data_8KFX
#
_model_server_result.job_id            PFuh5VdiZD473Jp0E54KXA 
_model_server_result.datetime_utc      '2024-10-11 00:22:50' 
_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          8kfx 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":601}' 
#
_entry.id    8KFX 
#
_exptl.entry_id    8KFX 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              471.591 
_entity.id                          6 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            8-[[3-(2-methoxyphenoxy)phenyl]methyl]-1-(2-phenylethyl)-1,3,8-triazaspiro[4.5]decan-4-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            8KFX 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8KFX 
_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 
_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                      6 
_struct_asym.id                             F 
_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 D SG CYS 133 R CYS 106 1_555 D SG CYS 210 R CYS 183 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? 
disulf ? disulf2 E SG CYS 60 S CYS 22 1_555 E SG CYS 134 S CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? 
disulf ? disulf3 E SG CYS 197 S CYS 147 1_555 E SG CYS 267 S CYS 217 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
#
_chem_comp.formula           'C29 H33 N3 O3' 
_chem_comp.formula_weight    471.591 
_chem_comp.id                OS9 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              8-[[3-(2-methoxyphenoxy)phenyl]methyl]-1-(2-phenylethyl)-1,3,8-triazaspiro[4.5]decan-4-one 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     LMD-009 
#
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
C9 C10 OS9 doub 235 n y 
C9 C8 OS9 sing 236 n y 
O2 C7 OS9 sing 237 n n 
O2 C8 OS9 sing 238 n n 
C6 C7 OS9 doub 239 n y 
C6 C5 OS9 sing 240 n y 
C7 C2 OS9 sing 241 n y 
C10 C11 OS9 sing 242 n y 
C8 C13 OS9 doub 243 n y 
C5 C4 OS9 doub 244 n y 
C2 O1 OS9 sing 245 n n 
C2 C3 OS9 doub 246 n y 
C4 C3 OS9 sing 247 n y 
O1 C1 OS9 sing 248 n n 
C11 C12 OS9 doub 249 n y 
C13 C12 OS9 sing 250 n y 
C12 C14 OS9 sing 251 n n 
C19 C18 OS9 sing 252 n n 
C19 N1 OS9 sing 253 n n 
C18 C17 OS9 sing 254 n n 
C14 N1 OS9 sing 255 n n 
N1 C15 OS9 sing 256 n n 
C26 C25 OS9 doub 257 n y 
C26 C27 OS9 sing 258 n y 
C22 N3 OS9 sing 259 n n 
C22 C23 OS9 sing 260 n n 
C25 C24 OS9 sing 261 n y 
C17 N3 OS9 sing 262 n n 
C17 C20 OS9 sing 263 n n 
C17 C16 OS9 sing 264 n n 
N3 C21 OS9 sing 265 n n 
C27 C28 OS9 doub 266 n y 
O3 C20 OS9 doub 267 n n 
C20 N2 OS9 sing 268 n n 
C24 C23 OS9 sing 269 n n 
C24 C29 OS9 doub 270 n y 
C15 C16 OS9 sing 271 n n 
C28 C29 OS9 sing 272 n y 
C21 N2 OS9 sing 273 n n 
C1 H1 OS9 sing 274 n n 
C1 H2 OS9 sing 275 n n 
C1 H3 OS9 sing 276 n n 
C5 H4 OS9 sing 277 n n 
C6 H5 OS9 sing 278 n n 
C4 H6 OS9 sing 279 n n 
C3 H7 OS9 sing 280 n n 
C10 H8 OS9 sing 281 n n 
C11 H9 OS9 sing 282 n n 
C13 H10 OS9 sing 283 n n 
C14 H11 OS9 sing 284 n n 
C14 H12 OS9 sing 285 n n 
C15 H13 OS9 sing 286 n n 
C15 H14 OS9 sing 287 n n 
C16 H15 OS9 sing 288 n n 
C16 H16 OS9 sing 289 n n 
C18 H17 OS9 sing 290 n n 
C18 H18 OS9 sing 291 n n 
C19 H19 OS9 sing 292 n n 
C19 H20 OS9 sing 293 n n 
C21 H21 OS9 sing 294 n n 
C21 H22 OS9 sing 295 n n 
C22 H23 OS9 sing 296 n n 
C22 H24 OS9 sing 297 n n 
C23 H25 OS9 sing 298 n n 
C23 H26 OS9 sing 299 n n 
C25 H27 OS9 sing 300 n n 
C26 H28 OS9 sing 301 n n 
C27 H29 OS9 sing 302 n n 
C28 H30 OS9 sing 303 n n 
C29 H31 OS9 sing 304 n n 
C9 H32 OS9 sing 305 n n 
N2 H34 OS9 sing 306 n n 
