data_5XJ8
#
_model_server_result.job_id            OypRatfUmHtg4l8F3-MIjw 
_model_server_result.datetime_utc      '2024-11-07 20:42:35' 
_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          5xj8 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":302}' 
#
_entry.id    5XJ8 
#
_exptl.entry_id    5XJ8 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              410.483 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '(2R)-2-hydroxy-3-(phosphonooxy)propyl hexadecanoate' 
_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          95.59 
_cell.angle_gamma         90 
_cell.entry_id            5XJ8 
_cell.length_a            123.888 
_cell.length_b            40.895 
_cell.length_c            91.705 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5XJ8 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 1 2 1' 
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_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_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 
_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                      3 
_struct_asym.id                             F 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
_chem_comp.formula           'C19 H39 O7 P' 
_chem_comp.formula_weight    410.483 
_chem_comp.id                NKO 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '(2R)-2-hydroxy-3-(phosphonooxy)propyl hexadecanoate' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     '16:0 LPA;palmitoyl 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 NKO sing 245 n n 
OAB PAC NKO sing 246 n n 
PAC OAD NKO doub 247 n n 
PAC OAF NKO sing 248 n n 
OAE CAK NKO doub 249 n n 
OAF CAG NKO sing 250 n n 
CAG CAH NKO sing 251 n n 
CAH CAI NKO sing 252 n n 
CAH OBA NKO sing 253 n n 
CAI OAJ NKO sing 254 n n 
OAJ CAK NKO sing 255 n n 
CAK CAL NKO sing 256 n n 
CAL CAM NKO sing 257 n n 
CAM CAN NKO sing 258 n n 
CAN CAO NKO sing 259 n n 
CAO CAP NKO sing 260 n n 
CAP CAQ NKO sing 261 n n 
CAQ CAR NKO sing 262 n n 
CAR CAS NKO sing 263 n n 
CAS CAT NKO sing 264 n n 
CAT CAU NKO sing 265 n n 
CAU CAV NKO sing 266 n n 
CAV CAW NKO sing 267 n n 
CAW CAX NKO sing 268 n n 
CAX CAY NKO sing 269 n n 
CAY CAZ NKO sing 270 n n 
CAG HAG NKO sing 271 n n 
CAG HAGA NKO sing 272 n n 
CAH HAH NKO sing 273 n n 
CAI HAI NKO sing 274 n n 
CAI HAIA NKO sing 275 n n 
CAL HAL NKO sing 276 n n 
CAL HALA NKO sing 277 n n 
CAM HAM NKO sing 278 n n 
CAM HAMA NKO sing 279 n n 
CAN HAN NKO sing 280 n n 
CAN HANA NKO sing 281 n n 
CAO HAO NKO sing 282 n n 
CAO HAOA NKO sing 283 n n 
CAP HAP NKO sing 284 n n 
CAP HAPA NKO sing 285 n n 
CAQ HAQ NKO sing 286 n n 
CAQ HAQA NKO sing 287 n n 
CAR HAR NKO sing 288 n n 
CAR HARA NKO sing 289 n n 
CAS HAS NKO sing 290 n n 
CAS HASA NKO sing 291 n n 
CAT HAT NKO sing 292 n n 
CAT HATA NKO sing 293 n n 
CAU HAU NKO sing 294 n n 
CAU HAUA NKO sing 295 n n 
CAV HAV NKO sing 296 n n 
CAV HAVA NKO sing 297 n n 
CAW HAW NKO sing 298 n n 
CAW HAWA NKO sing 299 n n 
CAX HAX NKO sing 300 n n 
CAX HAXA NKO sing 301 n n 
CAY HAY NKO sing 302 n n 
CAY HAYA NKO sing 303 n n 
CAZ HAZ NKO sing 304 n n 
CAZ HAZA NKO sing 305 n n 
CAZ HAZB NKO sing 306 n n 
OBA HOBA NKO sing 307 n n 
OAA HOAA NKO sing 308 n n 
OAB HOAB NKO sing 309 n n 
#
_atom_sites.entry_id                     5XJ8 
_atom_sites.fract_transf_matrix[1][1]    0.008072 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.00079 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.024453 
_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]    0.010957 
_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
C 2 PO4 A 1 301 1 PO4 PO4 . 
D 2 PO4 A 1 302 3 PO4 PO4 . 
E 2 PO4 B 1 301 2 PO4 PO4 . 
F 3 NKO B 1 302 1 NKO PPA . 
G 4 HOH A 1 401 16 HOH HOH . 
G 4 HOH A 2 402 1 HOH HOH . 
G 4 HOH A 3 403 3 HOH HOH . 
