data_1IMS # _model_server_result.job_id JENrZhfuJvGh55ovF5ZG6Q _model_server_result.datetime_utc '2025-03-09 04:04:43' _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 1ims # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":7}' # _entry.id 1IMS # _exptl.entry_id 1IMS _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 654.424 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "4'-DEOXY-4'-IODODOXORUBICIN" _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 1IMS _cell.length_a 27.73 _cell.length_b 27.73 _cell.length_c 52.49 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1IMS _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 41 21 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 _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' 8_665 -y+1,-x+1,-z+1/2 0 -1 0 -1 0 0 0 0 -1 27.73 27.73 26.245 # _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 hydrog WATSON-CRICK hydrog1 A N3 DC 1 A DC 1 1_555 A N1 DG 6 A DG 6 8_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 A N4 DC 1 A DC 1 1_555 A O6 DG 6 A DG 6 8_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 A O2 DC 1 A DC 1 1_555 A N2 DG 6 A DG 6 8_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 A N1 DG 2 A DG 2 1_555 A N3 DC 5 A DC 5 8_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 A N2 DG 2 A DG 2 1_555 A O2 DC 5 A DC 5 8_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 A O6 DG 2 A DG 2 1_555 A N4 DC 5 A DC 5 8_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 A N1 DA 3 A DA 3 1_555 A N3 DT 4 A DT 4 8_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 A N6 DA 3 A DA 3 1_555 A O4 DT 4 A DT 4 8_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 A N3 DT 4 A DT 4 1_555 A N1 DA 3 A DA 3 8_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 A O4 DT 4 A DT 4 1_555 A N6 DA 3 A DA 3 8_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 A N3 DC 5 A DC 5 1_555 A N1 DG 2 A DG 2 8_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 A N4 DC 5 A DC 5 1_555 A O6 DG 2 A DG 2 8_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 A O2 DC 5 A DC 5 1_555 A N2 DG 2 A DG 2 8_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 A N1 DG 6 A DG 6 1_555 A N3 DC 1 A DC 1 8_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 A N2 DG 6 A DG 6 1_555 A O2 DC 1 A DC 1 8_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 A O6 DG 6 A DG 6 1_555 A N4 DC 1 A DC 1 8_665 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'C27 H29 I N O10 1' _chem_comp.formula_weight 654.424 _chem_comp.id DM7 _chem_comp.mon_nstd_flag . _chem_comp.name "4'-DEOXY-4'-IODODOXORUBICIN" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "4'-DEOXY-4'-IODOADRIAMYCIN" # 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 C2 DM7 doub 113 n y C1 C15 DM7 sing 114 n y C1 H1 DM7 sing 115 n n C2 C3 DM7 sing 116 n y C2 H2 DM7 sing 117 n n C3 C4 DM7 doub 118 n y C3 H3 DM7 sing 119 n n C4 C16 DM7 sing 120 n y C4 O4 DM7 sing 121 n n C5 C16 DM7 sing 122 n n C5 C17 DM7 sing 123 n n C5 O5 DM7 doub 124 n n C6 C17 DM7 doub 125 n y C6 C19 DM7 sing 126 n y C6 O6 DM7 sing 127 n n C7 C8 DM7 sing 128 