data_7TD0
#
_model_server_result.job_id            Rcqbo-jFypejki7OZUvg1A 
_model_server_result.datetime_utc      '2025-03-02 22:55:02' 
_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          7td0 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":401}' 
#
_entry.id    7TD0 
#
_exptl.entry_id    7TD0 
_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            7TD0 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7TD0 
_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 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? 
disulf ? disulf2 A SG CYS 198 R CYS 188 1_555 A SG CYS 205 R CYS 195 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.331 ? 
disulf ? disulf3 A SG CYS 294 R CYS 284 1_555 A SG CYS 297 R CYS 287 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.886 ? 
#
_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                     7TD0 
_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 5 134.608 134.246 171.423 1 61.02 ? OAA NKP 401 R 1 
HETATM 2 O OAB NKP . . . E 5 134.578 131.782 171.375 1 61.02 ? OAB NKP 401 R 1 
HETATM 3 P PAC NKP . . . E 5 135.455 133 171.512 1 61.02 ? PAC NKP 401 R 1 
HETATM 4 O OAD NKP . . . E 5 136.179 132.973 172.835 1 61.02 ? OAD NKP 401 R 1 
HETATM 5 O OAE NKP . . . E 5 136.901 131.936 163.848 1 61.02 ? OAE NKP 401 R 1 
HETATM 6 O OAF NKP . . . E 5 136.554 133.001 170.292 1 61.02 ? OAF NKP 401 R 1 
HETATM 7 C CAG NKP . . . E 5 136.068 133.08 168.986 1 61.02 ? CAG NKP 401 R 1 
HETATM 8 C CAH NKP . . . E 5 137.245 133.13 168.021 1 61.02 ? CAH NKP 401 R 1 
HETATM 9 C CAI NKP . . . E 5 136.745 132.92 166.597 1 61.02 ? CAI NKP 401 R 1 
HETATM 10 O OAJ NKP . . . E 5 137.432 131.847 166.026 1 61.02 ? OAJ NKP 401 R 1 
HETATM 11 C CAK NKP . . . E 5 137.739 132.042 164.678 1 61.02 ? CAK NKP 401 R 1 
HETATM 12 C CAL NKP . . . E 5 139.165 132.416 164.29 1 61.02 ? CAL NKP 401 R 1 
HETATM 13 C CAM NKP . . . E 5 140.105 131.981 165.41 1 61.02 ? CAM NKP 401 R 1 
HETATM 14 C CAN NKP . . . E 5 141.519 132.444 165.081 1 61.02 ? CAN NKP 401 R 1 
HETATM 15 C CAO NKP . . . E 5 142.41 131.23 164.831 1 61.02 ? CAO NKP 401 R 1 
HETATM 16 C CAP NKP . . . E 5 142.055 130.591 163.49 1 61.02 ? CAP NKP 401 R 1 
HETATM 17 C CAQ NKP . . . E 5 142.983 129.402 163.253 1 61.02 ? CAQ NKP 401 R 1 
HETATM 18 C CAR NKP . . . E 5 142.367 128.415 162.264 1 61.02 ? CAR NKP 401 R 1 
HETATM 19 C CAS NKP . . . E 5 142.406 129.007 160.859 1 61.02 ? CAS NKP 401 R 1 
HETATM 20 C CAT NKP . . . E 5 141.471 129.847 160.478 1 61.02 ? CAT NKP 401 R 1 
HETATM 21 C CAU NKP . . . E 5 141.509 130.441 159.075 1 61.02 ? CAU NKP 401 R 1 
HETATM 22 C CAV NKP . . . E 5 140.449 131.532 158.958 1 61.02 ? CAV NKP 401 R 1 
HETATM 23 C CAW NKP . . . E 5 141.098 132.912 159.04 1 61.02 ? CAW NKP 401 R 1 
HETATM 24 C CAX NKP . . . E 5 141.862 133.049 160.354 1 61.02 ? CAX NKP 401 R 1 
HETATM 25 C CAY NKP . . . E 5 142.249 134.504 160.593 1 61.02 ? CAY NKP 401 R 1 
HETATM 26 C CAZ NKP . . . E 5 143.1 134.543 161.856 1 61.02 ? CAZ NKP 401 R 1 
HETATM 27 C CBA NKP . . . E 5 143.126 135.95 162.438 1 61.02 ? CBA NKP 401 R 1 
HETATM 28 C CBB NKP . . . E 5 143.809 135.894 163.8 1 61.02 ? CBB NKP 401 R 1 
HETATM 29 O OBC NKP . . . E 5 137.867 134.379 168.113 1 61.02 ? OBC NKP 401 R 1 
HETATM 30 H HAG NKP . . . E 5 135.457 132.208 168.775 1 61.02 ? HAG NKP 401 R 1 
