data_7QZ8
#
_model_server_result.job_id            '_kdkGxlPaXhomdC8PGqDlA' 
_model_server_result.datetime_utc      '2025-06-20 19:59:39' 
_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          7qz8 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":201}' 
#
_entry.id    7QZ8 
#
_exptl.entry_id    7QZ8 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              527.52 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            DAUNOMYCIN 
_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          97.69 
_cell.angle_gamma         90 
_cell.entry_id            7QZ8 
_cell.length_a            104.146 
_cell.length_b            35.744 
_cell.length_c            71.154 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7QZ8 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 1 2 1' 
#
_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 C TYR 66 A TYR 66 1_555 A N I3D 67 A I3D 67 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? 
covale ? covale2 A C I3D 67 A I3D 67 1_555 A N GLY 68 A GLY 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
covale ? covale3 A C SER 95 A SER 95 1_555 A N I3D 96 A I3D 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.322 ? 
covale ? covale4 A C I3D 96 A I3D 96 1_555 A N SER 97 A SER 97 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? 
covale ? covale5 B C TYR 66 B TYR 66 1_555 B N I3D 67 B I3D 67 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? 
covale ? covale6 B C SER 95 B SER 95 1_555 B N I3D 96 B I3D 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.32 ? 
covale ? covale7 B C I3D 96 B I3D 96 1_555 B N SER 97 B SER 97 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? 
#
_chem_comp.formula           'C27 H29 N O10' 
_chem_comp.formula_weight    527.52 
_chem_comp.id                DM1 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              DAUNOMYCIN 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     DAUNORUBICIN 
#
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 DM1 doub 70 n y 
C1 C20 DM1 sing 71 n y 
C1 H1 DM1 sing 72 n n 
C2 C3 DM1 sing 73 n y 
C2 H2 DM1 sing 74 n n 
C3 C4 DM1 doub 75 n y 
C3 H3 DM1 sing 76 n n 
C4 O4 DM1 sing 77 n n 
C4 C5 DM1 sing 78 n y 
O4 C21 DM1 sing 79 n n 
C5 C6 DM1 sing 80 n n 
C5 C20 DM1 doub 81 n y 
C6 O6 DM1 doub 82 n n 
C6 C7 DM1 sing 83 n n 
C7 C8 DM1 doub 84 n y 
C7 C18 DM1 sing 85 n y 
C8 O8 DM1 sing 86 n n 
C8 C9 DM1 sing 87 n y 
O8 HO8 DM1 sing 88 n n 
