data_443D # _model_server_result.job_id o_FAVIHbxg_6YMMFRtNPeA _model_server_result.datetime_utc '2024-10-18 15:24:41' _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 443d # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":25}' # _entry.id 443D # _exptl.entry_id 443D _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 535.403 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "2'-(3-IODOPHENYL)-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 443D _cell.length_a 24.913 _cell.length_b 34.153 _cell.length_c 61.296 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 443D _symmetry.cell_setting orthorhombic _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 ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G _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 metalc ? metalc1 A OP2 DG 10 A DG 10 2_654 E MG MG . B MG 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.777 ? metalc ? metalc2 A OP1 DG 12 A DG 12 1_555 D MG MG . A MG 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.15 ? metalc ? metalc3 D MG MG . A MG 26 1_555 F O HOH . A HOH 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? metalc ? metalc4 D MG MG . A MG 26 1_555 F O HOH . A HOH 69 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? metalc ? metalc5 D MG MG . A MG 26 1_555 F O HOH . A HOH 70 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.228 ? metalc ? metalc6 D MG MG . A MG 26 1_555 F O HOH . A HOH 71 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.085 ? metalc ? metalc7 D MG MG . A MG 26 1_555 B OP1 DT 8 B DT 20 4_456 ? ? ? ? ? ? ? ? ? ? ? ? 2.013 ? metalc ? metalc8 B OP1 DT 7 B DT 19 3_645 E MG MG . B MG 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.647 ? metalc ? metalc9 B OP1 DC 11 B DC 23 1_555 E MG MG . B MG 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.472 ? hydrog WATSON-CRICK hydrog1 A N3 DC 1 A DC 1 1_555 B N1 DG 12 B DG 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 A N4 DC 1 A DC 1 1_555 B O6 DG 12 B DG 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 A O2 DC 1 A DC 1 1_555 B N2 DG 12 B DG 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 A N1 DG 2 A DG 2 1_555 B N3 DC 11 B DC 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 A N2 DG 2 A DG 2 1_555 B O2 DC 11 B DC 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 A O6 DG 2 A DG 2 1_555 B N4 DC 11 B DC 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 A N3 DC 3 A DC 3 1_555 B N1 DG 10 B DG 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 A N4 DC 3 A DC 3 1_555 B O6 DG 10 B DG 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 A O2 DC 3 A DC 3 1_555 B N2 DG 10 B DG 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 A N1 DG 4 A DG 4 1_555 B N3 DC 9 B DC 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 A N2 DG 4 A DG 4 1_555 B O2 DC 9 B DC 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 A O6 DG 4 A DG 4 1_555 B N4 DC 9 B DC 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 A N1 DA 5 A DA 5 1_555 B N3 DT 8 B DT 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 A N6 DA 5 A DA 5 1_555 B O4 DT 8 B DT 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 A N1 DA 6 A DA 6 1_555 B N3 DT 7 B DT 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 A N6 DA 6 A DA 6 1_555 B O4 DT 7 B DT 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 A N3 DT 7 A DT 7 1_555 B N1 DA 6 B DA 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 A O4 DT 7 A DT 7 1_555 B N6 DA 6 B DA 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 A N3 DT 8 A DT 