HETATM 31 H HAGA NKP . . . E 5 135.47 133.979 168.876 1 61.02 ? HAGA NKP 401 R 1 
HETATM 32 H HAH NKP . . . E 5 137.955 132.353 168.275 1 61.02 ? HAH NKP 401 R 1 
HETATM 33 H HAI NKP . . . E 5 135.68 132.714 166.601 1 61.02 ? HAI NKP 401 R 1 
HETATM 34 H HAIA NKP . . . E 5 136.939 133.817 166.02 1 61.02 ? HAIA NKP 401 R 1 
HETATM 35 H HAL NKP . . . E 5 139.237 133.488 164.146 1 61.02 ? HAL NKP 401 R 1 
HETATM 36 H HALA NKP . . . E 5 139.432 131.903 163.372 1 61.02 ? HALA NKP 401 R 1 
HETATM 37 H HAM NKP . . . E 5 140.086 130.899 165.48 1 61.02 ? HAM NKP 401 R 1 
HETATM 38 H HAMA NKP . . . E 5 139.793 132.411 166.356 1 61.02 ? HAMA NKP 401 R 1 
HETATM 39 H HAN NKP . . . E 5 141.915 133.008 165.919 1 61.02 ? HAN NKP 401 R 1 
HETATM 40 H HANA NKP . . . E 5 141.496 133.074 164.2 1 61.02 ? HANA NKP 401 R 1 
HETATM 41 H HAO NKP . . . E 5 143.444 131.556 164.804 1 61.02 ? HAO NKP 401 R 1 
HETATM 42 H HAOA NKP . . . E 5 142.28 130.509 165.631 1 61.02 ? HAOA NKP 401 R 1 
HETATM 43 H HAP NKP . . . E 5 142.181 131.32 162.696 1 61.02 ? HAP NKP 401 R 1 
HETATM 44 H HAPA NKP . . . E 5 141.027 130.246 163.508 1 61.02 ? HAPA NKP 401 R 1 
HETATM 45 H HAQ NKP . . . E 5 143.928 129.756 162.859 1 61.02 ? HAQ NKP 401 R 1 
HETATM 46 H HAQA NKP . . . E 5 143.153 128.898 164.199 1 61.02 ? HAQA NKP 401 R 1 
HETATM 47 H HAR NKP . . . E 5 141.34 128.212 162.547 1 61.02 ? HAR NKP 401 R 1 
HETATM 48 H HARA NKP . . . E 5 142.933 127.489 162.276 1 61.02 ? HARA NKP 401 R 1 
HETATM 49 H HAS NKP . . . E 5 143.201 128.734 160.177 1 61.02 ? HAS NKP 401 R 1 
HETATM 50 H HAT NKP . . . E 5 140.679 130.118 161.165 1 61.02 ? HAT NKP 401 R 1 
HETATM 51 H HAU NKP . . . E 5 142.49 130.87 158.901 1 61.02 ? HAU NKP 401 R 1 
HETATM 52 H HAUA NKP . . . E 5 141.326 129.667 158.336 1 61.02 ? HAUA NKP 401 R 1 
HETATM 53 H HAV NKP . . . E 5 139.709 131.423 159.744 1 61.02 ? HAV NKP 401 R 1 
HETATM 54 H HAVA NKP . . . E 5 139.971 131.428 157.99 1 61.02 ? HAVA NKP 401 R 1 
HETATM 55 H HAW NKP . . . E 5 141.788 133.037 158.212 1 61.02 ? HAW NKP 401 R 1 
HETATM 56 H HAWA NKP . . . E 5 140.33 133.677 158.99 1 61.02 ? HAWA NKP 401 R 1 
HETATM 57 H HAX NKP . . . E 5 142.765 132.45 160.321 1 61.02 ? HAX NKP 401 R 1 
HETATM 58 H HAXA NKP . . . E 5 141.234 132.708 161.17 1 61.02 ? HAXA NKP 401 R 1 
HETATM 59 H HAY NKP . . . E 5 142.82 134.881 159.752 1 61.02 ? HAY NKP 401 R 1 
HETATM 60 H HAYA NKP . . . E 5 141.354 135.101 160.73 1 61.02 ? HAYA NKP 401 R 1 
HETATM 61 H HAZ NKP . . . E 5 142.683 133.862 162.587 1 61.02 ? HAZ NKP 401 R 1 
HETATM 62 H HAZA NKP . . . E 5 144.112 134.233 161.617 1 61.02 ? HAZA NKP 401 R 1 
HETATM 63 H HBA NKP . . . E 5 142.111 136.315 162.554 1 61.02 ? HBA NKP 401 R 1 
HETATM 64 H HBAA NKP . . . E 5 143.678 136.609 161.777 1 61.02 ? HBAA NKP 401 R 1 
HETATM 65 H HBB NKP . . . E 5 144.876 135.746 163.664 1 61.02 ? HBB NKP 401 R 1 
HETATM 66 H HBBA NKP . . . E 5 143.638 136.827 164.329 1 61.02 ? HBBA NKP 401 R 1 
HETATM 67 H HBBB NKP . . . E 5 143.401 135.071 164.379 1 61.02 ? HBBB NKP 401 R 1 
HETATM 68 H HOBC NKP . . . E 5 138.503 134.363 168.813 1 61.02 ? HOBC NKP 401 R 1 
#
_model_server_stats.io_time_ms              79 
_model_server_stats.parse_time_ms           40 
_model_server_stats.create_model_time_ms    56 
_model_server_stats.query_time_ms           997 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           68 
#