data_8FYL # _model_server_result.job_id nLrDFvP1Nq8gOhO6bTj9MQ _model_server_result.datetime_utc '2025-02-05 16:03:08' _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 8fyl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":501}' # _entry.id 8FYL # _exptl.entry_id 8FYL _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 854.895 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '[(2R)-1-[oxidanyl-[(2R,3R,5S,6R)-2,3,5,6-tetrakis(oxidanyl)-4-phosphonooxy-cyclohexyl]oxy-phosphoryl]oxy-3-tetradecanoyloxy-propan-2-yl] (5E,8E)-hexadeca-5,8,11,14-tetraenoate' _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 8FYL _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8FYL _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 tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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,F,G,H _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 5 _struct_asym.id E _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id disulf _struct_conn.details ? _struct_conn.id disulf1 _struct_conn.ptnr1_label_asym_id D _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 239 _struct_conn.ptnr1_auth_asym_id R _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 109 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id D _struct_conn.ptnr2_label_atom_id SG _struct_conn.ptnr2_label_comp_id CYS _struct_conn.ptnr2_label_seq_id 317 _struct_conn.ptnr2_auth_asym_id R _struct_conn.ptnr2_auth_comp_id CYS _struct_conn.ptnr2_auth_seq_id 187 _struct_conn.ptnr2_symmetry 1_555 _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 2.031 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C39 H68 O16 P2' _chem_comp.formula_weight 854.895 _chem_comp.id J40 _chem_comp.mon_nstd_flag . _chem_comp.name '[(2R)-1-[oxidanyl-[(2R,3R,5S,6R)-2,3,5,6-tetrakis(oxidanyl)-4-phosphonooxy-cyclohexyl]oxy-phosphoryl]oxy-3-tetradecanoyloxy-propan-2-yl] (5E,8E)-hexadeca-5,8,11,14-tetraenoate' _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 O12 P1 J40 doub 171 n n O3 C3 J40 sing 172 n n C3 C2 J40 sing 173 n n C3 C4 J40 sing 174 n n C2 C1 J40 sing 175 n n C2 O2 J40 sing 176 n n C1 O1 J40 sing 177 n n C1 C6 J40 sing 178 n n O1 P1 J40 sing 179 n n P1 O13 J40 sing 180 n n P1 O11 J40 sing 181 n n C7 O13 J40 sing 182 n n C7 C8 J40 sing 183 n n O4 C4 J40 sing 184 n n O4 P4 J40 sing 185 n n C4 C5 J40 sing 186 n n C5 C6 J40 sing 187 n n C5 O5 J40 sing 188 n n C26 C25 J40 sing 189 n n C6 O6 J40 sing 190 n n C25 C24 J40 doub 191 z n O17 C10 J40 doub 192 n n O42 P4 J40 doub 193 n n P4 O41 J40 sing 194 n n P4 O43 J40 sing 195 n n C8 C9 J40 sing 196 n n C8 O16 J40 sing 197 n n C9 O18 J40 sing 198 n n C10 O16 J40 sing 199 n n C10 C12 J40 sing 200 n n C23 C24 J40 sing 201 n n C23 C22 J40 sing 202 n n C17 C16 J40 sing 203 n n C17 C18 J40 sing 204 n n C22 C21 J40 doub 205 z n C13 C12 J40 sing 206 n n C13 C14 J40 sing 207 n n O18 C11 J40 sing 208 n n C16 C15 J40 doub 209 e n C19 C18 J40 doub 210 e n C19 C20 J40 sing 211 n n C15 C14 J40 sing 212 n n C21 C20 J40 sing 213 n n C11 O19 J40 doub 214 n n C11 C31 J40 sing 215 n n C31 C32 J40 sing 216 n n C32 C33 J40 sing 217 n n C33 C34 J40 sing 218 n n C34 C35 J40 sing 219 n n C35 C36 J40 sing 220 n n C36 C37 J40 sing 221 n n C37 C38 J40 sing 222 n n C38 C39 J40 sing 223 n n C39 C40 J40 sing 224 n