C9 C10 DM1 sing 89 n n 
C9 C16 DM1 doub 90 n y 
C10 O10 DM1 sing 91 n n 
C10 C11 DM1 sing 92 n n 
C10 H10 DM1 sing 93 n n 
O10 C1' DM1 sing 94 n n 
C11 C12 DM1 sing 95 n n 
C11 H111 DM1 sing 96 n n 
C11 H112 DM1 sing 97 n n 
C12 O12 DM1 sing 98 n n 
C12 C13 DM1 sing 99 n n 
C12 C15 DM1 sing 100 n n 
O12 HO12 DM1 sing 101 n n 
C13 O13 DM1 doub 102 n n 
C13 C14 DM1 sing 103 n n 
C14 H141 DM1 sing 104 n n 
C14 H142 DM1 sing 105 n n 
C14 H143 DM1 sing 106 n n 
C15 C16 DM1 sing 107 n n 
C15 H151 DM1 sing 108 n n 
C15 H152 DM1 sing 109 n n 
C16 C17 DM1 sing 110 n y 
C17 O17 DM1 sing 111 n n 
C17 C18 DM1 doub 112 n y 
O17 HO17 DM1 sing 113 n n 
C18 C19 DM1 sing 114 n n 
C19 O19 DM1 doub 115 n n 
C19 C20 DM1 sing 116 n n 
C21 H211 DM1 sing 117 n n 
C21 H212 DM1 sing 118 n n 
C21 H213 DM1 sing 119 n n 
C1' C2' DM1 sing 120 n n 
C1' O5' DM1 sing 121 n n 
C1' H1' DM1 sing 122 n n 
C2' C3' DM1 sing 123 n n 
C2' "H2'1" DM1 sing 124 n n 
C2' "H2'2" DM1 sing 125 n n 
C3' N3' DM1 sing 126 n n 
C3' C4' DM1 sing 127 n n 
C3' H3' DM1 sing 128 n n 
N3' "HN'1" DM1 sing 129 n n 
N3' "HN'2" DM1 sing 130 n n 
C4' O4' DM1 sing 131 n n 
C4' C5' DM1 sing 132 n n 
C4' H4' DM1 sing 133 n n 
O4' HO4' DM1 sing 134 n n 
C5' O5' DM1 sing 135 n n 
C5' C6' DM1 sing 136 n n 
C5' H5' DM1 sing 137 n n 
C6' "H6'1" DM1 sing 138 n n 
C6' "H6'2" DM1 sing 139 n n 
C6' "H6'3" DM1 sing 140 n n 
#
_atom_sites.entry_id                     7QZ8 
_atom_sites.fract_transf_matrix[1][1]    0.009602 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.001297 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.027977 
_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]    0.014182 
_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 DM1 A 1 201 127 DM1 DM1 . 
D 3 HOH A 1 301 4 HOH HOH . 
D 3 HOH A 2 302 5 HOH HOH . 
D 3 HOH A 3 303 1 HOH HOH . 
D 3 HOH A 4 304 6 HOH HOH . 
D 3 HOH A 5 305 3 HOH HOH . 
D 3 HOH A 6 306 11 HOH HOH . 
D 3 HOH A 7 307 2 HOH HOH . 
D 3 HOH A 8 308 7 HOH HOH . 
D 3 HOH A 9 309 9 HOH HOH . 
D 3 HOH A 10 310 10 HOH HOH . 
E 3 HOH B 1 201 8 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 DM1 . . . C 2 9.152 5.411 22.108 1 69.64 ? C1 DM1 201 A 1 
HETATM 2 C C2 DM1 . . . C 2 7.946 5.621 22.777 1 71.35 ? C2 DM1 201 A 1 
HETATM 3 C C3 DM1 . . . C 2 6.959 4.638 22.791 1 74.46 ? C3 DM1 201 A 1 
HETATM 4 C C4 DM1 . . . C 2 7.177 3.423 22.141 1 86.3 ? C4 DM1 201 A 1 
HETATM 5 O O4 DM1 . . . C 2 6.31 2.532 22.123 1 93.01 ? O4 DM1 201 A 1 
