data_3N4O # _model_server_result.job_id lHKjfVgijTWy5mFxms-cYQ _model_server_result.datetime_utc '2025-03-06 09:31:29' _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 3n4o # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":25}' # _entry.id 3N4O # _exptl.entry_id 3N4O _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 424.498 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "2'-(4-HYDROXYPHENYL)-5-(4-METHYL-1-PIPERAZINYL)-2,5'-BI-BENZIMIDAZOLE" _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 3N4O _cell.length_a 25.03 _cell.length_b 41.659 _cell.length_c 64.569 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3N4O _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 2 _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 covale ? covale1 A O3' DT 7 D DT 7 1_555 A P B7C 8 D B7C 8 1_555 ? ? ? ? A ? ? ? ? ? ? ? 1.607 ? covale ? covale2 A O3' DT 7 D DT 7 1_555 A P B7C 8 D B7C 8 1_555 ? ? ? ? B ? ? ? ? ? ? ? 1.608 ? covale ? covale3 A O3' B7C 8 D B7C 8 1_555 A P DC 9 D DC 9 1_555 ? A ? ? ? ? ? ? ? ? ? ? 1.61 ? covale ? covale4 A O3' B7C 8 D B7C 8 1_555 A P DC 9 D DC 9 1_555 ? B ? ? ? ? ? ? ? ? ? ? 1.607 ? covale ? covale5 B O3' DT 7 E DT 19 1_555 B P B7C 8 E B7C 20 1_555 ? ? ? ? A ? ? ? ? ? ? ? 1.61 ? covale ? covale6 B O3' DT 7 E DT 19 1_555 B P B7C 8 E B7C 20 1_555 ? ? ? ? B ? ? ? ? ? ? ? 1.609 ? covale ? covale7 B O3' B7C 8 E B7C 20 1_555 B P DC 9 E DC 21 1_555 ? A ? ? ? ? ? ? ? ? ? ? 1.599 ? covale ? covale8 B O3' B7C 8 E B7C 20 1_555 B P DC 9 E DC 21 1_555 ? B ? ? ? ? ? ? ? ? ? ? 1.602 ? hydrog WATSON-CRICK hydrog1 A N3 DC 1 D DC 1 1_555 B N1 DG 12 E DG 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 A N4 DC 1 D DC 1 1_555 B O6 DG 12 E DG 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 A O2 DC 1 D DC 1 1_555 B N2 DG 12 E DG 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 A N1 DG 2 D DG 2 1_555 B N3 DC 11 E DC 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 A N2 DG 2 D DG 2 1_555 B O2 DC 11 E DC 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 A O6 DG 2 D DG 2 1_555 B N4 DC 11 E DC 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 A N3 DC 3 D DC 3 1_555 B N1 DG 10 E DG 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 A N4 DC 3 D DC 3 1_555 B O6 DG 10 E DG 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 A O2 DC 3 D DC 3 1_555 B N2 DG 10 E DG 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 A N1 DG 4 D DG 4 1_555 B N3 DC 9 E DC 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 A N2 DG 4 D DG 4 1_555 B O2 DC 9 E DC 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 A O6 DG 4 D DG 4 1_555 B N4 DC 9 E DC 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 A N1 DA 6 D DA 6 1_555 B N3 DT 7 E DT 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 A N6 DA 6 D DA 6 1_555 B O4 DT 7 E DT 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 A N3 DT 7 D DT 7 1_555 B N1 DA 6 E DA 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 A O4 DT 7 D DT 7 1_555 B N6 DA 6 E DA 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 A N3 DC 9 D DC 9 1_555 B N1 DG 4 E DG 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 A N4 DC 9 D DC 9 1_555 B O6 DG 4 E