8 1_555 B N1 DA 5 B DA 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 A O4 DT 8 A DT 8 1_555 B N6 DA 5 B DA 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog21 A N3 DC 9 A DC 9 1_555 B N1 DG 4 B DG 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog22 A N4 DC 9 A DC 9 1_555 B O6 DG 4 B DG 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog23 A O2 DC 9 A DC 9 1_555 B N2 DG 4 B DG 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog24 A N1 DG 10 A DG 10 1_555 B N3 DC 3 B DC 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog25 A N2 DG 10 A DG 10 1_555 B O2 DC 3 B DC 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog26 A O6 DG 10 A DG 10 1_555 B N4 DC 3 B DC 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog27 A N3 DC 11 A DC 11 1_555 B N1 DG 2 B DG 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog28 A N4 DC 11 A DC 11 1_555 B O6 DG 2 B DG 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog29 A O2 DC 11 A DC 11 1_555 B N2 DG 2 B DG 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog30 A N1 DG 12 A DG 12 1_555 B N3 DC 1 B DC 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog31 A N2 DG 12 A DG 12 1_555 B O2 DC 1 B DC 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog32 A O6 DG 12 A DG 12 1_555 B N4 DC 1 B DC 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'C25 H24 I N6 1' _chem_comp.formula_weight 535.403 _chem_comp.id IA _chem_comp.mon_nstd_flag . _chem_comp.name "2'-(3-IODOPHENYL)-5-(4-METHYL-1-PIPERAZINYL)-2,5'-BI-BENZIMIDAZOLE" _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 C C2 IA doub 152 n y C C4 IA sing 153 n y C H IA sing 154 n n C1 C3 IA doub 155 n y C1 C5 IA sing 156 n y C1 C6 IA sing 157 n y C2 C3 IA sing 158 n y C2 H2 IA sing 159 n n C3 H3 IA sing 160 n n C4 C5 IA doub 161 n y C4 I IA sing 162 n n C5 H5 IA sing 163 n n C6 N1 IA sing 164 n y C6 N2 IA doub 165 n y C7 C8 IA doub 166 n y C7 C12 IA sing 167 n y C7 N1 IA sing 168 n y C8 C9 IA sing 169 n y C8 N2 IA sing 170 n y C9 C10 IA doub 171 n y C9 H9 IA sing 172 n n C10 C11 IA sing 173 n y C10 H10 IA sing 174 n n C11 C12 IA doub 175 n y C11 C13 IA sing 176 n y C12 H12 IA sing 177 n n N1 HN1 IA sing 178 n n C13 N3 IA sing 179 n y C13 N4 IA doub 180 n y C14 C15 IA doub 181 n y C14 C19 IA sing 182 n y C14 N3 IA sing 183 n y C15 C16 IA sing 184 n y C15 N4 IA sing 185 n y C16 C17 IA doub 186 n y C16 H16 IA sing 187 n n C17 C18 IA sing 188 n y C17 H17 IA sing 189 n n C18 C19 IA doub 190 n y C18 N6 IA sing 191 n n C19 H19 IA sing 192 n n N3 HN3 IA sing 193 n n N6 C20 IA sing 194 n n N6 C23 IA sing 195 n n N7 C21 IA sing 196 n n N7 C22 IA sing 197 n n N7 C24 IA sing 198 n n N7 HN7 IA sing 199 n n C20 C21 IA sing 200 n n C20 H201 IA sing 201 n n C20 H202 IA sing 202 n n C21 H211 IA sing 203 n n C21 H212 IA sing 204 n n C22 C23 IA sing 205 n n C22 H221 IA sing 206 n n C22 H222 IA sing 207 n n C23 H231 IA sing 208 n n C23 H232 IA sing 209 n n C24 H241 IA sing 210 n n C24 H242 IA sing 211 n n C24 H243 IA sing 212 n n # _atom_sites.entry_id 443D _atom_sites.fract_transf_matrix[1][1] 0.04014 _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] 0.02928 _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] 0.016314 _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 IA A 1 25 25 IA IA . D 3 MG A 1 26 26 MG MG1 . E 3 MG B 1 27 27 MG MG2 . F 4 HOH A 1 29 29 HOH H2O . F 4 HOH A 2 31 31 HOH H2O . F 4 HOH A 3 32 32 HOH H2O . F 4 HOH A 4 33 33 HOH H2O . F 4 HOH A 5 36 36 HOH H2O . F 4 HOH A 6 37 37 HOH H2O . F 4 HOH A 7 38 38 HOH H2O . F 4 HOH A 8 43 43 HOH