data_5TJ6 # _model_server_result.job_id rKDJFED2SRT2ChpE4_rYtQ _model_server_result.datetime_utc '2024-11-26 15:33:29' _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 5tj6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":1111}' # _entry.id 5TJ6 # _exptl.entry_id 5TJ6 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 749.007 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(1R)-2-{[(S)-{[(2S)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(hexadecanoyloxy)methyl]ethyl (9Z)-octadec-9-enoate' _entity.pdbx_number_of_molecules 15 _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 5TJ6 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5TJ6 _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,K,L,M,N,O,P,Q,R,S,T,U,V,W,X _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'point symmetry operation' ? ? -1 0 0 0 -1 0 0 0 1 332.8 332.8 0 3 'point symmetry operation' ? ? 0 -1 0 1 0 0 0 0 1 332.8 0 0 4 'point symmetry operation' ? ? 0 1 0 -1 0 0 0 0 1 0 332.8 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 5 J N N ? 5 K N N ? 5 L N N ? 5 M N N ? 5 N N N ? 5 O N N ? 5 P N N ? 5 Q N N ? 5 R N N ? 5 S N N ? 5 T N N ? 5 U N N ? 5 V N N ? 5 W N N ? 5 X 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 THR 276 A THR 276 1_555 E K K . A K 1104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.493 ? metalc ? metalc2 A O THR 276 A THR 276 1_555 F K K . A K 1105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.864 ? metalc ? metalc3 A OG1 THR 276 A THR 276 1_555 F K K . A K 1105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.932 ? metalc ? metalc4 A O VAL 277 A VAL 277 1_555 D K K . A K 1103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.519 ? metalc ? metalc5 A O VAL 277 A VAL 277 1_555 E K K . A K 1104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.353 ? metalc ? metalc6 A O GLY 278 A GLY 278 1_555 C K K . A K 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.773 ? metalc ? metalc7 A O GLY 278 A GLY 278 1_555 D K K . A K 1103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.841 ? metalc ? metalc8 A O PHE 279 A PHE 279 1_555 C K K . A K 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.185 ? metalc ? metalc9 A OD2 ASP 356 A ASP 356 1_555 H CA CA . A CA 1107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.36 ? metalc ? metalc10 A O ARG 503 A ARG 503 1_555 H CA CA . A CA 1107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.484 ? metalc ? metalc11 A O GLY 523 A GLY 523 1_555 H CA CA . A CA 1107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.503 ? metalc ? metalc12 A OE1 GLU 525 A GLU 525 1_555 H CA CA . A CA 1107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.936 ? metalc ? metalc13 A O GLU 591 A GLU 591 1_555 H CA CA . A CA 1107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.407 ? metalc ? metalc14 A O GLN 899 A GLN 899 1_555 I CA CA . A CA 1108 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.389 ? metalc ? metalc15 A O ASP 902 A ASP 902 1_555 I CA CA . A CA 1108 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.362 ? metalc ? metalc16 A OD1 ASP 905 A ASP 905 1_555 I CA CA . A CA 1108 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.55 ? metalc ? metalc17 A OD2 ASP 907 A ASP 907 1_555 I CA CA . A CA 1108 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.769 ? # _chem_comp.formula 'C40 H77 O10 P' _chem_comp.formula_weight 749.007 _chem_comp.id PGW _chem_comp.mon_nstd_flag . _chem_comp.name '(1R)-2-{[(S)-{[(2S)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(hexadecanoyloxy)methyl]ethyl (9Z)-octadec-9-enoate' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 1-Palmitoyl-2-Oleoyl-sn-Glycero-3-[Phospho-(1-glycerol)];PHOSPHATIDYLGLYCEROL # 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 CAD C05 PGW sing 235 n n CAD HAD PGW sing 236 n n CAD HADA PGW sing 237 n n OAE CAD PGW sing 238 n n OAE HOAE PGW sing 239 n n OAF C05 PGW sing 240 n n OAF HOAF PGW sing 241 n n P O13 PGW sing 242 n n P O11 PGW sing 243 n n C01 O03 PGW sing 244 n n C01 C02 PGW sing 245 n n C01 H01 PGW sing 246 n n C01 H01A PGW sing 247 n n C1 C2 PGW sing 248 n n O01 C1 PGW sing 249 n n C02 O01 PGW sing 250 n n C02 H02 PGW sing 251 n n C2 C3 PGW sing 252 n n C2 H2 PGW sing 253 n n C2 H2A PGW sing 254 n n O02 C1 PGW doub 255 n n