data_9DNM
#
_model_server_result.job_id            wvBSez_6uCKSn1IG3Df42w 
_model_server_result.datetime_utc      '2025-03-01 03:36:13' 
_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          9dnm 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":501}' 
#
_entry.id    9DNM 
#
_exptl.entry_id    9DNM 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              366.449 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            (1beta,6beta,7beta,8alpha,9beta,10alpha,13alpha,14R,16beta)-1,6,7,14-tetrahydroxy-7,20-epoxykauran-15-one 
_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            9DNM 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 9DNM 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    trimeric 
_pdbx_struct_assembly.oligomeric_count      3 
_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 
_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                      4 
_struct_asym.id                             D 
_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
disulf ? disulf1 A SG CYS 22 H CYS 25 1_555 A SG CYS 96 H CYS 99 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf2 B SG CYS 23 L CYS 24 1_555 B SG CYS 88 L CYS 89 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
#
_chem_comp.formula           'C20 H30 O6' 
_chem_comp.formula_weight    366.449 
_chem_comp.id                ODN 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              (1beta,6beta,7beta,8alpha,9beta,10alpha,13alpha,14R,16beta)-1,6,7,14-tetrahydroxy-7,20-epoxykauran-15-one 
_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
C14 C13 ODN sing 235 n n 
C13 C12 ODN sing 236 n n 
C13 C17 ODN sing 237 n n 
O2 C11 ODN sing 238 n n 
C12 C11 ODN sing 239 n n 
C12 C15 ODN sing 240 n n 
C11 C10 ODN sing 241 n n 
C15 C16 ODN sing 242 n n 
C17 O3 ODN doub 243 n n 
C17 C10 ODN sing 244 n n 
O4 C18 ODN sing 245 n n 
C10 C18 ODN sing 246 n n 
C10 C9 ODN sing 247 n n 
C16 C9 ODN sing 248 n n 
C18 O1 ODN sing 249 n n 
C18 C19 ODN sing 250 n n 
O1 C8 ODN sing 251 n n 
C9 C7 ODN sing 252 n n 
O5 C19 ODN sing 253 n n 
C8 C7 ODN sing 254 n n 
C19 C6 ODN sing 255 n n 
C7 C6 ODN sing 256 n n 
C7 C ODN sing 257 n n 
C6 C3 ODN sing 258 n n 
O C ODN sing 259 n n 
C C1 ODN sing 260 n n 
C3 C4 ODN sing 261 n n 
C3 C5 ODN sing 262 n n 
C3 C2 ODN sing 263 n n 
C1 C2 ODN sing 264 n n 
O4 H1 ODN sing 265 n n 
C8 H2 ODN sing 266 n n 
C8 H3 ODN sing 267 n n 
C19 H4 ODN sing 268 n n 
O5 H5 ODN sing 269 n n 
C6 H6 ODN sing 270 n n 
C5 H7 ODN sing 271 n n 
C5 H8 ODN sing 272 n n 
C5 H9 ODN sing 273 n n 
C4 H10 ODN sing 274 n n 
C4 H11 ODN sing 275 n n 
C4 H12 ODN sing 276 n n 
C2 H13 ODN sing 277 n n 
C2 H14 ODN sing 278 n n 
C1 H15 ODN sing 279 n n 
C1 H16 ODN sing 280 n n 
C13 H17 ODN sing 281 n n 
C14 H18 ODN sing 282 n n 
C14 H19 ODN sing 283 n n 
C14 H20 ODN sing 284 n n 
C12 H21 ODN sing 285 n n 
C11 H22 ODN sing 286 n n 
O2 H23 ODN sing 287 n n 
C15 H24 ODN sing 288 n n 
C15 H25 ODN sing 289 n n 
C16 H26 ODN sing 290 n n 
C16 H27 ODN sing 291 n n 
C9 H28 ODN sing 292 n n 
C H29 ODN sing 293 n n 
O H30 ODN sing 294 n n 
#
_atom_sites.entry_id                     9DNM 
_atom_sites.fract_transf_matrix[1][1]    1 
_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]    1 
_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]    1 
_atom_sites.fract_transf_vector[1]       0 
_atom_sites.fract_transf_vector[2]       0 
_atom_sites.fract_transf_vector[3]       0 
#
_pdbx_nonpoly_scheme.asym_id          D 
_pdbx_nonpoly_scheme.entity_id        4 
_pdbx_nonpoly_scheme.mon_id           ODN 
_pdbx_nonpoly_scheme.pdb_strand_id    A 
_pdbx_nonpoly_scheme.ndb_seq_num      1 
_pdbx_nonpoly_scheme.pdb_seq_num      501 
_pdbx_nonpoly_scheme.auth_seq_num     1 
_pdbx_nonpoly_scheme.pdb_mon_id       ODN 
_pdbx_nonpoly_scheme.auth_mon_id      ODN 
_pdbx_nonpoly_scheme.pdb_ins_code     . 