H2O . F 4 HOH A 9 45 45 HOH H2O . F 4 HOH A 10 47 47 HOH H2O . F 4 HOH A 11 48 48 HOH H2O . F 4 HOH A 12 49 49 HOH H2O . F 4 HOH A 13 50 50 HOH H2O . F 4 HOH A 14 51 51 HOH H2O . F 4 HOH A 15 53 53 HOH H2O . F 4 HOH A 16 54 54 HOH H2O . F 4 HOH A 17 58 58 HOH H2O . F 4 HOH A 18 59 59 HOH H2O . F 4 HOH A 19 64 64 HOH H2O . F 4 HOH A 20 65 65 HOH H2O . F 4 HOH A 21 68 26 HOH MG1 . F 4 HOH A 22 69 26 HOH MG1 . F 4 HOH A 23 70 26 HOH MG1 . F 4 HOH A 24 71 26 HOH MG1 . G 4 HOH B 1 28 28 HOH H2O . G 4 HOH B 2 30 30 HOH H2O . G 4 HOH B 3 34 34 HOH H2O . G 4 HOH B 4 35 35 HOH H2O . G 4 HOH B 5 39 39 HOH H2O . G 4 HOH B 6 40 40 HOH H2O . G 4 HOH B 7 41 41 HOH H2O . G 4 HOH B 8 42 42 HOH H2O . G 4 HOH B 9 44 44 HOH H2O . G 4 HOH B 10 46 46 HOH H2O . G 4 HOH B 11 52 52 HOH H2O . G 4 HOH B 12 55 55 HOH H2O . G 4 HOH B 13 56 56 HOH H2O . G 4 HOH B 14 57 57 HOH H2O . G 4 HOH B 15 60 60 HOH H2O . G 4 HOH B 16 61 61 HOH H2O . G 4 HOH B 17 62 62 HOH H2O . G 4 HOH B 18 63 63 HOH H2O . G 4 HOH B 19 66 66 HOH H2O . G 4 HOH B 20 67 67 HOH H2O . # 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 C IA . . . C 2 15.101 -0.074 12.52 1 13.03 ? C IA 25 A 1 HETATM 2 C C1 IA . . . C 2 16.242 1.52 14.859 1 12.98 ? C1 IA 25 A 1 HETATM 3 C C2 IA . . . C 2 14.193 0.753 13.539 1 13.3 ? C2 IA 25 A 1 HETATM 4 C C3 IA . . . C 2 14.797 1.536 14.7 1 11.85 ? C3 IA 25 A 1 HETATM 5 C C4 IA . . . C 2 16.608 0.08 12.901 1 11.5 ? C4 IA 25 A 1 HETATM 6 C C5 IA . . . C 2 17.116 0.833 14.026 1 18.4 ? C5 IA 25 A 1 HETATM 7 C C6 IA . . . C 2 16.653 2.273 15.946 1 14.97 ? C6 IA 25 A 1 HETATM 8 C C7 IA . . . C 2 16.692 3.326 17.841 1 8.64 ? C7 IA 25 A 1 HETATM 9 C C8 IA . . . C 2 17.964 3.489 17.095 1 8.87 ? C8 IA 25 A 1 HETATM 10 C C9 IA . . . C 2 19.141 4.253 17.643 1 13.29 ? C9 IA 25 A 1 HETATM 11 C C10 IA . . . C 2 18.912 4.848 18.968 1 14.99 ? C10 IA 25 A 1 HETATM 12 C C11 IA . . . C 2 17.604 4.667 19.668 1 14.63 ? C11 IA 25 A 1 HETATM 13 C C12 IA . . . C 2 16.523 3.934 19.119 1 7.32 ? C12 IA 25 A 1 HETATM 14 N N1 IA . . . C 2 15.915 2.542 17.024 1 12.96 ? N1 IA 25 A 1 HETATM 15 N N2 IA . . . C 2 17.907 2.771 16.001 1 12.58 ? N2 IA 25 A 1 HETATM 16 C C13 IA . . . C 2 17.373 5.179 20.94 1 15.92 ? C13 IA 25 A 1 HETATM 17 C C14 IA . . . C 2 16.509 5.744 22.881 1 18.15 ? C14 IA 25 A 1 HETATM 18 C C15 IA . . . C 2 17.73 6.474 22.689 1 19.39 ? C15 IA 25 A 1 HETATM 19 C C16 IA . . . C 2 18.328 7.384 23.764 1 17.53 ? C16 IA 25 A 1 HETATM 20 C C17 IA . . . C 2 17.575 7.47 25.06 1 18.36 ? C17 IA 25 A 1 HETATM 21 C C18 IA . . . C 2 16.247 6.644 25.238 1 22.4 ? C18 IA 25 A 1 HETATM 22 C C19 IA . . . C 2 15.836 5.833 24.072 1 18.11 ? C19 IA 25 A 1 HETATM 23 N N3 IA . . . C 2 16.43 4.927 21.793 1 17.02 ? N3 IA 25 A 1 HETATM 24 N N4 IA . . . C 2 18.161 6.204 21.464 1 16.8 ? N4 IA 25 A 1 HETATM 25 N N6 IA . . . C 2 15.503 6.601 26.516 1 24.47 ? N6 IA 25 A 1 HETATM 26 N N7 IA . . . C 2 14.129 6.323 29.033 1 35.55 ? N7 IA 25 A 1 HETATM 27 C C20 IA . . . C 2 14.028 6.136 26.501 1 30.41 ? C20 IA 25 A 1 HETATM 28 C C21 IA . . . C 2 13.533 6.919 27.737 1 42.79 ? C21 IA 25 A 1 HETATM 29 C C22 IA . . . C 2 15.636 6.604 28.899 1 28.23 ? C22 IA 25 A 1 HETATM 30 C C23 IA . . . C 2 15.913 5.687 27.696 1 33.11 ? C23 IA 25 A 1 HETATM 31 C C24 IA . . . C 2 13.457 6.922 30.289 1 25.88 ? C24 IA 25 A 1 HETATM 32 I I IA . . . C 2 17.729 -0.985 11.65 1 26.62 ? I IA 25 A 1 # _model_server_stats.io_time_ms 0 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 1 _model_server_stats.query_time_ms 275 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 32 #