DG 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 A O2 DC 9 D DC 9 1_555 B N2 DG 4 E DG 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 A N1 DG 10 D DG 10 1_555 B N3 DC 3 E DC 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog21 A N2 DG 10 D DG 10 1_555 B O2 DC 3 E DC 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog22 A O6 DG 10 D DG 10 1_555 B N4 DC 3 E DC 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog23 A N3 DC 11 D DC 11 1_555 B N1 DG 2 E DG 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog24 A N4 DC 11 D DC 11 1_555 B O6 DG 2 E DG 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog25 A O2 DC 11 D DC 11 1_555 B N2 DG 2 E DG 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog26 A N1 DG 12 D DG 12 1_555 B N3 DC 1 E DC 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog27 A N2 DG 12 D DG 12 1_555 B O2 DC 1 E DC 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog28 A O6 DG 12 D DG 12 1_555 B N4 DC 1 E DC 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'C25 H24 N6 O' _chem_comp.formula_weight 424.498 _chem_comp.id HT _chem_comp.mon_nstd_flag . _chem_comp.name "2'-(4-HYDROXYPHENYL)-5-(4-METHYL-1-PIPERAZINYL)-2,5'-BI-BENZIMIDAZOLE" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'HOECHST 33258' # 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 C1 HT sing 193 n n O1 HO1 HT sing 194 n n C1 C2 HT doub 195 n y C1 C6 HT sing 196 n y C2 C3 HT sing 197 n y C2 H2 HT sing 198 n n C3 C4 HT doub 199 n y C3 H3 HT sing 200 n n C4 C5 HT sing 201 n y C4 C7 HT sing 202 n y C5 C6 HT doub 203 n y C5 H5 HT sing 204 n n C6 H6 HT sing 205 n n C7 N1 HT sing 206 n y C7 N2 HT doub 207 n y N1 C8 HT sing 208 n y N1 HN1 HT sing 209 n n C8 C9 HT doub 210 n y C8 C13 HT sing 211 n y C9 N2 HT sing 212 n y C9 C10 HT sing 213 n y C10 C11 HT doub 214 n y C10 H10 HT sing 215 n n C11 C12 HT sing 216 n y C11 H11 HT sing 217 n n C12 C13 HT doub 218 n y C12 C14 HT sing 219 n y C13 H13 HT sing 220 n n C14 N3 HT sing 221 n y C14 N4 HT doub 222 n y N3 C15 HT sing 223 n y N3 HN3 HT sing 224 n n C15 C16 HT doub 225 n y C15 C20 HT sing 226 n y C16 N4 HT sing 227 n y C16 C17 HT sing 228 n y C17 C18 HT doub 229 n y C17 H17 HT sing 230 n n C18 C19 HT sing 231 n y C18 H18 HT sing 232 n n C19 C20 HT doub 233 n y C19 N5 HT sing 234 n n C20 H20 HT sing 235 n n N5 C21 HT sing 236 n n N5 C24 HT sing 237 n n C21 C22 HT sing 238 n n C21 H211 HT sing 239 n n C21 H212 HT sing 240 n n C22 N6 HT sing 241 n n C22 H221 HT sing 242 n n C22 H222 HT sing 243 n n N6 C23 HT sing 244 n n N6 C25 HT sing 245 n n C23 C24 HT sing 246 n n C23 H231 HT sing 247 n n C23 H232 HT sing 248 n n C24 H241 HT sing 249 n n C24 H242 HT sing 250 n n C25 H253 HT sing 251 n n C25 H252 HT sing 252 n n C25 H251 HT sing 253 n n # _atom_sites.entry_id 3N4O _atom_sites.fract_transf_matrix[1][1] 0.039952 _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] 0.024004 _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] 0.015487 _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 C 2 HT E 1 25 25 HT HT . D 3 HOH D 1 13 1 HOH TIP . D 3 HOH D 2 14 4 HOH TIP . D 3 HOH D 3 15 6 HOH TIP . D 3 HOH D 4 16 7 HOH TIP . D 3 HOH D 5 17 17 HOH TIP . D 3 HOH