#
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 O O3 ODN . . . D 4 217.33 201.891 156.497 1 77.01 ? O3 ODN 501 A 1 
HETATM 2 C C17 ODN . . . D 4 217.241 201.531 157.651 1 77.01 ? C17 ODN 501 A 1 
HETATM 3 C C10 ODN . . . D 4 216.058 201.746 158.582 1 77.01 ? C10 ODN 501 A 1 
HETATM 4 C C18 ODN . . . D 4 215.207 203.013 158.366 1 77.01 ? C18 ODN 501 A 1 
HETATM 5 O O4 ODN . . . D 4 215.999 204.124 158.539 1 77.01 ? O4 ODN 501 A 1 
HETATM 6 O O1 ODN . . . D 4 214.204 203.016 159.365 1 77.01 ? O1 ODN 501 A 1 
HETATM 7 C C8 ODN . . . D 4 213.305 201.913 159.315 1 77.01 ? C8 ODN 501 A 1 
HETATM 8 C C19 ODN . . . D 4 214.452 203.072 157.022 1 77.01 ? C19 ODN 501 A 1 
HETATM 9 O O5 ODN . . . D 4 215.263 203.485 155.959 1 77.01 ? O5 ODN 501 A 1 
HETATM 10 C C6 ODN . . . D 4 213.705 201.74 156.798 1 77.01 ? C6 ODN 501 A 1 
HETATM 11 C C3 ODN . . . D 4 212.398 201.837 155.956 1 77.01 ? C3 ODN 501 A 1 
HETATM 12 C C5 ODN . . . D 4 212.734 202.399 154.571 1 77.01 ? C5 ODN 501 A 1 
HETATM 13 C C4 ODN . . . D 4 211.284 202.73 156.518 1 77.01 ? C4 ODN 501 A 1 
HETATM 14 C C2 ODN . . . D 4 211.854 200.423 155.711 1 77.01 ? C2 ODN 501 A 1 
HETATM 15 C C1 ODN . . . D 4 212.35 199.332 156.644 1 77.01 ? C1 ODN 501 A 1 
HETATM 16 C C13 ODN . . . D 4 218.32 200.776 158.381 1 77.01 ? C13 ODN 501 A 1 
HETATM 17 C C14 ODN . . . D 4 218.959 199.652 157.586 1 77.01 ? C14 ODN 501 A 1 
HETATM 18 C C12 ODN . . . D 4 217.665 200.444 159.732 1 77.01 ? C12 ODN 501 A 1 
HETATM 19 C C11 ODN . . . D 4 216.766 201.671 159.954 1 77.01 ? C11 ODN 501 A 1 
HETATM 20 O O2 ODN . . . D 4 217.519 202.831 160.191 1 77.01 ? O2 ODN 501 A 1 
HETATM 21 C C15 ODN . . . D 4 216.812 199.157 159.712 1 77.01 ? C15 ODN 501 A 1 
HETATM 22 C C16 ODN . . . D 4 215.327 199.423 159.459 1 77.01 ? C16 ODN 501 A 1 
HETATM 23 C C9 ODN . . . D 4 215.115 200.489 158.377 1 77.01 ? C9 ODN 501 A 1 
HETATM 24 C C7 ODN . . . D 4 213.646 200.977 158.153 1 77.01 ? C7 ODN 501 A 1 
HETATM 25 C C ODN . . . D 4 212.665 199.795 158.063 1 77.01 ? C ODN 501 A 1 
HETATM 26 O O ODN . . . D 4 211.461 200.136 158.719 1 77.01 ? O ODN 501 A 1 
#
_model_server_stats.io_time_ms              37 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           273 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           26 
#