HETATM 6 C C5 DM1 . . . C 2 8.38 3.223 21.46 1 79.67 ? C5 DM1 201 A 1 
HETATM 7 C C6 DM1 . . . C 2 8.601 2.017 20.801 1 87.74 ? C6 DM1 201 A 1 
HETATM 8 O O6 DM1 . . . C 2 7.847 1.056 20.989 1 86.7 ? O6 DM1 201 A 1 
HETATM 9 C C7 DM1 . . . C 2 9.799 1.806 20.129 1 83.68 ? C7 DM1 201 A 1 
HETATM 10 C C8 DM1 . . . C 2 9.954 0.581 19.493 1 81.35 ? C8 DM1 201 A 1 
HETATM 11 O O8 DM1 . . . C 2 9.038 -0.421 19.699 1 92.17 ? O8 DM1 201 A 1 
HETATM 12 C C9 DM1 . . . C 2 11.213 0.266 18.756 1 93.88 ? C9 DM1 201 A 1 
HETATM 13 C C10 DM1 . . . C 2 11.417 -1.173 18.345 1 96.91 ? C10 DM1 201 A 1 
HETATM 14 O O10 DM1 . . . C 2 10.491 -1.464 17.309 1 104.08 ? O10 DM1 201 A 1 
HETATM 15 C C11 DM1 . . . C 2 12.85 -1.462 17.894 1 91.11 ? C11 DM1 201 A 1 
HETATM 16 C C12 DM1 . . . C 2 13.488 -0.284 17.167 1 95.62 ? C12 DM1 201 A 1 
HETATM 17 O O12 DM1 . . . C 2 12.722 0.005 15.971 1 99.67 ? O12 DM1 201 A 1 
HETATM 18 C C13 DM1 . . . C 2 14.909 -0.644 16.753 1 92.19 ? C13 DM1 201 A 1 
HETATM 19 O O13 DM1 . . . C 2 15.89 0.086 17.233 1 90.15 ? O13 DM1 201 A 1 
HETATM 20 C C14 DM1 . . . C 2 15.152 -1.799 15.815 1 83.16 ? C14 DM1 201 A 1 
HETATM 21 C C15 DM1 . . . C 2 13.548 0.966 18.045 1 84.21 ? C15 DM1 201 A 1 
HETATM 22 C C16 DM1 . . . C 2 12.217 1.237 18.716 1 86.83 ? C16 DM1 201 A 1 
HETATM 23 C C17 DM1 . . . C 2 12.004 2.551 19.423 1 81.71 ? C17 DM1 201 A 1 
HETATM 24 O O17 DM1 . . . C 2 13.082 3.4 19.563 1 87.22 ? O17 DM1 201 A 1 
HETATM 25 C C18 DM1 . . . C 2 10.799 2.787 20.107 1 78.69 ? C18 DM1 201 A 1 
HETATM 26 C C19 DM1 . . . C 2 10.57 3.996 20.775 1 73.21 ? C19 DM1 201 A 1 
HETATM 27 O O19 DM1 . . . C 2 11.467 4.84 20.881 1 80.67 ? O19 DM1 201 A 1 
HETATM 28 C C20 DM1 . . . C 2 9.37 4.207 21.448 1 72.85 ? C20 DM1 201 A 1 
HETATM 29 C C21 DM1 . . . C 2 5.581 2.114 23.26 1 83.25 ? C21 DM1 201 A 1 
HETATM 30 C C1' DM1 . . . C 2 10.054 -2.809 17.246 1 106.89 ? C1' DM1 201 A 1 
HETATM 31 C C2' DM1 . . . C 2 8.739 -2.885 16.464 1 107.32 ? C2' DM1 201 A 1 
HETATM 32 C C3' DM1 . . . C 2 8.957 -2.555 14.983 1 109.18 ? C3' DM1 201 A 1 
HETATM 33 N N3' DM1 . . . C 2 7.768 -2.765 14.177 1 91.93 ? N3' DM1 201 A 1 
HETATM 34 C C4' DM1 . . . C 2 10.107 -3.404 14.451 1 116.37 ? C4' DM1 201 A 1 
HETATM 35 O O4' DM1 . . . C 2 9.805 -4.78 14.525 1 116.33 ? O4' DM1 201 A 1 
HETATM 36 C C5' DM1 . . . C 2 11.341 -3.126 15.295 1 118.9 ? C5' DM1 201 A 1 
HETATM 37 O O5' DM1 . . . C 2 11.051 -3.584 16.606 1 116.98 ? O5' DM1 201 A 1 
