802 C 1 HETATM 18 C C2 OOY . . . K 3 -31.874 25.566 56.004 1 49.94 ? C2 OOY 802 C 1 HETATM 19 O O2 OOY . . . K 3 -38.742 26.683 55.333 1 64.97 ? O2 OOY 802 C 1 HETATM 20 O O3 OOY . . . K 3 -31.352 20.612 55.175 1 64.4 ? O3 OOY 802 C 1 HETATM 21 C C15 OOY . . . K 3 -31.851 22.805 54.318 1 61.75 ? C15 OOY 802 C 1 HETATM 22 C C16 OOY . . . K 3 -28.042 25.254 56.082 1 55.67 ? C16 OOY 802 C 1 HETATM 23 C C17 OOY . . . K 3 -26.875 25.993 55.959 1 59.49 ? C17 OOY 802 C 1 HETATM 24 C C18 OOY . . . K 3 -25.654 25.339 55.854 1 61.4 ? C18 OOY 802 C 1 HETATM 25 C C19 OOY . . . K 3 -25.574 23.954 55.877 1 57.84 ? C19 OOY 802 C 1 HETATM 26 C C20 OOY . . . K 3 -26.727 23.214 56.022 1 54.49 ? C20 OOY 802 C 1 HETATM 27 O O4 OOY . . . K 3 -26.711 21.824 56.016 1 57.05 ? O4 OOY 802 C 1 HETATM 28 C C21 OOY . . . K 3 -27.337 21.153 54.961 1 75.18 ? C21 OOY 802 C 1 HETATM 29 C C22 OOY . . . K 3 -27.553 21.801 53.755 1 80.27 ? C22 OOY 802 C 1 HETATM 30 C C23 OOY . . . K 3 -28.214 21.145 52.72 1 77.91 ? C23 OOY 802 C 1 HETATM 31 C C24 OOY . . . K 3 -28.654 19.848 52.887 1 80.46 ? C24 OOY 802 C 1 HETATM 32 C C25 OOY . . . K 3 -28.445 19.211 54.096 1 83.44 ? C25 OOY 802 C 1 HETATM 33 C C26 OOY . . . K 3 -27.778 19.856 55.139 1 82.99 ? C26 OOY 802 C 1 HETATM 34 C C27 OOY . . . K 3 -27.948 23.859 56.104 1 58.44 ? C27 OOY 802 C 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 322 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 34 #