data_8T3M # _model_server_result.job_id Joyy5xRnP80RSglvNboh5g _model_server_result.datetime_utc '2025-02-18 16:22:36' _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 8t3m # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":801}' # _entry.id 8T3M # _exptl.entry_id 8T3M _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 382.429 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(2R)-2-hydroxy-3-(phosphonooxy)propyl tetradecanoate' _entity.pdbx_number_of_molecules 3 _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 8T3M _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8T3M _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_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 H N N ? 4 I N N ? 4 J N 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 metalc ? metalc1 A O GLY 516 A GLY 643 1_555 F NA NA . A NA 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.291 ? metalc ? metalc2 F NA NA . A NA 802 1_555 B O GLY 516 D GLY 643 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.335 ? metalc ? metalc3 F NA NA . A NA 802 1_555 C O GLY 516 B GLY 643 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.367 ? metalc ? metalc4 F NA NA . A NA 802 1_555 D O GLY 516 C GLY 643 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.325 ? # _chem_comp.formula 'C17 H35 O7 P' _chem_comp.formula_weight 382.429 _chem_comp.id NKN _chem_comp.mon_nstd_flag . _chem_comp.name '(2R)-2-hydroxy-3-(phosphonooxy)propyl tetradecanoate' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms '14:0 LPA;myristoyl lysophosphatidic acid' # 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 OAA PAC NKN sing 369 n n OAB PAC NKN sing 370 n n PAC OAD NKN doub 371 n n PAC OAF NKN sing 372 n n OAE CAK NKN doub 373 n n OAF CAG NKN sing 374 n n CAG CAH NKN sing 375 n n CAH CAI NKN sing 376 n n CAH OAY NKN sing 377 n n CAI OAJ NKN sing 378 n n OAJ CAK NKN sing 379 n n CAK CAL NKN sing 380 n n CAL CAM NKN sing 381 n n CAM CAN NKN sing 382 n n CAN CAO NKN sing 383 n n CAO CAP NKN sing 384 n n CAP CAQ NKN sing 385 n n CAQ CAR NKN sing 386 n n CAR CAS NKN sing 387 n n CAS CAT NKN sing 388 n n CAT CAU NKN sing 389 n n CAU CAV NKN sing 390 n n CAV CAW NKN sing 391 n n CAW CAX NKN sing 392 n n CAG HAG NKN sing 393 n n CAG HAGA NKN sing 394 n n CAH HAH NKN sing 395 n n CAI HAI NKN sing 396 n n CAI HAIA NKN sing 397 n n CAL HAL NKN sing 398 n n CAL HALA NKN sing 399 n n CAM HAM NKN sing 400 n n CAM HAMA NKN sing 401 n n CAN HAN NKN sing 402 n n CAN HANA NKN sing 403 n n CAO HAO NKN sing 404 n n CAO HAOA NKN sing 405 n n CAP HAP NKN sing 406 n n CAP HAPA NKN sing 407 n n CAQ HAQ NKN sing 408 n n CAQ HAQA NKN sing 409 n n CAR HAR NKN sing 410 n n