data_6UD3
#
_model_server_result.job_id            YevA5Kd7st6yBzrFF0XyPg 
_model_server_result.datetime_utc      '2024-10-31 07:12:35' 
_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          6ud3 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"H","auth_seq_id":503}' 
#
_entry.id    6UD3 
#
_exptl.entry_id    6UD3 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              292.284 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '(1aR,2aR,3S,6R,6aS,8aS,8bR,9R)-2a-hydroxy-8b-methyl-9-(prop-1-en-2-yl)hexahydro-3,6-methano-1,5,7-trioxacyclopenta[ij]c yclopropa[a]azulene-4,8(3H)-dione' 
_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            6UD3 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6UD3 
_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    pentameric 
_pdbx_struct_assembly.oligomeric_count      5 
_pdbx_struct_assembly.details               author_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P 
_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    ? 
_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                             H 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
_chem_comp.formula           'C15 H16 O6' 
_chem_comp.formula_weight    292.284 
_chem_comp.id                RI5 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '(1aR,2aR,3S,6R,6aS,8aS,8bR,9R)-2a-hydroxy-8b-methyl-9-(prop-1-en-2-yl)hexahydro-3,6-methano-1,5,7-trioxacyclopenta[ij]c yclopropa[a]azulene-4,8(3H)-dione' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     PICROTOXIN 
#
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
C01 C02 RI5 sing 305 n n 
C01 H01 RI5 sing 306 n n 
C01 H01A RI5 sing 307 n n 
C01 H01B RI5 sing 308 n n 
C02 C03 RI5 doub 309 n n 
C02 C04 RI5 sing 310 n n 
C03 H03 RI5 sing 311 n n 
C03 H03A RI5 sing 312 n n 
C05 C04 RI5 sing 313 n n 
C04 C09 RI5 sing 314 n n 
C04 H04 RI5 sing 315 n n 
C06 C05 RI5 sing 316 n n 
C05 O12 RI5 sing 317 n n 
C05 H05 RI5 sing 318 n n 
C06 O19 RI5 sing 319 n n 
C06 C07 RI5 sing 320 n n 
C06 H06 RI5 sing 321 n n 
C21 C07 RI5 sing 322 n n 
C07 C15 RI5 sing 323 n n 
C07 C08 RI5 sing 324 n n 
O20 C08 RI5 sing 325 n n 
C08 C09 RI5 sing 326 n n 
C08 C13 RI5 sing 327 n n 
C09 C10 RI5 sing 328 n n 
C09 H09 RI5 sing 329 n n 
O12 C10 RI5 sing 330 n n 
C10 O11 RI5 doub 331 n n 
C14 C13 RI5 sing 332 n n 
C13 H13 RI5 sing 333 n n 
C13 H13A RI5 sing 334 n n 
C15 C14 RI5 sing 335 n n 
O16 C14 RI5 sing 336 n n 
C14 H14 RI5 sing 337 n n 
C17 C15 RI5 sing 338 n n 
C15 O16 RI5 sing 339 n n 
O19 C17 RI5 sing 340 n n 
C17 O18 RI5 doub 341 n n 
O20 HO20 RI5 sing 342 n n 
C21 H21 RI5 sing 343 n n 
C21 H21A RI5 sing 344 n n 
C21 H21B RI5 sing 345 n n 
#
_atom_sites.entry_id                     6UD3 
_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 
#
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
F 2 NAG A 1 501 442 NAG NAG . 
G 3 GLY A 1 502 501 GLY GLY . 
H 4 RI5 A 1 503 701 RI5 RI5 . 
I 2 NAG C 1 501 442 NAG NAG . 
J 3 GLY C 1 502 501 GLY GLY . 
K 2 NAG E 1 501 442 NAG NAG . 
L 3 GLY E 1 502 501 GLY GLY . 
M 3 GLY D 1 501 501 GLY GLY . 
N 2 NAG D 1 502 442 NAG NAG . 
O 3 GLY B 1 501 501 GLY GLY . 
P 2 NAG B 1 502 442 NAG NAG . 
#
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 C01 RI5 . . . H 4 159.314 157.957 135.755 1 223.65 ? C01 RI5 503 A 1 
HETATM 2 C C02 RI5 . . . H 4 158.073 158.267 134.871 1 223.65 ? C02 RI5 503 A 1 
HETATM 3 C C03 RI5 . . . H 4 156.983 158.728 135.482 1 223.65 ? C03 RI5 503 A 1 
HETATM 4 C C04 RI5 . . . H 4 158.03 158.007 133.288 1 223.65 ? C04 RI5 503 A 1 
HETATM 5 C C05 RI5 . . . H 4 159.224 157.461 132.698 1 223.65 ? C05 RI5 503 A 1 
HETATM 6 C C06 RI5 . . . H 4 160.25 158.266 132.44 1 223.65 ? C06 RI5 503 A 1 
HETATM 7 C C07 RI5 . . . H 4 159.861 159.889 132.309 1 223.65 ? C07 RI5 503 A 1 
HETATM 8 C C08 RI5 . . . H 4 157.999 160.169 132.273 1 223.65 ? C08 RI5 503 A 1 
HETATM 9 C C09 RI5 . . . H 4 157.377 159.186 132.367 1 223.65 ? C09 RI5 503 A 1 
HETATM 10 C C10 RI5 . . . H 4 157.264 158.117 131.171 1 223.65 ? C10 RI5 503 A 1 
HETATM 11 O O11 RI5 . . . H 4 156.363 158.065 130.392 1 223.65 ? O11 RI5 503 A 1 
HETATM 12 O O12 RI5 . . . H 4 158.517 157.091 131.165 1 223.65 ? O12 RI5 503 A 1 
HETATM 13 C C13 RI5 . . . H 4 157.891 160.548 131.842 1 223.65 ? C13 RI5 503 A 1 
HETATM 14 C C14 RI5 . . . H 4 159.282 160.622 130.766 1 223.65 ? C14 RI5 503 A 1 
HETATM 15 C C15 RI5 . . . H 4 160.211 160.213 131.42 1 223.65 ? C15 RI5 503 A 1 
HETATM 16 O O16 RI5 . . . H 4 160.395 161.072 130.594 1 223.65 ? O16 RI5 503 A 1 
HETATM 17 C C17 RI5 . . . H 4 161.164 158.982 130.794 1 223.65 ? C17 RI5 503 A 1 
HETATM 18 O O18 RI5 . . . H 4 162.031 159.103 129.987 1 223.65 ? O18 RI5 503 A 1 
HETATM 19 O O19 RI5 . . . H 4 160.807 157.954 131.309 1 223.65 ? O19 RI5 503 A 1 
HETATM 20 O O20 RI5 . . . H 4 157.708 160.962 133.406 1 223.65 ? O20 RI5 503 A 1 
HETATM 21 C C21 RI5 . . . H 4 160.484 160.688 133.471 1 223.65 ? C21 RI5 503 A 1 
#
_model_server_stats.io_time_ms              112 
_model_server_stats.parse_time_ms           15 
_model_server_stats.create_model_time_ms    17 
_model_server_stats.query_time_ms           333 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           21 
#