HETATM 38 C C6' DM1 . . . C 2 12.58 -3.792 14.71 1 104.15 ? C6' DM1 201 A 1 
HETATM 39 H H1 DM1 . . . C 2 9.918 6.186 22.104 1 84.09 ? H1 DM1 201 A 1 
HETATM 40 H H2 DM1 . . . C 2 7.773 6.566 23.293 1 86.15 ? H2 DM1 201 A 1 
HETATM 41 H H3 DM1 . . . C 2 6.018 4.818 23.311 1 89.88 ? H3 DM1 201 A 1 
HETATM 42 H H10 DM1 . . . C 2 11.26 -1.814 19.212 1 116.82 ? H10 DM1 201 A 1 
HETATM 43 H H111 DM1 . . . C 2 12.846 -2.328 17.233 1 109.85 ? H111 DM1 201 A 1 
HETATM 44 H H112 DM1 . . . C 2 13.453 -1.71 18.768 1 109.85 ? H112 DM1 201 A 1 
HETATM 45 H HO12 DM1 . . . C 2 12.468 0.952 15.967 1 120.13 ? HO12 DM1 201 A 1 
HETATM 46 H H141 DM1 . . . C 2 16.159 -1.728 15.404 1 100.31 ? H141 DM1 201 A 1 
HETATM 47 H H142 DM1 . . . C 2 14.425 -1.766 15.003 1 100.31 ? H142 DM1 201 A 1 
HETATM 48 H H143 DM1 . . . C 2 15.047 -2.737 16.359 1 100.31 ? H143 DM1 201 A 1 
HETATM 49 H H151 DM1 . . . C 2 13.825 1.825 17.434 1 101.58 ? H151 DM1 201 A 1 
HETATM 50 H H152 DM1 . . . C 2 14.317 0.836 18.807 1 101.58 ? H152 DM1 201 A 1 
HETATM 51 H HO17 DM1 . . . C 2 12.982 3.921 20.386 1 105.19 ? HO17 DM1 201 A 1 
HETATM 52 H H211 DM1 . . . C 2 4.842 1.369 22.965 1 100.43 ? H211 DM1 201 A 1 
HETATM 53 H H212 DM1 . . . C 2 5.074 2.972 23.703 1 100.43 ? H212 DM1 201 A 1 
HETATM 54 H H213 DM1 . . . C 2 6.264 1.679 23.99 1 100.43 ? H213 DM1 201 A 1 
HETATM 55 H H1' DM1 . . . C 2 9.871 -3.198 18.248 1 128.8 ? H1' DM1 201 A 1 
HETATM 56 H "H2'1" DM1 . . . C 2 8.022 -2.182 16.89 1 129.31 ? "H2'1" DM1 201 A 1 
HETATM 57 H "H2'2" DM1 . . . C 2 8.32 -3.887 16.554 1 129.31 ? "H2'2" DM1 201 A 1 
HETATM 58 H H3' DM1 . . . C 2 9.192 -1.494 14.908 1 131.54 ? H3' DM1 201 A 1 
HETATM 59 H "HN'1" DM1 . . . C 2 6.912 -3.097 14.611 1 110.84 ? "HN'1" DM1 201 A 1 
HETATM 60 H "HN'2" DM1 . . . C 2 7.791 -2.579 13.18 1 110.84 ? "HN'2" DM1 201 A 1 
HETATM 61 H H4' DM1 . . . C 2 10.277 -3.15 13.405 1 140.16 ? H4' DM1 201 A 1 
HETATM 62 H HO4' DM1 . . . C 2 9.832 -5.169 13.626 1 140.12 ? HO4' DM1 201 A 1 
HETATM 63 H H5' DM1 . . . C 2 11.57 -2.06 15.316 1 143.21 ? H5' DM1 201 A 1 
HETATM 64 H "H6'1" DM1 . . . C 2 12.3 -4.74 14.251 1 125.51 ? "H6'1" DM1 201 A 1 
HETATM 65 H "H6'2" DM1 . . . C 2 13.304 -3.974 15.505 1 125.51 ? "H6'2" DM1 201 A 1 
HETATM 66 H "H6'3" DM1 . . . C 2 13.023 -3.14 13.958 1 125.51 ? "H6'3" DM1 201 A 1 
#
_model_server_stats.io_time_ms              16 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           256 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           66 
#