data_7TD1 # _model_server_result.job_id HyO5dXFZ-UDgCqBdc00VLg _model_server_result.datetime_utc '2025-03-02 22:50:56' _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 7td1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":401}' # _entry.id 7TD1 # _exptl.entry_id 7TD1 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 436.52 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(2R)-2-hydroxy-3-(phosphonooxy)propyl (9E)-octadec-9-enoate' _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 7TD1 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7TD1 _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 _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 5 _struct_asym.id E _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 34 R CYS 24 1_555 A SG CYS 200 R CYS 190 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf2 A SG CYS 198 R CYS 188 1_555 A SG CYS 205 R CYS 195 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.179 ? disulf ? disulf3 A SG CYS 294 R CYS 284 1_555 A SG CYS 297 R CYS 287 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? # _chem_comp.formula 'C21 H41 O7 P' _chem_comp.formula_weight 436.52 _chem_comp.id NKP _chem_comp.mon_nstd_flag . _chem_comp.name '(2R)-2-hydroxy-3-(phosphonooxy)propyl (9E)-octadec-9-enoate' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms '18:1 LPA;oleoyl 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 NKP sing 235 n n OAB PAC NKP sing 236 n n PAC OAD NKP doub 237 n n PAC OAF NKP sing 238 n n OAE CAK NKP doub 239 n n OAF CAG NKP sing 240 n n CAG CAH NKP sing 241 n n CAH CAI NKP sing 242 n n CAH OBC NKP sing 243 n n CAI OAJ NKP sing 244 n n OAJ CAK NKP sing 245 n n CAK CAL NKP sing 246 n n CAL CAM NKP sing 247 n n CAM CAN NKP sing 248 n n CAN CAO NKP sing 249 n n CAO CAP NKP sing 250 n n CAP CAQ NKP sing 251 n n CAQ CAR NKP sing 252 n n CAR CAS NKP sing 253 n n CAS CAT NKP doub 254 n n CAT CAU NKP sing 255 n n CAU CAV NKP sing 256 n n CAV CAW NKP sing 257 n n CAW CAX NKP sing 258 n n CAX CAY NKP sing 259 n n CAY CAZ NKP sing 260 n n CAZ CBA NKP sing 261 n n CBA CBB NKP sing 262 n n CAG HAG NKP sing 263 n n CAG HAGA NKP sing 264 n n CAH HAH NKP sing 265 n n CAI HAI NKP sing 266 n n CAI HAIA NKP sing 267 n n CAL HAL NKP sing 268 n n CAL HALA NKP sing 269 n n CAM HAM NKP sing 270 n n CAM HAMA NKP sing 271 n n CAN HAN NKP sing 272 n n CAN HANA NKP sing 273 n n CAO HAO NKP sing 274 n n CAO HAOA NKP sing 275 e n CAP HAP NKP sing 276 n n CAP HAPA NKP sing 277 n n CAQ HAQ NKP sing 278 n n CAQ HAQA NKP sing 279 n n CAR HAR NKP sing 280 n n CAR HARA NKP sing 281 n n CAS HAS NKP sing 282 n n CAT HAT NKP sing 283 n n CAU HAU NKP sing 284 n n CAU HAUA NKP sing 285 n n CAV HAV NKP sing 286 n n CAV HAVA NKP sing 287 n n CAW HAW NKP sing 288 n n CAW HAWA NKP sing 289 n n CAX HAX NKP sing 290 n n CAX HAXA NKP sing 291 n n CAY HAY NKP sing 292 n n CAY HAYA NKP sing 293 n n CAZ HAZ NKP sing 294 n n CAZ HAZA NKP sing 295 n n CBA HBA NKP sing 296 n n CBA HBAA NKP sing 297 n n