data_6TP3 # _model_server_result.job_id PaPaAVz6Y7zfbCwYWtLMYQ _model_server_result.datetime_utc '2024-11-06 02:56:37' _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 6tp3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":404}' # _entry.id 6TP3 # _exptl.entry_id 6TP3 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 749.007 _entity.id 4 _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 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 109.55 _cell.angle_gamma 90 _cell.entry_id 6TP3 _cell.length_a 61.223 _cell.length_b 146.423 _cell.length_c 73.6 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6TP3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,E,F,G,H,I,J,K,L,M 1 1 B,N,O,P,Q,R,S,T,U,V,W 2 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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 F N N ? 4 P 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 disulf ? disulf1 A SG CYS 95 A CYS 119 1_555 A SG CYS 178 A CYS 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? disulf ? disulf2 B SG CYS 95 B CYS 119 1_555 B SG CYS 178 B CYS 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? # _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 294 n n CAD HAD PGW sing 295 n n CAD HADA PGW sing 296 n n OAE CAD PGW sing 297 n n OAE HOAE PGW sing 298 n n OAF C05 PGW sing 299 n n OAF HOAF PGW sing 300 n n P O13 PGW sing 301 n n P O11 PGW sing 302 n n C01 O03 PGW sing 303 n n C01 C02 PGW sing 304 n n C01 H01 PGW sing 305 n n C01 H01A PGW sing 306 n n C1 C2 PGW sing 307 n n O01 C1 PGW sing 308 n n C02 O01 PGW sing 309 n n C02 H02 PGW sing 310 n n C2 C3 PGW sing 311 n n C2 H2 PGW sing 312 n n C2 H2A PGW sing 313 n n O02 C1 PGW doub 314 n n C03 C02 PGW sing 315 n n C03 H03 PGW sing 316 n n C03 H03A PGW sing 317 n n C3 C4 PGW sing 318 n n C3 H3 PGW sing 319 n n C3 H3A PGW sing 320 n n C04 C05 PGW sing 321 n n C04 O12 PGW sing 322 n n C04 H04 PGW sing 323 n n C04 H04A PGW sing 324 n n C4 C5 PGW sing 325 n n C4 H4 PGW sing 326 n n C4 H4A PGW sing 327 n n O04 C19 PGW doub 328 n n C05 H05 PGW sing 329 n n C5 C6 PGW sing 330 n n C5 H5 PGW sing 331 n n C5 H5A PGW sing 332 n n C06 C07 PGW sing 333 n n C06 H06 PGW sing 334 n n C06 H06A PGW sing 335 n n C6 C7 PGW sing 336 n n C6 H6 PGW sing 337 n n C6 H6A PGW sing 338 n n C07 H07 PGW sing 339 n n C07 H07A PGW sing 340 n n C7 C8 PGW sing 341 n n C7 H7 PGW sing 342 n n C7 H7A PGW sing 343 n n C08 C07 PGW sing 344 n n C08 H08 PGW sing 345 n n C08 H08A PGW sing 346 n n C8 C9 PGW sing 347 n n C8 H8 PGW sing 348 n n C8 H8A PGW sing 349 n n C09 C08 PGW sing 350 n n C09 C11 PGW sing 351 n n C09 H09 PGW sing 352 n n C09 H09A PGW sing 353 n n C9 C10 PGW doub 354 z n C10 C06 PGW sing 355 n n C11 H11 PGW sing 356 n n C11 H11A PGW sing 357 n n O11 C03 PGW sing 358 n n C12 C11 PGW sing 359 n n C12 H12 PGW sing 360 n n C12 H12A PGW sing 361 n n O12 P PGW sing 362 n n C13 C12 PGW sing 363 