C03 C02 PGW sing 256 n n C03 H03 PGW sing 257 n n C03 H03A PGW sing 258 n n C3 C4 PGW sing 259 n n C3 H3 PGW sing 260 n n C3 H3A PGW sing 261 n n C04 C05 PGW sing 262 n n C04 O12 PGW sing 263 n n C04 H04 PGW sing 264 n n C04 H04A PGW sing 265 n n C4 C5 PGW sing 266 n n C4 H4 PGW sing 267 n n C4 H4A PGW sing 268 n n O04 C19 PGW doub 269 n n C05 H05 PGW sing 270 n n C5 C6 PGW sing 271 n n C5 H5 PGW sing 272 n n C5 H5A PGW sing 273 n n C06 C07 PGW sing 274 n n C06 H06 PGW sing 275 n n C06 H06A PGW sing 276 n n C6 C7 PGW sing 277 n n C6 H6 PGW sing 278 n n C6 H6A PGW sing 279 n n C07 H07 PGW sing 280 n n C07 H07A PGW sing 281 n n C7 C8 PGW sing 282 n n C7 H7 PGW sing 283 n n C7 H7A PGW sing 284 n n C08 C07 PGW sing 285 n n C08 H08 PGW sing 286 n n C08 H08A PGW sing 287 n n C8 C9 PGW sing 288 n n C8 H8 PGW sing 289 n n C8 H8A PGW sing 290 n n C09 C08 PGW sing 291 n n C09 C11 PGW sing 292 n n C09 H09 PGW sing 293 n n C09 H09A PGW sing 294 n n C9 C10 PGW doub 295 z n C10 C06 PGW sing 296 n n C11 H11 PGW sing 297 n n C11 H11A PGW sing 298 n n O11 C03 PGW sing 299 n n C12 C11 PGW sing 300 n n C12 H12 PGW sing 301 n n C12 H12A PGW sing 302 n n O12 P PGW sing 303 n n C13 C12 PGW sing 304 n n C13 C14 PGW sing 305 n n C13 H13 PGW sing 306 n n C13 H13A PGW sing 307 n n O13 HO13 PGW sing 308 n n C14 H14 PGW sing 309 n n C14 H14A PGW sing 310 n n C14 H14B PGW sing 311 n n O14 P PGW doub 312 n n C15 C16 PGW sing 313 n n C15 H15 PGW sing 314 n n C15 H15A PGW sing 315 n n C16 H16 PGW sing 316 n n C16 H16A PGW sing 317 n n C17 C16 PGW sing 318 n n C17 C18 PGW sing 319 n n C17 H17 PGW sing 320 n n C17 H17A PGW sing 321 n n C18 C28 PGW sing 322 n n C18 H18 PGW sing 323 n n C18 H18A PGW sing 324 n n C19 O03 PGW sing 325 n n C19 C20 PGW sing 326 n n C20 C21 PGW sing 327 n n C20 H20 PGW sing 328 n n C20 H20A PGW sing 329 n n C21 C22 PGW sing 330 n n C21 H21 PGW sing 331 n n C21 H21A PGW sing 332 n n C22 C23 PGW sing 333 n n C22 H22 PGW sing 334 n n C22 H22A PGW sing 335 n n C23 C24 PGW sing 336 n n C23 H23 PGW sing 337 n n C23 H23A PGW sing 338 n n C24 C25 PGW sing 339 n n C24 H24 PGW sing 340 n n C24 H24A PGW sing 341 n n C25 C26 PGW sing 342 n n C25 H25 PGW sing 343 n n C25 H25A PGW sing 344 n n C26 C27 PGW sing 345 n n C26 H26 PGW sing 346 n n C26 H26A PGW sing 347 n n C27 C15 PGW sing 348 n n C27 H27 PGW sing 349 n n C27 H27A PGW sing 350 n n C28 H28 PGW sing 351 n n C28 H28A PGW sing 352 n n C29 H29 PGW sing 353 n n C29 H29A PGW sing 354 n n C29 H29B PGW sing 355 n n C30 C28 PGW sing 356 n n C30 C29 PGW sing 357 n n C30 H30 PGW sing 358 n n C30 H30A PGW sing 359 n n C9 H9 PGW sing 360 n n C10 H10 PGW sing 361 n n # _atom_sites.entry_id 5TJ6 _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 B 2 K A 1 1101 1995 K K . C 2 K A 1 1102 1996 K K . D 2 K A 1 1103 1997 K K . E 2 K A 1 1104 1998 K K . F 2 K A 1 1105 1999 K K . G 3 MG A 1 1106 2000 MG MG . H 4 CA A 1 1107 2001 CA CA . I 4 CA A 1 1108 2002 CA CA . J 5 PGW A 1 1109 2011 PGW PGW . K 5 PGW A 1 1110 2012 PGW PGW . L 5 PGW A 1 1111 2013 PGW PGW . M 5 PGW A 1 1112 2014 PGW PGW . N 5 PGW A 1 1113 2015 PGW PGW . O 5 PGW A 1 1114 2016 PGW PGW . P 5 PGW A 1 1115 2017 PGW PGW . Q 5 PGW A 1 1116 2018 PGW PGW . R 5 PGW A 1 1117 2019 PGW PGW . S 5 PGW A 1 1118 2020 PGW PGW . T 5 PGW A 1 1119 2021 PGW PGW . U 5 PGW A 1 1120 2022 PGW PGW . V 5 PGW A 1 1121 2023 PGW PGW . W 5 PGW A 1 1122 2024 PGW PGW . X 5 PGW A 1 1123 2025 PGW PGW . # 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 C C1 PGW . . . L 5 139.014 157.384 124.023 1 313.7 ? C1 PGW 1111 A 1 HETATM 2 C C2 PGW . . . L 5 139.091 158.642 124.857 1 317.91 ? C2 PGW 1111 A 1 HETATM 3 C C3 PGW . . . L 5 139.097 158.286 126.34 1 318.41 ? C3 PGW 1111 A 1 HETATM 4 C C4 PGW . . . L 5 139.265 159.531 127.207 1 316.5 ? C4 PGW 1111 A 1 HETATM 5 C C5 PGW . . . L 5 138.664 159.328 128.594 1 315.02 ? C5 PGW 1111 A 1 HETATM 6 C C6 PGW . . . L 5 139.121 160.423 129.554 1 311.08 ? C6 PGW 1111 A 1 HETATM 7 C C7 PGW . . . L 5 138.437 160.312 130.916 1 309.91 ? C7 PGW 1111 A 1 HETATM 8 C C8 PGW . . . L 5 139.287 159.528 131.911 1 307.04 ? C8 PGW 1111 A 1 HETATM 9 C C9 PGW . . . L 5 138.429 159.046 133.057 1 302.92 ? C9 PGW 1111 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 257 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 9 #