CBB HBB NKP sing 298 n n CBB HBBA NKP sing 299 n n CBB HBBB NKP sing 300 n n OBC HOBC NKP sing 301 n n OAA HOAA NKP sing 302 n n OAB HOAB NKP sing 303 n n # _atom_sites.entry_id 7TD1 _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 E _pdbx_nonpoly_scheme.entity_id 5 _pdbx_nonpoly_scheme.mon_id NKP _pdbx_nonpoly_scheme.pdb_strand_id R _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 401 _pdbx_nonpoly_scheme.auth_seq_num 401 _pdbx_nonpoly_scheme.pdb_mon_id NKP _pdbx_nonpoly_scheme.auth_mon_id NKP _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 OAA NKP . . . E 5 74.524 61.797 133.714 1 60.91 ? OAA NKP 401 R 1 HETATM 2 O OAB NKP . . . E 5 73.513 60.745 131.723 1 60.91 ? OAB NKP 401 R 1 HETATM 3 P PAC NKP . . . E 5 74.791 60.933 132.505 1 60.91 ? PAC NKP 401 R 1 HETATM 4 O OAD NKP . . . E 5 75.313 59.589 132.949 1 60.91 ? OAD NKP 401 R 1 HETATM 5 O OAE NKP . . . E 5 78.242 60.454 125.634 1 60.91 ? OAE NKP 401 R 1 HETATM 6 O OAF NKP . . . E 5 75.916 61.663 131.55 1 60.91 ? OAF NKP 401 R 1 HETATM 7 C CAG NKP . . . E 5 76.204 61.071 130.317 1 60.91 ? CAG NKP 401 R 1 HETATM 8 C CAH NKP . . . E 5 77.305 61.858 129.609 1 60.91 ? CAH NKP 401 R 1 HETATM 9 C CAI NKP . . . E 5 77.227 61.611 128.105 1 60.91 ? CAI NKP 401 R 1 HETATM 10 O OAJ NKP . . . E 5 77.742 60.346 127.814 1 60.91 ? OAJ NKP 401 R 1 HETATM 11 C CAK NKP . . . E 5 78.641 60.341 126.743 1 60.91 ? CAK NKP 401 R 1 HETATM 12 C CAL NKP . . . E 5 80.137 60.203 127.008 1 60.91 ? CAL NKP 401 R 1 HETATM 13 C CAM NKP . . . E 5 80.755 59.256 125.985 1 60.91 ? CAM NKP 401 R 1 HETATM 14 C CAN NKP . . . E 5 82.261 59.184 126.218 1 60.91 ? CAN NKP 401 R 1 HETATM 15 C CAO NKP . . . E 5 82.795 57.838 125.735 1 60.91 ? CAO NKP 401 R 1 HETATM 16 C CAP NKP . . . E 5 82.637 57.743 124.222 1 60.91 ? CAP NKP 401 R 1 HETATM 17 C CAQ NKP . . . E 5 83.522 56.614 123.695 1 60.91 ? CAQ NKP 401 R 1 HETATM 18 C CAR NKP . . . E 5 83.111 56.232 122.276 1 60.91 ? CAR NKP 401 R 1 HETATM 19 C CAS NKP . . . E 5 82.886 57.516 121.49 1 60.91 ? CAS NKP 401 R 1 HETATM 20 C CAT NKP . . . E 5 81.81 57.688 120.757 1 60.91 ? CAT NKP 401 R 1 HETATM 21 C CAU NKP . . . E 5 81.656 59.009 120.015 1 60.91 ? CAU NKP 401 R 1 HETATM 22 C CAV NKP . . . E 5 81.113 60.021 121.02 1 60.91 ? CAV NKP 401 R 1 HETATM 23 C CAW NKP . . . E 5 81.686 61.41 120.754 1 60.91 ? CAW NKP 401 R 1 HETATM 24 C CAX NKP . . . E 5 82.831 61.658 121.733 1 60.91 ? CAX NKP 401 R 1 HETATM 25 C CAY NKP . . . E 5 83.19 63.14 121.775 1 60.91 ? CAY NKP 401 R 1 HETATM 26 C CAZ NKP . . . E 5 83.728 63.48 123.163 1 60.91 ? CAZ NKP 401 R 1 HETATM 27 C CBA NKP . . . E 5 82.568 63.634 124.147 1 60.91 ? CBA NKP 401 R 1 HETATM 28 C CBB NKP . . . E 5 83.095 63.555 125.577 1 60.91 ? CBB NKP 401 R 1 HETATM 29 O OBC NKP . . . E 5 77.144 63.224 129.868 1 60.91 ? OBC NKP 401 R 1 HETATM 30 H HAG NKP . . . E 5 75.308 61.065 129.707 1 60.91 ? HAG NKP 401 R 1 HETATM 31 H HAGA NKP . . . E 5 76.537 60.051 130.479 1 60.91 ? HAGA NKP 401 R 1 HETATM 32 H HAH NKP . . . E 5 