n n C13 C14 PGW sing 364 n n C13 H13 PGW sing 365 n n C13 H13A PGW sing 366 n n O13 HO13 PGW sing 367 n n C14 H14 PGW sing 368 n n C14 H14A PGW sing 369 n n C14 H14B PGW sing 370 n n O14 P PGW doub 371 n n C15 C16 PGW sing 372 n n C15 H15 PGW sing 373 n n C15 H15A PGW sing 374 n n C16 H16 PGW sing 375 n n C16 H16A PGW sing 376 n n C17 C16 PGW sing 377 n n C17 C18 PGW sing 378 n n C17 H17 PGW sing 379 n n C17 H17A PGW sing 380 n n C18 C28 PGW sing 381 n n C18 H18 PGW sing 382 n n C18 H18A PGW sing 383 n n C19 O03 PGW sing 384 n n C19 C20 PGW sing 385 n n C20 C21 PGW sing 386 n n C20 H20 PGW sing 387 n n C20 H20A PGW sing 388 n n C21 C22 PGW sing 389 n n C21 H21 PGW sing 390 n n C21 H21A PGW sing 391 n n C22 C23 PGW sing 392 n n C22 H22 PGW sing 393 n n C22 H22A PGW sing 394 n n C23 C24 PGW sing 395 n n C23 H23 PGW sing 396 n n C23 H23A PGW sing 397 n n C24 C25 PGW sing 398 n n C24 H24 PGW sing 399 n n C24 H24A PGW sing 400 n n C25 C26 PGW sing 401 n n C25 H25 PGW sing 402 n n C25 H25A PGW sing 403 n n C26 C27 PGW sing 404 n n C26 H26 PGW sing 405 n n C26 H26A PGW sing 406 n n C27 C15 PGW sing 407 n n C27 H27 PGW sing 408 n n C27 H27A PGW sing 409 n n C28 H28 PGW sing 410 n n C28 H28A PGW sing 411 n n C29 H29 PGW sing 412 n n C29 H29A PGW sing 413 n n C29 H29B PGW sing 414 n n C30 C28 PGW sing 415 n n C30 C29 PGW sing 416 n n C30 H30 PGW sing 417 n n C30 H30A PGW sing 418 n n C9 H9 PGW sing 419 n n C10 H10 PGW sing 420 n n # _atom_sites.entry_id 6TP3 _atom_sites.fract_transf_matrix[1][1] 0.016334 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.0058 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00683 _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] 0.014418 _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 NS2 A 1 401 401 NS2 UNL . D 3 SO4 A 1 402 1 SO4 SO4 . E 3 SO4 A 1 403 2 SO4 SO4 . F 4 PGW A 1 404 2 PGW PGW . G 5 SOG A 1 405 1 SOG SOG . H 5 SOG A 1 406 3 SOG SOG . I 5 SOG A 1 407 4 SOG SOG . J 5 SOG A 1 408 8 SOG SOG . K 5 SOG A 1 409 15 SOG SOG . L 5 SOG A 1 410 16 SOG SOG . M 5 SOG A 1 411 17 SOG SOG . N 2 NS2 B 1 401 401 NS2 UNL . O 3 SO4 B 1 402 3 SO4 SO4 . P 4 PGW B 1 403 1 PGW PGW . Q 5 SOG B 1 404 6 SOG SOG . R 5 SOG B 1 405 7 SOG SOG . S 5 SOG B 1 406 10 SOG SOG . T 5 SOG B 1 407 11 SOG SOG . U 5 SOG B 1 408 12 SOG SOG . V 5 SOG B 1 409 13 SOG SOG . W 5 SOG B 1 410 14 SOG SOG . # 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 CAD PGW . . . F 4 -27.117 55.548 -21.527 1 153.75 ? CAD PGW 404 A 1 HETATM 2 O OAE PGW . . . F 4 -26.338 56.736 -21.281 1 152.39 ? OAE PGW 404 A 1 HETATM 3 O OAF PGW . . . F 4 -25.506 55.194 -23.409 1 153.71 ? OAF PGW 404 A 1 HETATM 4 P P PGW . . . F 4 -29.59 53.251 -25.162 1 161.7 ? P PGW 404 A 1 HETATM 5 C C01 PGW . . . F 4 -30.629 50.581 -22.34 1 131.85 ? C01 PGW 404 A 1 HETATM 6 C C1 PGW . . . F 4 -27.321 49.253 -22.354 1 120.55 ? C1 PGW 404 A 1 HETATM 7 O O01 PGW . . . F 4 -28.683 