#
_atom_sites.entry_id                     8KFX 
_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          F 
_pdbx_nonpoly_scheme.entity_id        6 
_pdbx_nonpoly_scheme.mon_id           OS9 
_pdbx_nonpoly_scheme.pdb_strand_id    R 
_pdbx_nonpoly_scheme.ndb_seq_num      1 
_pdbx_nonpoly_scheme.pdb_seq_num      601 
_pdbx_nonpoly_scheme.auth_seq_num     401 
_pdbx_nonpoly_scheme.pdb_mon_id       OS9 
_pdbx_nonpoly_scheme.auth_mon_id      LMD 
_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 O1 OS9 . . . F 6 120.61 127.008 164.186 1 66.42 ? O1 OS9 601 R 1 
HETATM 2 C C1 OS9 . . . F 6 120.114 126.002 165.063 1 68.93 ? C1 OS9 601 R 1 
HETATM 3 C C5 OS9 . . . F 6 124.655 127.212 163.356 1 69.55 ? C5 OS9 601 R 1 
HETATM 4 C C6 OS9 . . . F 6 123.762 128.153 162.86 1 69.36 ? C6 OS9 601 R 1 
HETATM 5 C C4 OS9 . . . F 6 124.202 126.184 164.141 1 68.32 ? C4 OS9 601 R 1 
HETATM 6 C C3 OS9 . . . F 6 122.85 126.082 164.442 1 60.85 ? C3 OS9 601 R 1 
HETATM 7 O O3 OS9 . . . F 6 126.074 129.288 167.962 1 68.1 ? O3 OS9 601 R 1 
HETATM 8 C C2 OS9 . . . F 6 121.953 127.016 163.948 1 62.93 ? C2 OS9 601 R 1 
HETATM 9 O O2 OS9 . . . F 6 121.506 128.98 162.669 1 66.44 ? O2 OS9 601 R 1 
HETATM 10 C C10 OS9 . . . F 6 121.16 132.578 163.22 1 62.19 ? C10 OS9 601 R 1 
HETATM 11 C C11 OS9 . . . F 6 121.637 132.684 164.513 1 65.41 ? C11 OS9 601 R 1 
HETATM 12 C C12 OS9 . . . F 6 122.086 131.565 165.194 1 68.56 ? C12 OS9 601 R 1 
HETATM 13 C C13 OS9 . . . F 6 122.014 130.334 164.558 1 63.25 ? C13 OS9 601 R 1 
HETATM 14 C C14 OS9 . . . F 6 122.6 131.673 166.61 1 70.18 ? C14 OS9 601 R 1 
HETATM 15 C C15 OS9 . . . F 6 124.42 132.003 168.122 1 63.05 ? C15 OS9 601 R 1 
HETATM 16 C C16 OS9 . . . F 6 125.854 132.457 168.287 1 61.36 ? C16 OS9 601 R 1 
HETATM 17 C C17 OS9 . . . F 6 126.791 131.589 167.442 1 56.46 ? C17 OS9 601 R 1 
HETATM 18 C C18 OS9 . . . F 6 126.303 131.546 165.992 1 61.8 ? C18 OS9 601 R 1 
HETATM 19 C C19 OS9 . . . F 6 124.845 131.142 165.932 1 64.59 ? C19 OS9 601 R 1 
HETATM 20 C C20 OS9 . . . F 6 126.903 130.185 168.037 1 64.14 ? C20 OS9 601 R 1 
HETATM 21 C C21 OS9 . . . F 6 128.849 131.353 168.621 1 59.29 ? C21 OS9 601 R 1 
HETATM 22 C C22 OS9 . . . F 6 128.522 133.416 167.216 1 64.67 ? C22 OS9 601 R 1 
HETATM 23 C C23 OS9 . . . F 6 128.702 134.304 168.446 1 71.86 ? C23 OS9 601 R 1 
HETATM 24 C C24 OS9 . . . F 6 128.509 135.76 168.117 1 70.95 ? C24 OS9 601 R 1 
HETATM 25 C C25 OS9 . . . F 6 127.384 136.189 167.434 1 68.98 ? C25 OS9 601 R 1 
HETATM 26 C C26 OS9 . . . F 6 127.202 137.531 167.143 1 66.46 ? C26 OS9 601 R 1 
HETATM 27 C C27 OS9 . . . F 6 128.15 138.453 167.511 1 67.12 ? C27 OS9 601 R 1 
HETATM 28 C C28 OS9 . . . F 6 129.278 138.041 168.171 1 67.84 ? C28 OS9 601 R 1 
HETATM 29 C C29 OS9 . . . F 6 129.453 136.704 168.483 1 66.28 ? C29 OS9 601 R 1 
HETATM 30 C C7 OS9 . . . F 6 122.424 128.054 163.147 1 66.71 ? C7 OS9 601 R 1 
HETATM 31 C C8 OS9 . . . F 6 121.555 130.237 163.261 1 59.85 ? C8 OS9 601 R 1 
HETATM 32 C C9 OS9 . . . F 6 121.105 131.351 162.587 1 59.46 ? C9 OS9 601 R 1 
HETATM 33 N N1 OS9 . . . F 6 124.01 132.062 166.714 1 62.98 ? N1 OS9 601 R 1 
HETATM 34 N N2 OS9 . . . F 6 128.057 130.106 168.697 1 64.51 ? N2 OS9 601 R 1 
HETATM 35 N N3 OS9 . . . F 6 128.19 132.022 167.487 1 55.5 ? N3 OS9 601 R 1 
#
_model_server_stats.io_time_ms              11 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    18 
_model_server_stats.query_time_ms           295 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           35 
#