n n C7 C19 DM7 sing 129 n n C7 O7 DM7 sing 130 n n C7 H7 DM7 sing 131 n n C8 C9 DM7 sing 132 n n C8 H81 DM7 sing 133 n n C8 H82 DM7 sing 134 n n C9 C10 DM7 sing 135 n n C9 C13 DM7 sing 136 n n C9 O9 DM7 sing 137 n n C10 C20 DM7 sing 138 n n C10 H101 DM7 sing 139 n n C10 H102 DM7 sing 140 n n C11 C18 DM7 doub 141 n y C11 C20 DM7 sing 142 n y C11 O11 DM7 sing 143 n n C12 C15 DM7 sing 144 n n C12 C18 DM7 sing 145 n n C12 O12 DM7 doub 146 n n C13 C14 DM7 sing 147 n n C13 O13 DM7 doub 148 n n C14 O14 DM7 sing 149 n n C14 H141 DM7 sing 150 n n C14 H142 DM7 sing 151 n n C15 C16 DM7 doub 152 n y C17 C18 DM7 sing 153 n y C19 C20 DM7 doub 154 n y C21 O4 DM7 sing 155 n n C21 H211 DM7 sing 156 n n C21 H212 DM7 sing 157 n n C21 H213 DM7 sing 158 n n O6 HO6 DM7 sing 159 n n O7 C1' DM7 sing 160 n n O9 HO9 DM7 sing 161 n n O11 HO11 DM7 sing 162 n n O14 HO14 DM7 sing 163 n n C1' C2' DM7 sing 164 n n C1' O5' DM7 sing 165 n n C1' H1' DM7 sing 166 n n C2' C3' DM7 sing 167 n n C2' "H2'1" DM7 sing 168 n n C2' "H2'2" DM7 sing 169 n n C3' C4' DM7 sing 170 n n C3' N3' DM7 sing 171 n n C3' H3' DM7 sing 172 n n C4' C5' DM7 sing 173 n n C4' I4' DM7 sing 174 n n C4' H4' DM7 sing 175 n n C5' C6' DM7 sing 176 n n C5' O5' DM7 sing 177 n n C5' H5' DM7 sing 178 n n C6' "H6'1" DM7 sing 179 n n C6' "H6'2" DM7 sing 180 n n C6' "H6'3" DM7 sing 181 n n N3' "HN'1" DM7 sing 182 n n N3' "HN'2" DM7 sing 183 n n N3' "HN'3" DM7 sing 184 n n # _atom_sites.entry_id 1IMS _atom_sites.fract_transf_matrix[1][1] 0.036062 _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] 0.036062 _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] 0.019051 _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 DM7 A 1 7 7 DM7 DM7 . C 3 HOH A 1 8 8 HOH HOH . C 3 HOH A 2 9 9 HOH HOH . C 3 HOH A 3 10 10 HOH HOH . C 3 HOH A 4 11 11 HOH HOH . C 3 HOH A 5 12 12 HOH HOH . C 3 HOH A 6 13 13 HOH HOH . C 3 HOH A 7 14 14 HOH HOH . C 3 HOH A 8 15 15 HOH HOH . C 3 HOH A 9 16 16 HOH HOH . C 3 HOH A 10 17 17 HOH HOH . C 3 HOH A 11 18 18 HOH HOH . C 3 HOH A 12 19 19 HOH HOH . C 3 HOH A 13 20 20 HOH HOH . C 3 HOH A 14 21 21 HOH HOH . C 3 HOH A 15 22 22 HOH HOH . C 3 HOH A 16 23 23 HOH HOH . C 3 HOH A 17 24 24 HOH HOH . C 3 HOH A 18 25 25 HOH HOH . C 3 HOH A 19 26 26 HOH HOH . C 3 HOH A 20 27 27 HOH HOH . C 3 HOH A 21 28 28 HOH HOH . C 3 HOH A 22 29 29 HOH HOH . C 3 HOH A 23 30 30 HOH HOH . C 3 HOH A 24 31 31 HOH HOH . C 3 HOH A 25 32 32 HOH HOH . C 3 HOH A 26 33 33 HOH HOH . C 3 HOH A 27 34 34 HOH HOH . C 3 HOH A 28 35 35 HOH HOH . C 3 HOH A 29 36 36 HOH HOH . C 3 HOH A 30 37 37 HOH HOH . C 3 HOH A 31 38 38 HOH HOH . C 3 HOH A 32 39 39 HOH HOH . C 3 HOH A 33 40 40 HOH HOH . C 3 HOH A 34 41 41 HOH HOH . C 3 HOH A 35 42 42 HOH HOH . C 3 HOH A 36 43 43 HOH HOH . C 3 HOH A 37 44 44 HOH HOH . C 3 HOH A 38 45 45 HOH HOH . C 3 HOH A 39 46 46 HOH HOH . C 3 HOH A 40 47 47 HOH HOH . C 3 HOH A 41 48 48 HOH HOH . C 3 HOH A 42 49 49 HOH HOH . C 3 HOH A 43 50 50 HOH HOH . C 3 HOH A 44 51 51 HOH HOH . C 3 HOH A 45 52 52 HOH HOH . C 3 HOH A 46 53 53 HOH HOH . C 3 HOH A 47 54 54 HOH HOH . C 3 HOH A 48 55 55 HOH HOH . C 3 HOH A 49 56 56 HOH HOH . C 3 