data_217D # _model_server_result.job_id GMcFlJkxpmGsuchm8-DqLQ _model_server_result.datetime_utc '2024-12-20 16:58:09' _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 217d # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":9}' # _entry.id 217D # _exptl.entry_id 217D _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 481.508 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'DISTAMYCIN A' _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 217D _cell.length_a 27.93 _cell.length_b 27.93 _cell.length_c 57.47 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 217D _symmetry.cell_setting ? _symmetry.Int_Tables_number 91 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 2 2' # _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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' 6_555 x,-y,-z+1/2 1 0 0 0 -1 0 0 0 -1 0 0 28.850038 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _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 DC 6 A DC 6 1_555 C MG MG . A MG 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? metalc ? metalc2 C MG MG . A MG 10 1_555 D O HOH . A HOH 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? metalc ? metalc3 C MG MG . A MG 10 1_555 D O HOH . A HOH 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? metalc ? metalc4 C MG MG . A MG 10 1_555 D O HOH . A HOH 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.098 ? # _chem_comp.formula 'C22 H27 N9 O4' _chem_comp.formula_weight 481.508 _chem_comp.id DMY _chem_comp.mon_nstd_flag . _chem_comp.name 'DISTAMYCIN A' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms DISTAMYCIN;STALLIMYCIN # 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 C1 O1 DMY doub 109 n n C1 N1 DMY sing 110 n n C1 H1 DMY sing 111 n n N1 C2 DMY sing 112 n n N1 HN1 DMY sing 113 n n C2 C3 DMY sing 114 n y C2 C5 DMY doub 115 n y C3 C4 DMY doub 116 n y C3 H3 DMY sing 117 n n C4 N2 DMY sing 118 n y C4 C7 DMY sing 119 n n N2 C5 DMY sing 120 n y N2 C6 DMY sing 121 n n C5 H5 DMY sing 122 n n C6 H61 DMY sing 123 n n C6 H62 DMY sing 124 n n C6 H63 DMY sing 125 n n C7 O2 DMY doub 126 n n C7 N3 DMY sing 127 n n N3 C8 DMY sing 128 n n N3 HN3 DMY sing 129 n n C8 C9 DMY sing 130 n y C8 C11 DMY doub 131 n y C9 C10 DMY doub 132 n y C9 H9 DMY sing 133 n n C10 N4 DMY sing 134 n y C10 C13 DMY sing 135 n n N4 C11 DMY sing 136 n y N4 C12 DMY sing 137 n n C11 H11 DMY sing 138 n n C12 H121 DMY sing 139 n n C12 H122 DMY sing 140 n n C12 H123 DMY sing 141 n n C13 O3 DMY doub 142 n n C13 N5 DMY sing 143 n n N5 C14 DMY sing 144 n n N5 HN5 DMY sing 145 n n C14 C15 DMY sing 146 n y C14 C17 DMY doub 147 n y C15 C16 DMY doub 148 n y C15 H15 DMY sing 149 n n C16 N6 DMY sing 150 n y C16 C19 DMY sing 151 n n N6 C17 DMY sing 152 n y N6 C18 DMY sing 153 n n C17 H17 DMY sing 154 n n C18 H181 DMY sing 155 n n C18 H182 DMY sing 156 n n C18 H183 DMY sing 157 n n C19 O4 DMY doub 158 n n C19 N7 DMY sing 159 n n N7 C20 DMY sing 160 n n N7 HN7 DMY sing 161 n n C20 C21 DMY sing 162 n n C20 H201 DMY sing 163 n n C20 H202 DMY sing 164 n n C21 C22 DMY sing 165 n n C21 H211 DMY sing 166 n n C21 H212 DMY sing 167 n n C22 N8 DMY doub 168 n n C22 N9 DMY sing 169 n n N8 HN8 DMY sing 170 n n N9 HN91 DMY sing 171 n n N9 HN92 DMY sing 172 n n # _atom_sites.entry_id 217D _atom_sites.fract_transf_matrix[1][1] 0.035817 _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] 0.035817 _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] 0.017331 _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 B 2 DMY A 1 9 9 DMY DMY . C 3 MG A 1 10 10 MG MG . D 4 HOH A 1 11 11 HOH HOH . D 4 HOH A 2 12 12 HOH HOH . D 4 HOH A 3 13 13 HOH HOH . D 4 HOH A 4 14 14 HOH HOH . D 4 HOH A 5 15 15 HOH HOH . D 4 HOH A 6 16 16 HOH HOH . D 4 HOH A 7 17 17 