data_311D # _model_server_result.job_id rIdr0R02PsUiHBxS8Lmtvg _model_server_result.datetime_utc '2024-10-18 16:31:06' _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 311d # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":25}' # _entry.id 311D # _exptl.entry_id 311D _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 394.432 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 5-AMIDINO-2-[2-(4-AMIDINOPHENYL)-5-BENZIMIDAZOLYL]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 311D _cell.length_a 25.75 _cell.length_b 40.56 _cell.length_c 66.26 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 311D _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 ? _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 _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 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 'DT-DA PAIR' hydrog17 A N3 DT 7 A DT 7 1_555 B N1 DA 6 B DA 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 A N3 DT 8 A DT 8 1_555 B N1 DA 5 B DA 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 A O4 DT 8 A DT 8 1_555 B N6 DA 5 B DA 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 A N3 DC 9 A DC 9 1_555 B N1 DG 4 B DG 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog21 A N4 DC 9 A DC 9 1_555 B O6 DG 4 B DG 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog22 A O2 DC 9 A DC 9 1_555 B N2 DG 4 B DG 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog23 A N1 DG 10 A DG 10 1_555 B N3 DC 3 B DC 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog24 A N2 DG 10 A DG 10 1_555 B O2 DC 3 B DC 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog25 A O6 DG 10 A DG 10 1_555 B N4 DC 3 B DC 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog26 A N3 DC 11 A DC 11 1_555 B N1 DG 2 B DG 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog27 A N4 DC 11 A DC 11 1_555 B O6 DG 2 B DG 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog28 A O2 DC 11 A DC 11 1_555 B N2 DG 2 B DG 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog29 A N1 DG 12 A DG 12 1_555 B N3 DC 1 B DC 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog30 A N2 DG 12 A DG 12 1_555 B O2 DC 1 B DC 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog31 A O6 DG 12 A DG 12 1_555 B N4 DC 1 B DC 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'C22 H18 N8' _chem_comp.formula_weight 394.432 _chem_comp.id HT2 _chem_comp.mon_nstd_flag . _chem_comp.name 5-AMIDINO-2-[2-(4-AMIDINOPHENYL)-5-BENZIMIDAZOLYL]BENZIMIDAZOLE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'BIS-AMIDINIUM DERIVATIVE OF 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 N1 C1 HT2 sing 152 n n N1 HN11 HT2 sing 153 n n N1 HN12 HT2 sing 154 n n N2 C1 HT2 doub 155 n n N2 HN2 HT2 sing 156 n n C1 C2 HT2 sing 157 n n C2 C3 HT2 doub 158 n y C2 C7 HT2 sing 159 n y C3 C4 HT2 sing 160 n y C3 H3 HT2 sing 161 n n C4 C5 HT2 doub 162 n y C4 N3 HT2 sing 163 n y C5 C6 HT2 sing 164 n y C5 N4 