78.272 61.535 129.976 1 60.91 ? HAH NKP 401 R 1 HETATM 33 H HAI NKP . . . E 5 77.808 62.363 127.583 1 60.91 ? HAI NKP 401 R 1 HETATM 34 H HAIA NKP . . . E 5 76.195 61.667 127.777 1 60.91 ? HAIA NKP 401 R 1 HETATM 35 H HAL NKP . . . E 5 80.292 59.811 128.007 1 60.91 ? HAL NKP 401 R 1 HETATM 36 H HALA NKP . . . E 5 80.603 61.178 126.921 1 60.91 ? HALA NKP 401 R 1 HETATM 37 H HAM NKP . . . E 5 80.328 58.265 126.095 1 60.91 ? HAM NKP 401 R 1 HETATM 38 H HAMA NKP . . . E 5 80.559 59.614 124.98 1 60.91 ? HAMA NKP 401 R 1 HETATM 39 H HAN NKP . . . E 5 82.75 59.983 125.671 1 60.91 ? HAN NKP 401 R 1 HETATM 40 H HANA NKP . . . E 5 82.47 59.298 127.276 1 60.91 ? HANA NKP 401 R 1 HETATM 41 H HAO NKP . . . E 5 83.849 57.767 125.986 1 60.91 ? HAO NKP 401 R 1 HETATM 42 H HAOA NKP . . . E 5 82.247 57.035 126.216 1 60.91 ? HAOA NKP 401 R 1 HETATM 43 H HAP NKP . . . E 5 82.94 58.688 123.784 1 60.91 ? HAP NKP 401 R 1 HETATM 44 H HAPA NKP . . . E 5 81.601 57.54 123.973 1 60.91 ? HAPA NKP 401 R 1 HETATM 45 H HAQ NKP . . . E 5 84.553 56.949 123.684 1 60.91 ? HAQ NKP 401 R 1 HETATM 46 H HAQA NKP . . . E 5 83.421 55.753 124.346 1 60.91 ? HAQA NKP 401 R 1 HETATM 47 H HAR NKP . . . E 5 82.195 55.652 122.299 1 60.91 ? HAR NKP 401 R 1 HETATM 48 H HARA NKP . . . E 5 83.897 55.649 121.81 1 60.91 ? HARA NKP 401 R 1 HETATM 49 H HAS NKP . . . E 5 83.621 58.308 121.545 1 60.91 ? HAS NKP 401 R 1 HETATM 50 H HAT NKP . . . E 5 81.054 56.916 120.687 1 60.91 ? HAT NKP 401 R 1 HETATM 51 H HAU NKP . . . E 5 82.628 59.331 119.66 1 60.91 ? HAU NKP 401 R 1 HETATM 52 H HAUA NKP . . . E 5 80.973 58.899 119.181 1 60.91 ? HAUA NKP 401 R 1 HETATM 53 H HAV NKP . . . E 5 80.031 60.055 120.976 1 60.91 ? HAV NKP 401 R 1 HETATM 54 H HAVA NKP . . . E 5 81.413 59.699 122.01 1 60.91 ? HAVA NKP 401 R 1 HETATM 55 H HAW NKP . . . E 5 82.045 61.482 119.734 1 60.91 ? HAW NKP 401 R 1 HETATM 56 H HAWA NKP . . . E 5 80.909 62.148 120.92 1 60.91 ? HAWA NKP 401 R 1 HETATM 57 H HAX NKP . . . E 5 83.698 61.089 121.417 1 60.91 ? HAX NKP 401 R 1 HETATM 58 H HAXA NKP . . . E 5 82.538 61.333 122.723 1 60.91 ? HAXA NKP 401 R 1 HETATM 59 H HAY NKP . . . E 5 82.312 63.741 121.572 1 60.91 ? HAY NKP 401 R 1 HETATM 60 H HAYA NKP . . . E 5 83.952 63.34 121.03 1 60.91 ? HAYA NKP 401 R 1 HETATM 61 H HAZ NKP . . . E 5 84.386 62.685 123.496 1 60.91 ? HAZ NKP 401 R 1 HETATM 62 H HAZA NKP . . . E 5 84.28 64.411 123.119 1 60.91 ? HAZA NKP 401 R 1 HETATM 63 H HBA NKP . . . E 5 81.837 62.849 123.994 1 60.91 ? HBA NKP 401 R 1 HETATM 64 H HBAA NKP . . . E 5 82.095 64.597 123.99 1 60.91 ? HBAA NKP 401 R 1 HETATM 65 H HBB NKP . . . E 5 83.617 64.475 125.822 1 60.91 ? HBB NKP 401 R 1 HETATM 66 H HBBA NKP . . . E 5 83.779 62.716 125.666 1 60.91 ? HBBA NKP 401 R 1 HETATM 67 H HBBB NKP . . . E 5 82.262 63.417 126.26 1 60.91 ? HBBB NKP 401 R 1 HETATM 68 H HOBC NKP . . . E 5 77.947 63.572 130.225 1 60.91 ? HOBC NKP 401 R 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 311 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 68 #