CAR HARA NKN sing 411 n n CAS HAS NKN sing 412 n n CAS HASA NKN sing 413 n n CAT HAT NKN sing 414 n n CAT HATA NKN sing 415 n n CAU HAU NKN sing 416 n n CAU HAUA NKN sing 417 n n CAV HAV NKN sing 418 n n CAV HAVA NKN sing 419 n n CAW HAW NKN sing 420 n n CAW HAWA NKN sing 421 n n CAX HAX NKN sing 422 n n CAX HAXA NKN sing 423 n n CAX HAXB NKN sing 424 n n OAY HOAY NKN sing 425 n n OAA HOAA NKN sing 426 n n OAB HOAB NKN sing 427 n n # _atom_sites.entry_id 8T3M _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 2 85R A 1 801 801 85R RLP . F 3 NA A 1 802 4 NA NA . G 3 NA A 1 803 5 NA NA . H 4 NKN D 1 801 801 NKN LPA . I 4 NKN B 1 801 801 NKN LPA . J 4 NKN C 1 801 801 NKN LPA . # 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 OAA NKN . . . I 4 152.806 135.788 149.633 1 43.21 ? OAA NKN 801 B 1 HETATM 2 O OAB NKN . . . I 4 154.454 134.682 148.491 1 43.21 ? OAB NKN 801 B 1 HETATM 3 P PAC NKN . . . I 4 154.164 135.958 149.14 1 43.21 ? PAC NKN 801 B 1 HETATM 4 O OAD NKN . . . I 4 154.996 135.959 150.339 1 43.21 ? OAD NKN 801 B 1 HETATM 5 O OAE NKN . . . I 4 153.52 140.721 145.844 1 43.21 ? OAE NKN 801 B 1 HETATM 6 O OAF NKN . . . I 4 154.358 137.279 148.175 1 43.21 ? OAF NKN 801 B 1 HETATM 7 C CAG NKN . . . I 4 153.417 137.519 147.168 1 43.21 ? CAG NKN 801 B 1 HETATM 8 C CAH NKN . . . I 4 154.033 137.228 145.805 1 43.21 ? CAH NKN 801 B 1 HETATM 9 C CAI NKN . . . I 4 154.914 138.379 145.336 1 43.21 ? CAI NKN 801 B 1 HETATM 10 O OAJ NKN . . . I 4 154.227 139.154 144.39 1 43.21 ? OAJ NKN 801 B 1 HETATM 11 C CAK NKN . . . I 4 153.3 140.088 144.869 1 43.21 ? CAK NKN 801 B 1 HETATM 12 C CAL NKN . . . I 4 151.996 140.326 144.118 1 43.21 ? CAL NKN 801 B 1 HETATM 13 C CAM NKN . . . I 4 151.275 139.01 143.847 1 43.21 ? CAM NKN 801 B 1 HETATM 14 C CAN NKN . . . I 4 150.844 138.97 142.387 1 43.21 ? CAN NKN 801 B 1 HETATM 15 C CAO NKN . . . I 4 151.978 138.424 141.523 1 43.21 ? CAO NKN 801 B 1 HETATM 16 C CAP NKN . . . I 4 152.054 139.231 140.233 1 43.21 ? CAP NKN 801 B 1 HETATM 17 C CAQ NKN . . . I 4 150.927 138.799 139.301 1 43.21 ? CAQ NKN 801 B 1 HETATM 18 C CAR NKN . . . I 4 151.029 139.617 138.021 1 43.21 ? CAR NKN 801 B 1 HETATM 19 C CAS NKN . . . I 4 150.49 138.812 136.847 1 43.21 ? CAS NKN 801 B 1 HETATM 20 C CAT NKN . . . I 4 149.636 139.66 135.912 1 43.21 ? CAT NKN 801 B 1 HETATM 21 C CAU NKN . . . I 4 148.286 140.027 136.524 1 43.21 ? CAU NKN 801 B 1 HETATM 22 C CAV NKN . . . I 4 147.188 139.189 135.883 1 43.21 ? CAV NKN 801 B 1 HETATM 23 C CAW NKN . . . I 4 147.336 137.734 136.314 1 43.21 ? CAW NKN 801 B 1 HETATM 24 C CAX NKN . . . I 4 146.16 136.939 135.764 1 43.21 ? CAX NKN 801 B 1 HETATM 25 O OAY NKN . . . I 4 154.812 136.078 