D 6 18 8 HOH TIP . D 3 HOH D 7 19 19 HOH TIP . D 3 HOH D 8 20 10 HOH TIP . D 3 HOH D 9 21 21 HOH TIP . D 3 HOH D 10 22 11 HOH TIP . D 3 HOH D 11 23 2 HOH TIP . D 3 HOH D 12 24 24 HOH TIP . D 3 HOH D 13 27 27 HOH TIP . D 3 HOH D 14 28 28 HOH TIP . D 3 HOH D 15 30 30 HOH TIP . E 3 HOH E 1 3 3 HOH TIP . E 3 HOH E 2 5 5 HOH TIP . E 3 HOH E 3 9 9 HOH TIP . E 3 HOH E 4 12 12 HOH TIP . E 3 HOH E 5 26 26 HOH TIP . E 3 HOH E 6 27 13 HOH TIP . E 3 HOH E 7 28 14 HOH TIP . E 3 HOH E 8 29 29 HOH TIP . E 3 HOH E 9 30 15 HOH TIP . E 3 HOH E 10 31 16 HOH TIP . E 3 HOH E 11 32 18 HOH TIP . E 3 HOH E 12 33 20 HOH TIP . E 3 HOH E 13 34 22 HOH TIP . E 3 HOH E 14 35 25 HOH TIP . E 3 HOH E 15 36 23 HOH TIP . # 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 HT . . . C 2 15.019 -3.104 14.042 1 95.49 ? O1 HT 25 E 1 HETATM 2 C C1 HT . . . C 2 15.414 -2.491 15.192 1 93.88 ? C1 HT 25 E 1 HETATM 3 C C4 HT . . . C 2 16.201 -1.206 17.578 1 89.52 ? C4 HT 25 E 1 HETATM 4 C C2 HT . . . C 2 16.792 -2.447 15.55 1 93 ? C2 HT 25 E 1 HETATM 5 C C3 HT . . . C 2 17.19 -1.806 16.74 1 91.01 ? C3 HT 25 E 1 HETATM 6 C C6 HT . . . C 2 14.444 -1.893 16.03 1 92.95 ? C6 HT 25 E 1 HETATM 7 C C5 HT . . . C 2 14.831 -1.257 17.209 1 90.96 ? C5 HT 25 E 1 HETATM 8 C C7 HT . . . C 2 16.575 -0.507 18.815 1 87.13 ? C7 HT 25 E 1 HETATM 9 N N1 HT . . . C 2 15.677 0.101 19.657 1 85.41 ? N1 HT 25 E 1 HETATM 10 C C8 HT . . . C 2 16.396 0.67 20.674 1 83.42 ? C8 HT 25 E 1 HETATM 11 C C9 HT . . . C 2 17.769 0.365 20.404 1 83.67 ? C9 HT 25 E 1 HETATM 12 N N2 HT . . . C 2 17.799 -0.346 19.264 1 85.56 ? N2 HT 25 E 1 HETATM 13 C C10 HT . . . C 2 18.781 0.832 21.282 1 82.05 ? C10 HT 25 E 1 HETATM 14 C C11 HT . . . C 2 18.432 1.57 22.397 1 81.05 ? C11 HT 25 E 1 HETATM 15 C C12 HT . . . C 2 17.065 1.875 22.674 1 79.91 ? C12 HT 25 E 1 HETATM 16 C C13 HT . . . C 2 16.047 1.414 21.808 1 81.6 ? C13 HT 25 E 1 HETATM 17 C C14 HT . . . C 2 16.735 2.681 23.855 1 77.99 ? C14 HT 25 E 1 HETATM 18 N N3 HT . . . C 2 15.494 2.84 24.396 1 77.07 ? N3 HT 25 E 1 HETATM 19 C C15 HT . . . C 2 15.638 3.686 25.475 1 78.37 ? C15 HT 25 E 1 HETATM 20 C C16 HT . . . C 2 17.018 4.015 25.538 1 78.48 ? C16 HT 25 E 1 HETATM 21 N N4 HT . . . C 2 17.614 3.372 24.529 1 77.36 ? N4 HT 25 E 1 HETATM 22 C C17 HT . . . C 2 17.499 4.891 26.554 1 79.39 ? C17 HT 25 E 1 HETATM 23 C C18 HT . . . C 2 16.619 5.426 27.491 1 80.53 ? C18 HT 25 E 1 HETATM 24 C C19 HT . . . C 2 15.216 5.104 27.445 1 81.01 ? C19 HT 25 E 1 HETATM 25 C C20 HT . . . C 2 14.749 4.223 26.422 1 79.65 ? C20 HT 25 E 1 HETATM 26 N N5 HT . . . C 2 14.264 5.639 28.394 1 82.05 ? N5 HT 25 E 1 HETATM 27 C C21 HT . . . C 2 14.924 6.543 29.404 1 82.07 ? C21 HT 25 E 1 HETATM 28 C C22 HT . . . C 2 13.867 7.079 30.398 1 82.51 ? C22 HT 25 E 1 HETATM 29 N N6 HT . . . C 2 13.239 5.925 31.102 1 82.87 ? N6 HT 25 E 1 HETATM 30 C C23 HT . . . C 2 12.556 5.067 30.101 1 82.49 ? C23 HT 25 E 1 HETATM 31 C C24 HT . . . C 2 13.587 4.514 29.099 1 81.73 ? C24 HT 25 E 1 HETATM 32 C C25 HT . . . C 2 12.232 6.436 32.033 1 83.06 ? C25 HT 25 E 1 # _model_server_stats.io_time_ms 5 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 234 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 32 #