HT2 sing 165 n y C6 C7 HT2 doub 166 n y C6 H6 HT2 sing 167 n n C7 H7 HT2 sing 168 n n N3 C8 HT2 sing 169 n y N3 HN3 HT2 sing 170 n n C8 N4 HT2 doub 171 n y C8 C9 HT2 sing 172 n y C9 C10 HT2 doub 173 n y C9 C14 HT2 sing 174 n y C10 C11 HT2 sing 175 n y C10 H10 HT2 sing 176 n n C11 C12 HT2 doub 177 n y C11 N5 HT2 sing 178 n y C12 C13 HT2 sing 179 n y C12 N6 HT2 sing 180 n y C13 C14 HT2 doub 181 n y C13 H13 HT2 sing 182 n n C14 H14 HT2 sing 183 n n N5 C15 HT2 sing 184 n y N5 HN5 HT2 sing 185 n n C15 N6 HT2 doub 186 n y C15 C16 HT2 sing 187 n y C16 C17 HT2 sing 188 n y C16 C21 HT2 doub 189 n y C17 C18 HT2 doub 190 n y C17 H17 HT2 sing 191 n n C18 C19 HT2 sing 192 n y C18 H18 HT2 sing 193 n n C19 C20 HT2 doub 194 n y C19 C22 HT2 sing 195 n n C20 C21 HT2 sing 196 n y C20 H20 HT2 sing 197 n n C21 H21 HT2 sing 198 n n C22 N7 HT2 sing 199 n n C22 N8 HT2 doub 200 n n N7 HN71 HT2 sing 201 n n N7 HN72 HT2 sing 202 n n N8 HN8 HT2 sing 203 n n # _atom_sites.entry_id 311D _atom_sites.fract_transf_matrix[1][1] 0.038835 _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] 0.024655 _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] 0.015092 _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 HT2 B 1 25 25 HT2 HT2 . D 3 HOH A 1 27 27 HOH HOH . D 3 HOH A 2 30 30 HOH HOH . D 3 HOH A 3 34 34 HOH HOH . D 3 HOH A 4 35 35 HOH HOH . D 3 HOH A 5 36 36 HOH HOH . D 3 HOH A 6 37 37 HOH HOH . D 3 HOH A 7 38 38 HOH HOH . D 3 HOH A 8 39 39 HOH HOH . D 3 HOH A 9 41 41 HOH HOH . D 3 HOH A 10 42 42 HOH HOH . D 3 HOH A 11 43 43 HOH HOH . D 3 HOH A 12 44 44 HOH HOH . D 3 HOH A 13 47 47 HOH HOH . D 3 HOH A 14 48 48 HOH HOH . D 3 HOH A 15 50 50 HOH HOH . D 3 HOH A 16 51 51 HOH HOH . D 3 HOH A 17 52 52 HOH HOH . D 3 HOH A 18 55 55 HOH HOH . D 3 HOH A 19 57 57 HOH HOH . D 3 HOH A 20 58 58 HOH HOH . D 3 HOH A 21 59 59 HOH HOH . D 3 HOH A 22 60 60 HOH HOH . D 3 HOH A 23 61 61 HOH HOH . D 3 HOH A 24 63 63 HOH HOH . D 3 HOH A 25 65 65 HOH HOH . D 3 HOH A 26 66 66 HOH HOH . D 3 HOH A 27 67 67 HOH HOH . D 3 HOH A 28 68 68 HOH HOH . D 3 HOH A 29 69 69 HOH HOH . D 3 HOH A 30 71 71 HOH HOH . D 3 HOH A 31 73 73 HOH HOH . D 3 HOH A 32 76 76 HOH HOH . D 3 HOH A 33 77 77 HOH HOH . D 3 HOH A 34 80 80 HOH HOH . D 3 HOH A 35 81 81 HOH HOH . D 3 HOH A 36 82 82 HOH HOH . D 3 HOH A 37 83 83 HOH HOH . D 3 HOH A 38 84 84 HOH HOH . D 3 HOH A 39 85 85 HOH HOH . D 3 HOH A 40 86 86 HOH HOH . D 3 HOH A 41 87 87 HOH HOH . D 3 HOH A 42 88 88 HOH HOH . D 3 HOH A 43 89 89 HOH HOH . D 3 HOH A 44 91 91 HOH HOH . D 3 HOH A 45 92 92 HOH HOH . D 3 HOH A 46 93 93 HOH HOH . D 3 HOH A 47 94 94 HOH HOH . D 3 HOH A 48 96 96 HOH HOH . D 3 HOH A 49 97 97 HOH HOH . D 3 HOH A 50 98 98 HOH HOH . D 3 HOH A 51 100 100 HOH HOH . D 3 HOH A 52 101 101 HOH HOH . D 3 HOH A 53 102 102 HOH HOH . E 3 HOH B 1 26 26 HOH HOH . E 3 HOH B 2 28 28 HOH HOH . E 3 HOH B 3 29 29 HOH HOH . E 3 HOH B 4 31 31 HOH HOH . E 3 HOH B 5 32 32 HOH HOH . E 3 HOH B 6 33 33 HOH HOH . E 3 HOH B 7 40 40 HOH HOH . E 3 HOH B 8 45 45 HOH HOH . E 3 HOH B 9 46 46 HOH HOH . E 3 HOH B 10 49 49 HOH HOH . E 3 HOH B 11 53 53 HOH HOH . E 3 HOH B 12 54 54 HOH HOH . E 3 HOH B 13 56 56 HOH HOH . E 3 HOH B 14 62 62 HOH HOH . E 3 HOH B 15 64 64 HOH HOH . E 3 HOH B 16 70 70 HOH HOH . E 3 HOH B 17 72 72 HOH HOH . E 3 HOH B 18 74 74 HOH HOH . E 3 HOH B 19 75 75 HOH HOH . E 3 HOH B 20 78 78 HOH HOH . E 3 HOH B 21 79 79 HOH HOH . E 3 HOH B 22 90 90 HOH HOH . E 3 HOH B 23 95 95 HOH HOH . E 3 HOH B 24 99 99 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 N N1 HT2 . . . C 2 10.831 19.702 13.678 1 41.9 ? N1 HT2 25 B 1 HETATM 2 N N2 HT2 . . . C 2 8.938 19.031 14.725 1 38.17 ? N2 HT2 25 B 1 HETATM 3 C C1 HT2 . . . C 2 9.508 19.724 13.711 1 36.16 ? C1 HT2 25 B 1 HETATM 4 C C2 HT2 . . . C 2 8.86 20.46 12.693 1 29.09 ? C2 HT2 25 B 1 HETATM 5 C C3 HT2 . . . C 2 9.674 20.935 11.657 1 32 ? C3 HT2 25 B 1 HETATM 6 C C4 HT2 . . . C 2 9.151 21.706 10.601 1 28.95 ? C4 HT2 25 B 1 HETATM 7 C C5 HT2 . . . C 2 7.792 22.029 10.556 1 27.86 ? C5 HT2 25 B 1 HETATM 8 C C6 HT2 . . . C 2 6.944 21.561 11.556 1 28.75 ? C6 HT2 25 B 1 HETATM 9 C C7 HT2 . . . C 2 7.479 20.765 12.623 1 28.99 ? C7 HT2 25 B 1 HETATM 10 N N3 HT2 . . . C 2 9.763 22.266 9.539 1 29.01 ? N3 HT2 25 B 1 HETATM 11 C C8 HT2 . . . C 2 8.804 22.96 8.853 1 28.23 ? C8 HT2 25 B 1 HETATM 12 N N4 HT2 . . . C 2 7.623 22.813 9.426 1 31.85 ? N4 HT2 25 B 1 HETATM 13 C C9 HT2 . . . C 2 9.074 23.689 7.739 1 30.33 ? C9 HT2 25 B 1 HETATM 14 C C10 HT2 . . . C 2 10.319 23.638 7.137 1 34.01 ? C10 HT2 25 B 1 HETATM 15 C C11 HT2 . . . C 2 10.5 24.284 5.906 1 36.74 ? C11 HT2 25 B 1 HETATM 16 C C12 HT2 . . . C 2 9.463 24.986 5.328 1 38.52 ? C12 HT2 25 B 1 HETATM 17 C C13 HT2 . . . C 2 8.238 25.044 5.971 1 38.12 ? C13 HT2 25 B 1 HETATM 18 C C14 HT2 . . . C 2 8.052 24.412 7.195 1 35.24 ? C14 HT2 25 B 1 HETATM 19 N N5 HT2 . . . C 2 11.553 24.403 5.067 1 38.9 ? N5 HT2 25 B 1 HETATM 20 C C15 HT2 . . . C 2 11.167 25.174 3.994 1 41.35 ? C15 HT2 25 B 1 HETATM 21 N N6 HT2 . . . C 2 9.932 25.583 4.166 1 43.1 ? N6 HT2 25 B 1 HETATM 22 C C16 HT2 . . . C 2 11.905 25.386 2.865 1 44.19 ? C16 HT2 25 B 1 HETATM 23 C C17 HT2 . . . C 2 12.985 24.552 2.599 1 46.93 ? C17 HT2 25 B 1 HETATM 24 C C18 HT2 . . . C 2 13.762 24.788 1.47 1 49.77 ? C18 HT2 25 B 1 HETATM 25 C C19 HT2 . . . C 2 13.464 25.886 0.639 1 54.18 ? C19 HT2 25 B 1 HETATM 26 C C20 HT2 . . . C 2 12.32 26.667 0.885 1 51.71 ? C20 HT2 25 B 1 HETATM 27 C C21 HT2 . . . C 2 11.54 26.43 2.021 1 47.84 ? C21 HT2 25 B 1 HETATM 28 C C22 HT2 . . . C 2 14.339 26.245 -0.394 1 58.37 ? C22 HT2 25 B 1 HETATM 29 N N7 HT2 . . . C 2 15.627 25.883 -0.321 1 58.29 ? N7 HT2 25 B 1 HETATM 30 N N8 HT2 . . . C 2 13.884 26.961 -1.427 1 61.3 ? N8 HT2 25 B 1 # _model_server_stats.io_time_ms 4 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 1 _model_server_stats.query_time_ms 245 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 30 #