145.91 1 43.21 ? OAY NKN 801 B 1 HETATM 26 H HAG NKN . . . I 4 153.088 138.55 147.217 1 66.98 ? HAG NKN 801 B 1 HETATM 27 H HAGA NKN . . . I 4 152.564 136.867 147.306 1 66.98 ? HAGA NKN 801 B 1 HETATM 28 H HAH NKN . . . I 4 153.252 137.059 145.08 1 66.98 ? HAH NKN 801 B 1 HETATM 29 H HAI NKN . . . I 4 155.8 137.965 144.865 1 66.98 ? HAI NKN 801 B 1 HETATM 30 H HAIA NKN . . . I 4 155.222 138.976 146.187 1 66.98 ? HAIA NKN 801 B 1 HETATM 31 H HAL NKN . . . I 4 152.214 140.818 143.176 1 66.98 ? HAL NKN 801 B 1 HETATM 32 H HALA NKN . . . I 4 151.354 140.964 144.717 1 66.98 ? HALA NKN 801 B 1 HETATM 33 H HAM NKN . . . I 4 151.927 138.17 144.043 1 66.98 ? HAM NKN 801 B 1 HETATM 34 H HAMA NKN . . . I 4 150.402 138.94 144.486 1 66.98 ? HAMA NKN 801 B 1 HETATM 35 H HAN NKN . . . I 4 149.98 138.323 142.288 1 66.98 ? HAN NKN 801 B 1 HETATM 36 H HANA NKN . . . I 4 150.585 139.972 142.059 1 66.98 ? HANA NKN 801 B 1 HETATM 37 H HAO NKN . . . I 4 151.78 137.384 141.284 1 66.98 ? HAO NKN 801 B 1 HETATM 38 H HAOA NKN . . . I 4 152.92 138.498 142.053 1 66.98 ? HAOA NKN 801 B 1 HETATM 39 H HAP NKN . . . I 4 151.961 140.289 140.452 1 66.98 ? HAP NKN 801 B 1 HETATM 40 H HAPA NKN . . . I 4 153.004 139.046 139.747 1 66.98 ? HAPA NKN 801 B 1 HETATM 41 H HAQ NKN . . . I 4 149.966 138.98 139.768 1 66.98 ? HAQ NKN 801 B 1 HETATM 42 H HAQA NKN . . . I 4 151.032 137.745 139.069 1 66.98 ? HAQA NKN 801 B 1 HETATM 43 H HAR NKN . . . I 4 150.463 140.535 138.136 1 66.98 ? HAR NKN 801 B 1 HETATM 44 H HARA NKN . . . I 4 152.063 139.858 137.839 1 66.98 ? HARA NKN 801 B 1 HETATM 45 H HAS NKN . . . I 4 151.316 138.383 136.293 1 66.98 ? HAS NKN 801 B 1 HETATM 46 H HAT NKN . . . I 4 149.481 139.129 134.981 1 66.98 ? HAT NKN 801 B 1 HETATM 47 H HAU NKN . . . I 4 148.087 141.078 136.348 1 66.98 ? HAU NKN 801 B 1 HETATM 48 H HAUA NKN . . . I 4 148.303 139.834 137.592 1 66.98 ? HAUA NKN 801 B 1 HETATM 49 H HAV NKN . . . I 4 146.221 139.559 136.204 1 66.98 ? HAV NKN 801 B 1 HETATM 50 H HAVA NKN . . . I 4 147.261 139.267 134.806 1 66.98 ? HAVA NKN 801 B 1 HETATM 51 H HAW NKN . . . I 4 148.257 137.319 135.923 1 66.98 ? HAW NKN 801 B 1 HETATM 52 H HAWA NKN . . . I 4 147.343 137.676 137.397 1 66.98 ? HAWA NKN 801 B 1 HETATM 53 H HAX NKN . . . I 4 145.467 136.711 136.568 1 66.98 ? HAX NKN 801 B 1 HETATM 54 H HAXA NKN . . . I 4 145.656 137.525 135.002 1 66.98 ? HAXA NKN 801 B 1 HETATM 55 H HAXB NKN . . . I 4 146.526 136.015 135.327 1 66.98 ? HAXB NKN 801 B 1 HETATM 56 H HOAY NKN . . . I 4 155.64 136.298 146.304 1 43.21 ? HOAY NKN 801 B 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 29 _model_server_stats.query_time_ms 295 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 56 #