HOH HOH . D 4 HOH A 8 18 18 HOH HOH . D 4 HOH A 9 19 19 HOH HOH . D 4 HOH A 10 20 20 HOH HOH . D 4 HOH A 11 21 21 HOH HOH . D 4 HOH A 12 22 22 HOH HOH . D 4 HOH A 13 23 23 HOH HOH . D 4 HOH A 14 24 24 HOH HOH . D 4 HOH A 15 25 25 HOH HOH . D 4 HOH A 16 26 26 HOH HOH . D 4 HOH A 17 27 27 HOH HOH . D 4 HOH A 18 28 28 HOH HOH . D 4 HOH A 19 29 29 HOH HOH . D 4 HOH A 20 30 30 HOH HOH . D 4 HOH A 21 31 31 HOH HOH . D 4 HOH A 22 32 32 HOH HOH . D 4 HOH A 23 33 33 HOH HOH . D 4 HOH A 24 34 34 HOH HOH . D 4 HOH A 25 35 35 HOH HOH . D 4 HOH A 26 36 36 HOH HOH . D 4 HOH A 27 37 37 HOH HOH . D 4 HOH A 28 38 38 HOH HOH . D 4 HOH A 29 39 39 HOH HOH . D 4 HOH A 30 40 40 HOH HOH . D 4 HOH A 31 41 41 HOH HOH . D 4 HOH A 32 42 42 HOH HOH . D 4 HOH A 33 43 43 HOH HOH . D 4 HOH A 34 44 44 HOH HOH . D 4 HOH A 35 45 45 HOH HOH . D 4 HOH A 36 46 46 HOH HOH . D 4 HOH A 37 47 47 HOH HOH . D 4 HOH A 38 48 48 HOH HOH . D 4 HOH A 39 49 49 HOH HOH . D 4 HOH A 40 50 50 HOH HOH . D 4 HOH A 41 51 51 HOH HOH . D 4 HOH A 42 52 52 HOH HOH . D 4 HOH A 43 53 53 HOH HOH . D 4 HOH A 44 54 54 HOH HOH . D 4 HOH A 45 55 55 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 C1 DMY . . . B 2 10.426 -3.194 19.552 1 10.39 ? C1 DMY 9 A 1 HETATM 2 O O1 DMY . . . B 2 11.033 -3.535 20.574 1 10.67 ? O1 DMY 9 A 1 HETATM 3 N N1 DMY . . . B 2 10.842 -2.385 18.562 1 10.03 ? N1 DMY 9 A 1 HETATM 4 C C2 DMY . . . B 2 12.04 -1.777 18.485 1 9.9 ? C2 DMY 9 A 1 HETATM 5 C C3 DMY . . . B 2 12.456 -0.954 17.441 1 9.71 ? C3 DMY 9 A 1 HETATM 6 C C4 DMY . . . B 2 13.747 -0.534 17.674 1 9.74 ? C4 DMY 9 A 1 HETATM 7 N N2 DMY . . . B 2 14.158 -1.084 18.85 1 9.72 ? N2 DMY 9 A 1 HETATM 8 C C5 DMY . . . B 2 13.163 -1.829 19.365 1 9.72 ? C5 DMY 9 A 1 HETATM 9 C C6 DMY . . . B 2 15.517 -0.993 19.543 1 9.65 ? C6 DMY 9 A 1 HETATM 10 C C7 DMY . . . B 2 14.589 0.26 16.806 1 9.63 ? C7 DMY 9 A 1 HETATM 11 O O2 DMY . . . B 2 15.81 0.253 16.903 1 9.68 ? O2 DMY 9 A 1 HETATM 12 N N3 DMY . . . B 2 13.899 1.035 15.923 1 9.59 ? N3 DMY 9 A 1 HETATM 13 C C8 DMY . . . B 2 14.493 1.745 14.929 1 9.22 ? C8 DMY 9 A 1 HETATM 14 C C9 DMY . . . B 2 13.842 2.565 14.016 1 9.08 ? C9 DMY 9 A 1 HETATM 15 C C10 DMY . . . B 2 14.757 3.124 13.161 1 9.07 ? C10 DMY 9 A 1 HETATM 16 N N4 DMY . . . B 2 15.977 2.647 13.49 1 9.1 ? N4 DMY 9 A 1 HETATM 17 C C11 DMY . . . B 2 15.856 1.816 14.535 1 9.11 ? C11 DMY 9 A 1 HETATM 18 C C12 DMY . . . B 2 17.339 2.967 12.865 1 9.12 ? C12 DMY 9 A 1 HETATM 19 C C13 DMY . . . B 2 14.495 3.963 12.013 1 9.09 ? C13 DMY 9 A 1 HETATM 20 O O3 DMY . . . B 2 15.286 4.061 11.08 1 8.85 ? O3 DMY 9 A 1 HETATM 21 N N5 DMY . . . B 2 13.321 4.657 12.093 1 9.21 ? N5 DMY 9 A 1 HETATM 22 C C14 DMY . . . B 2 12.801 5.408 11.082 1 9.29 ? C14 DMY 9 A 1 HETATM 23 C C15 DMY . . . B 2 11.625 6.14 11.134 1 9.41 ? C15 DMY 9 A 1 HETATM 24 C C16 DMY . . . B 2 11.407 6.754 9.911 1 9.62 ? C16 DMY 9 A 1 HETATM 25 N N6 DMY . . . B 2 12.412 6.39 9.079 1 9.54 ? N6 DMY 9 A 1 HETATM 26 C C17 DMY . . . B 2 13.267 5.603 9.748 1 9.38 ? C17 DMY 9 A 1 HETATM 27 C C18 DMY . . . B 2 12.586 6.715 7.558 1 9.51 ? C18 DMY 9 A 1 HETATM 28 C C19 DMY . . . B 2 10.281 7.545 9.489 1 9.66 ? C19 DMY 9 A 1 HETATM 29 O O4 DMY . . . B 2 9.882 7.634 8.32 1 9.91 ? O4 DMY 9 A 1 HETATM 30 N N7 DMY . . . B 2 9.686 8.235 10.477 1 9.64 ? N7 DMY 9 A 1 HETATM 31 C C20 DMY . . . B 2 8.517 9.077 10.244 1 9.46 ? C20 DMY 9 A 1 HETATM 32 C C21 DMY . . . B 2 7.214 8.32 10.206 1 9.4 ? C21 DMY 9 A 1 HETATM 33 C C22 DMY . . . B 2 6.035 9.213 9.857 1 9.31 ? C22 DMY 9 A 1 HETATM 34 N N8 DMY . . . B 2 5.744 9.542 8.598 1 9.23 ? N8 DMY 9 A 1 HETATM 35 N N9 DMY . . . B 2 5.292 9.675 10.86 1 9.2 ? N9 DMY 9 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 275 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 35 #