G 4 HOH A 4 404 2 HOH HOH . 
G 4 HOH A 5 405 4 HOH HOH . 
G 4 HOH A 6 406 17 HOH HOH . 
G 4 HOH A 7 407 5 HOH HOH . 
H 4 HOH B 1 401 10 HOH HOH . 
H 4 HOH B 2 402 7 HOH HOH . 
H 4 HOH B 3 403 6 HOH HOH . 
H 4 HOH B 4 404 12 HOH HOH . 
H 4 HOH B 5 405 8 HOH HOH . 
H 4 HOH B 6 406 9 HOH HOH . 
H 4 HOH B 7 407 14 HOH HOH . 
H 4 HOH B 8 408 13 HOH HOH . 
H 4 HOH B 9 409 15 HOH HOH . 
H 4 HOH B 10 410 11 HOH HOH . 
#
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 NKO . . . F 3 14.647 9.039 41.299 1 50 ? OAA NKO 302 B 1 
HETATM 2 O OAB NKO . . . F 3 12.733 7.541 40.631 1 48.34 ? OAB NKO 302 B 1 
HETATM 3 P PAC NKO . . . F 3 13.63 8.722 40.252 1 43.68 ? PAC NKO 302 B 1 
HETATM 4 O OAD NKO . . . F 3 12.727 9.912 39.916 1 42.86 ? OAD NKO 302 B 1 
HETATM 5 O OAE NKO . . . F 3 13.534 5.339 36.093 1 45.34 ? OAE NKO 302 B 1 
HETATM 6 O OAF NKO . . . F 3 14.35 8.325 38.894 1 46.13 ? OAF NKO 302 B 1 
HETATM 7 C CAG NKO . . . F 3 14.915 9.225 37.918 1 42.75 ? CAG NKO 302 B 1 
HETATM 8 C CAH NKO . . . F 3 15.021 8.512 36.594 1 52.47 ? CAH NKO 302 B 1 
HETATM 9 C CAI NKO . . . F 3 13.69 8.007 36.096 1 45.44 ? CAI NKO 302 B 1 
HETATM 10 O OAJ NKO . . . F 3 14.01 7.197 34.941 1 54.17 ? OAJ NKO 302 B 1 
HETATM 11 C CAK NKO . . . F 3 13.912 5.873 35.086 1 53.82 ? CAK NKO 302 B 1 
HETATM 12 C CAL NKO . . . F 3 14.329 5.151 33.84 1 42.44 ? CAL NKO 302 B 1 
HETATM 13 C CAM NKO . . . F 3 15.774 4.683 33.896 1 51.63 ? CAM NKO 302 B 1 
HETATM 14 C CAN NKO . . . F 3 16.152 3.786 32.731 1 58.17 ? CAN NKO 302 B 1 
HETATM 15 C CAO NKO . . . F 3 17.626 3.422 32.704 1 49.65 ? CAO NKO 302 B 1 
HETATM 16 C CAP NKO . . . F 3 18.527 4.473 32.076 1 52.59 ? CAP NKO 302 B 1 
HETATM 17 C CAQ NKO . . . F 3 18.546 4.441 30.556 1 41 ? CAQ NKO 302 B 1 
HETATM 18 C CAR NKO . . . F 3 19.666 5.256 29.926 1 49.26 ? CAR NKO 302 B 1 
HETATM 19 C CAS NKO . . . F 3 19.357 6.73 29.725 1 44.11 ? CAS NKO 302 B 1 
HETATM 20 C CAT NKO . . . F 3 19.128 7.115 28.27 1 45.01 ? CAT NKO 302 B 1 
HETATM 21 C CAU NKO . . . F 3 18.687 8.556 28.066 1 45.26 ? CAU NKO 302 B 1 
HETATM 22 C CAV NKO . . . F 3 17.297 8.697 27.468 1 43.15 ? CAV NKO 302 B 1 
HETATM 23 C CAW NKO . . . F 3 17.246 8.847 25.954 1 47.75 ? CAW NKO 302 B 1 
HETATM 24 C CAX NKO . . . F 3 16.958 10.269 25.496 1 42.9 ? CAX NKO 302 B 1 
HETATM 25 C CAY NKO . . . F 3 16.355 10.363 24.105 1 36.2 ? CAY NKO 302 B 1 
HETATM 26 C CAZ NKO . . . F 3 15.989 11.773 23.703 1 37.45 ? CAZ NKO 302 B 1 
HETATM 27 O OBA NKO . . . F 3 15.582 9.401 35.625 1 51.62 ? OBA NKO 302 B 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           221 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           27 
#