HOH A 50 57 57 HOH HOH . C 3 HOH A 51 58 58 HOH HOH . C 3 HOH A 52 59 59 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 DM7 . . . B 2 15.155 18.28 4.841 1 14.8 ? C1 DM7 7 A 1 HETATM 2 C C2 DM7 . . . B 2 16.316 19.039 4.834 1 12.1 ? C2 DM7 7 A 1 HETATM 3 C C3 DM7 . . . B 2 17.534 18.322 4.812 1 16.79 ? C3 DM7 7 A 1 HETATM 4 C C4 DM7 . . . B 2 17.61 16.939 4.799 1 6.28 ? C4 DM7 7 A 1 HETATM 5 C C5 DM7 . . . B 2 16.39 14.816 4.814 1 6.19 ? C5 DM7 7 A 1 HETATM 6 C C6 DM7 . . . B 2 15.176 12.721 4.833 1 4.57 ? C6 DM7 7 A 1 HETATM 7 C C7 DM7 . . . B 2 13.982 10.565 4.884 1 11.27 ? C7 DM7 7 A 1 HETATM 8 C C8 DM7 . . . B 2 12.716 9.79 4.704 1 7.47 ? C8 DM7 7 A 1 HETATM 9 C C9 DM7 . . . B 2 11.606 10.532 5.506 1 16.7 ? C9 DM7 7 A 1 HETATM 10 C C10 DM7 . . . B 2 11.489 11.955 4.877 1 11.32 ? C10 DM7 7 A 1 HETATM 11 C C11 DM7 . . . B 2 12.762 14.095 4.856 1 5.79 ? C11 DM7 7 A 1 HETATM 12 C C12 DM7 . . . B 2 14.011 16.206 4.848 1 5.4 ? C12 DM7 7 A 1 HETATM 13 C C13 DM7 . . . B 2 10.319 9.754 5.193 1 16.12 ? C13 DM7 7 A 1 HETATM 14 C C14 DM7 . . . B 2 9.816 8.744 6.124 1 16.7 ? C14 DM7 7 A 1 HETATM 15 C C15 DM7 . . . B 2 15.229 16.882 4.832 1 9.83 ? C15 DM7 7 A 1 HETATM 16 C C16 DM7 . . . B 2 16.434 16.189 4.815 1 10.3 ? C16 DM7 7 A 1 HETATM 17 C C17 DM7 . . . B 2 15.205 14.1 4.831 1 8.76 ? C17 DM7 7 A 1 HETATM 18 C C18 DM7 . . . B 2 13.985 14.808 4.849 1 4.87 ? C18 DM7 7 A 1 HETATM 19 C C19 DM7 . . . B 2 13.93 12.031 4.854 1 8.88 ? C19 DM7 7 A 1 HETATM 20 C C20 DM7 . . . B 2 12.713 12.708 4.864 1 7.72 ? C20 DM7 7 A 1 HETATM 21 C C21 DM7 . . . B 2 20.117 17.012 4.769 1 15.19 ? C21 DM7 7 A 1 HETATM 22 O O4 DM7 . . . B 2 18.847 16.311 4.777 1 13.21 ? O4 DM7 7 A 1 HETATM 23 O O5 DM7 . . . B 2 17.543 14.086 4.79 1 14.26 ? O5 DM7 7 A 1 HETATM 24 O O6 DM7 . . . B 2 16.333 11.928 4.828 1 9.89 ? O6 DM7 7 A 1 HETATM 25 O O7 DM7 . . . B 2 14.581 10.268 6.11 1 13.76 ? O7 DM7 7 A 1 HETATM 26 O O9 DM7 . . . B 2 11.546 10.721 6.995 1 13.62 ? O9 DM7 7 A 1 HETATM 27 O O11 DM7 . . . B 2 11.526 14.77 4.878 1 14.6 ? O11 DM7 7 A 1 HETATM 28 O O12 DM7 . . . B 2 12.865 16.931 4.869 1 12.79 ? O12 DM7 7 A 1 HETATM 29 O O13 DM7 . . . B 2 9.709 9.992 3.925 1 18.06 ? O13 DM7 7 A 1 HETATM 30 O O14 DM7 . . . B 2 8.551 8.217 5.78 1 21.53 ? O14 DM7 7 A 1 HETATM 31 C C1' DM7 . . . B 2 15.352 9.169 6.539 1 9.36 ? C1' DM7 7 A 1 HETATM 32 C C2' DM7 . . . B 2 16.506 9.543 7.486 1 6.48 ? C2' DM7 7 A 1 HETATM 33 C C3' DM7 . . . B 2 15.839 9.836 8.844 1 13.9 ? C3' DM7 7 A 1 HETATM 34 C C4' DM7 . . . B 2 14.99 8.61 9.321 1 8.25 ? C4' DM7 7 A 1 HETATM 35 C C5' DM7 . . . B 2 13.891 8.378 8.25 1 8.13 ? C5' DM7 7 A 1 HETATM 36 C C6' DM7 . . . B 2 12.934 7.207 8.57 1 13.12 ? C6' DM7 7 A 1 HETATM 37 O O5' DM7 . . . B 2 14.52 8.112 6.985 1 15.51 ? O5' DM7 7 A 1 HETATM 38 N N3' DM7 . . . B 2 16.926 10.061 9.812 1 11.38 ? N3' DM7 7 A 1 HETATM 39 I I4' DM7 . . . B 2 16.14 6.86 9.767 1 15.82 ? I4' DM7 7 A 1 # _model_server_stats.io_time_ms 4 _model_server_stats.parse_time_ms 5 _model_server_stats.create_model_time_ms 1 _model_server_stats.query_time_ms 241 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 39 #