n C40 C41 J40 sing 225 n n C42 C41 J40 sing 226 n n C42 C43 J40 sing 227 n n O11 H1 J40 sing 228 n n O6 H2 J40 sing 229 n n C1 H3 J40 sing 230 n n C6 H4 J40 sing 231 n n C2 H5 J40 sing 232 n n O2 H6 J40 sing 233 n n C3 H7 J40 sing 234 n n O3 H8 J40 sing 235 n n C4 H9 J40 sing 236 n n O41 H10 J40 sing 237 n n O43 H11 J40 sing 238 n n C5 H12 J40 sing 239 n n O5 H13 J40 sing 240 n n C7 H14 J40 sing 241 n n C7 H15 J40 sing 242 n n C8 H16 J40 sing 243 n n C9 H17 J40 sing 244 n n C9 H18 J40 sing 245 n n C12 H19 J40 sing 246 n n C12 H20 J40 sing 247 n n C13 H21 J40 sing 248 n n C13 H22 J40 sing 249 n n C14 H23 J40 sing 250 n n C14 H24 J40 sing 251 n n C15 H25 J40 sing 252 n n C16 H27 J40 sing 253 n n C17 H29 J40 sing 254 n n C17 H30 J40 sing 255 n n C18 H31 J40 sing 256 n n C19 H33 J40 sing 257 n n C20 H35 J40 sing 258 n n C20 H36 J40 sing 259 n n C21 H37 J40 sing 260 n n C22 H39 J40 sing 261 n n C23 H41 J40 sing 262 n n C23 H42 J40 sing 263 n n C24 H43 J40 sing 264 n n C31 H45 J40 sing 265 n n C31 H46 J40 sing 266 n n C32 H47 J40 sing 267 n n C32 H48 J40 sing 268 n n C33 H49 J40 sing 269 n n C33 H50 J40 sing 270 n n C34 H51 J40 sing 271 n n C34 H52 J40 sing 272 n n C35 H53 J40 sing 273 n n C35 H54 J40 sing 274 n n C36 H55 J40 sing 275 n n C36 H56 J40 sing 276 n n C37 H57 J40 sing 277 n n C37 H58 J40 sing 278 n n C38 H59 J40 sing 279 n n C38 H60 J40 sing 280 n n C39 H61 J40 sing 281 n n C39 H62 J40 sing 282 n n C40 H63 J40 sing 283 n n C40 H64 J40 sing 284 n n C25 H65 J40 sing 285 n n C26 H67 J40 sing 286 n n C26 H68 J40 sing 287 n n C26 H69 J40 sing 288 n n C41 H70 J40 sing 289 n n C41 H71 J40 sing 290 n n C42 H72 J40 sing 291 n n C42 H73 J40 sing 292 n n C43 H74 J40 sing 293 n n C43 H75 J40 sing 294 n n C43 H76 J40 sing 295 n n # _atom_sites.entry_id 8FYL _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 E 5 J40 R 1 501 507 J40 J40 . F 6 YG7 R 1 502 508 YG7 YG7 . G 7 Y01 R 1 503 509 Y01 Y01 . H 7 Y01 R 1 504 510 Y01 Y01 . # 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 O12 J40 . . . E 5 120.996 130.373 126.013 1 56.12 ? O12 J40 501 R 1 HETATM 2 P P1 J40 . . . E 5 122.184 130.584 125.159 1 56.12 ? P1 J40 501 R 1 HETATM 3 O O13 J40 . . . E 5 122.896 132.062 125.142 1 56.12 ? O13 J40 501 R 1 HETATM 4 O O11 J40 . . . E 5 121.946 130.276 123.688 1 56.12 ? O11 J40 501 R 1 HETATM 5 O O6 J40 . . . E 5 125.02 129.627 123.343 1 56.12 ? O6 J40 501 R 1 HETATM 6 O O1 J40 . . . E 5 123.281 129.417 125.518 1 56.12 ? O1 J40 501 R 1 HETATM 7 C C1 J40 . . . E 5 124.709 129.499 125.739 1 56.12 ? C1 J40 501 R 1 HETATM 8 C C6 J40 . . . E 5 125.401 130.206 124.586 1 56.12 ? C6 J40 501 R 1 HETATM 9 C C2 J40 . . . E 5 125.032 130.187 127.059 1 56.12 ? C2 J40 501 R 1 HETATM 10 O O2 J40 . . . E 5 124.626 131.551 127.065 1 56.12 ? O2 J40 501 R 1 HETATM 11 C C3 J40 . . . E 5 126.534 130.094 127.293 1 56.12 ? C3 J40 501 R 1 HETATM 12 O O3 J40 . . . E 5 126.882 130.752 128.508 1 56.12 ? O3 J40 501 R 1 HETATM 13 C C4 J40 . . . E 5 127.316 130.697 126.13 1 56.12 ? C4 J40 501 R 1 HETATM 14 O O4 J40 . . . E 5 128.712 130.403 126.334 1 56.12 ? O4 J40 501 R 1 HETATM 15 P P4 J40 . . . E 5 129.836 131.507 125.963 1 56.12 ? P4 J40 501 R 1 HETATM 16 O O41 J40 . . . E 5 130.379 130.973 124.639 1 56.12 ? O41 J40 501 R 1 HETATM 17 O O42 J40 . . . E 5 130.897 131.639 126.995 1 56.12 ? O42 J40 501 R 1 HETATM 18 O O43 J40 . . . E 5 129.097 132.816 125.714 1 56.12 ? O43 J40 501 R 1 HETATM 19 C C5 J40 . . . E 5 126.904 130.087 124.794 1 56.12 ? C5 J40 501 R 1 HETATM 20 O O5 J40 . . . E 5 127.6 130.715 123.721 1 56.12 ? O5 J40 501 R 1 HETATM 21 C C7 J40 . . . E 5 122.179 133.253 125.546 1 56.12 ? C7 J40 501 R 1 HETATM 22 C C8 J40 . . . E 5 120.774 133.246 125.01 1 56.12 ? C8 J40 501 R 1 HETATM 23 C C9 J40 . . . E 5 119.957 134.395 125.541 1 56.12 ? C9 J40 501 R 1 HETATM 24 O O16 J40 . . . E 5 120.896 133.422 123.566 1 56.12 ? O16 J40 501 R 1 HETATM 25 C C10 J40 . . . E 5 120.07 132.733 122.763 1 56.12 ? C10 J40 501 R 1 HETATM 26 O O17 J40 . . . E 5 119.229 131.971 123.158 1 56.12 ? O17 J40 501 R 1 HETATM 27 O O18 J40 . . . E 5 120.762 135.598 125.563 1 56.12 ? O18 J40 501 R 1 HETATM 28 C C11 J40 . . . E 5 120.134 136.751 125.313 1 56.12 ? C11 J40 501 R 1 HETATM 29 O O19 J40 . . . E 5 118.953 136.84 125.104 1 56.12 ? O19 J40 501 R 1 HETATM 30 C C12 J40 . . . E 5 120.353 133.04 121.322 1 56.12 ? C12 J40 501 R 1 HETATM 31 C C13 J40 . . . E 5 119.493 132.275 120.327 1 56.12 ? C13 J40 501 R 1 HETATM 32 C C14 J40 . . . E 5 119.805 132.657 118.883 1 56.12 ? C14 J40 501 R 1 HETATM 33 C C15 J40 . . . E 5 119.107 131.815 117.865 1 56.12 ? C15 J40 501 R 1 HETATM 34 C C16 J40 . . . E 5 118.872 130.524 117.943 1 56.12 ? C16 J40 501 R 1 HETATM 35 C C17 J40 . . . E 5 118.163 129.687 116.923 1 56.12 ? C17 J40 501 R 1 HETATM 36 C C18 J40 . . . E 5 116.815 129.26 117.415 1 56.12 ? C18 J40 501 R 1 HETATM 37 C C19 J40 . . . E 5 116.562 128.358 118.341 1 56.12 ? C19 J40 501 R 1 HETATM 38 C C20 J40 . . . E 5 115.213 127.917 118.833 1 56.12 ? C20 J40 501 R 1 HETATM 39 C C21 J40 . . . E 5 114.183 127.895 117.736 1 56.12 ? C21 J40 501 R 1 HETATM 40 C C22 J40 . . . E 5 114.075 127.03 116.743 1 56.12 ? C22 J40 501 R 1 HETATM 41 C C23 J40 . . . E 5 114.948 125.837 116.468 1 56.12 ? C23 J40 501 R 1 HETATM 42 C C24 J40 . . . E 5 114.241 124.543 116.76 1 56.12 ? C24 J40 501 R 1 HETATM 43 C C31 J40 . . . E 5 121.085 137.913 125.323 1 56.12 ? C31 J40 501 R 1 HETATM 44 C C32 J40 . . . E 5 121.297 138.469 123.922 1 56.12 ? C32 J40 501 R 1 HETATM 45 C C33 J40 . . . E 5 122.383 139.524 123.82 1 56.12 ? C33 J40 501 R 1 HETATM 46 C C34 J40 . . . E 5 122.693 139.897 122.382 1 56.12 ? C34 J40 501 R 1 HETATM 47 C C35 J40 . . . E 5 123.891 140.809 122.2 1 56.12 ? C35 J40 501 R 1 HETATM 48 C C36 J40 . . . E 5 123.613 142.27 122.492 1 56.12 ? C36 J40 501 R 1 HETATM 49 C C37 J40 . . . E 5 124.402 143.218 121.606 1 56.12 ? C37 J40 501 R 1 HETATM 50 C C38 J40 . . . E 5 124.166 142.99 120.121 1 56.12 ? C38 J40 501 R 1 HETATM 51 C C39 J40 . . . E 5 124.897 143.965 119.214 1 56.12 ? C39 J40 501 R 1 HETATM 52 C C40 J40 . . . E 5 126.408 143.926 119.357 1 56.12 ? C40 J40 501 R 1 HETATM 53 C C25 J40 . . . E 5 113.295 123.962 116.05 1 56.12 ? C25 J40 501 R 1 HETATM 54 C C26 J40 . . . E 5 112.704 124.45 114.768 1 56.12 ? C26 J40 501 R 1 HETATM 55 C C41 J40 . . . E 5 127.136 144.93 118.481 1 56.12 ? C41 J40 501 R 1 HETATM 56 C C42 J40 . . . E 5 126.793 146.382 118.779 1 56.12 ? C42 J40 501 R 1 HETATM 57 C C43 J40 . . . E 5 127.166 146.812 120.182 1 56.12 ? C43 J40 501 R 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 320 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 57 #