49.126 -22.879 1 129.32 ? O01 PGW 404 A 1 HETATM 8 C C02 PGW . . . F 4 -29.327 50.385 -23.133 1 135.64 ? C02 PGW 404 A 1 HETATM 9 C C2 PGW . . . F 4 -26.164 48.547 -23.038 1 110.67 ? C2 PGW 404 A 1 HETATM 10 O O02 PGW . . . F 4 -27.14 49.926 -21.346 1 120.46 ? O02 PGW 404 A 1 HETATM 11 C C03 PGW . . . F 4 -29.487 50.593 -24.642 1 145.52 ? C03 PGW 404 A 1 HETATM 12 C C3 PGW . . . F 4 -25.328 47.776 -22.027 1 101.1 ? C3 PGW 404 A 1 HETATM 13 O O03 PGW . . . F 4 -31.151 49.348 -21.831 1 128.24 ? O03 PGW 404 A 1 HETATM 14 C C04 PGW . . . F 4 -27.858 54.799 -23.839 1 157.47 ? C04 PGW 404 A 1 HETATM 15 C C4 PGW . . . F 4 -23.947 47.435 -22.552 1 93.31 ? C4 PGW 404 A 1 HETATM 16 O O04 PGW . . . F 4 -33.113 49.226 -20.632 1 124.53 ? O04 PGW 404 A 1 HETATM 17 C C05 PGW . . . F 4 -26.736 54.765 -22.799 1 154.78 ? C05 PGW 404 A 1 HETATM 18 C C5 PGW . . . F 4 -23.891 45.939 -22.804 1 87.83 ? C5 PGW 404 A 1 HETATM 19 C C06 PGW . . . F 4 -20.62 40.866 -21.218 1 94.68 ? C06 PGW 404 A 1 HETATM 20 C C6 PGW . . . F 4 -22.665 45.306 -22.172 1 86.4 ? C6 PGW 404 A 1 HETATM 21 C C07 PGW . . . F 4 -21.254 39.839 -20.288 1 98.8 ? C07 PGW 404 A 1 HETATM 22 C C7 PGW . . . F 4 -21.851 44.593 -23.245 1 88.28 ? C7 PGW 404 A 1 HETATM 23 C C08 PGW . . . F 4 -20.227 39.197 -19.356 1 103.34 ? C08 PGW 404 A 1 HETATM 24 C C8 PGW . . . F 4 -21.032 43.41 -22.737 1 89.85 ? C8 PGW 404 A 1 HETATM 25 C C09 PGW . . . F 4 -20.794 38.962 -17.952 1 106.37 ? C09 PGW 404 A 1 HETATM 26 C C9 PGW . . . F 4 -21.652 42.092 -23.156 1 91.39 ? C9 PGW 404 A 1 HETATM 27 C C10 PGW . . . F 4 -21.466 40.956 -22.473 1 92.71 ? C10 PGW 404 A 1 HETATM 28 C C11 PGW . . . F 4 -20.634 37.52 -17.445 1 106.89 ? C11 PGW 404 A 1 HETATM 29 O O11 PGW . . . F 4 -30.229 51.778 -24.942 1 154.73 ? O11 PGW 404 A 1 HETATM 30 C C12 PGW . . . F 4 -21.551 37.22 -16.244 1 104.35 ? C12 PGW 404 A 1 HETATM 31 O O12 PGW . . . F 4 -28.535 53.538 -23.957 1 160.42 ? O12 PGW 404 A 1 HETATM 32 C C13 PGW . . . F 4 -20.792 37.008 -14.93 1 101.17 ? C13 PGW 404 A 1 HETATM 33 O O13 PGW . . . F 4 -30.755 54.193 -24.942 1 163.34 ? O13 PGW 404 A 1 HETATM 34 C C14 PGW . . . F 4 -20.209 38.281 -14.331 1 98.89 ? C14 PGW 404 A 1 HETATM 35 O O14 PGW . . . F 4 -28.837 53.235 -26.484 1 162.13 ? O14 PGW 404 A 1 HETATM 36 C C15 PGW . . . F 4 -30.461 40.971 -17.094 1 70.41 ? C15 PGW 404 A 1 HETATM 37 C C16 PGW . . . F 4 -28.96 41.125 -17.293 1 62.86 ? C16 PGW 404 A 1 HETATM 38 C C17 PGW . . . F 4 -28.203 41.129 -15.98 1 55.91 ? C17 PGW 404 A 1 HETATM 39 C C18 PGW . . . F 4 -27.544 42.477 -15.713 1 53.76 ? C18 PGW 404 A 1 HETATM 40 C C19 PGW . . . F 4 -31.894 49.284 -20.569 1 123.16 ? C19 PGW 404 A 1 HETATM 41 C C20 PGW . . . F 4 -31.181 49.271 -19.221 1 115.33 ? C20 PGW 404 A 1 HETATM 42 C C21 PGW . . . F 4 -31.866 48.373 -18.191 1 107.21 ? C21 PGW 404 A 1 HETATM 43 C C22 PGW . . . F 4 -31.542 46.896 -18.363 1 100.45 ? C22 PGW 404 A 1 HETATM 44 C C23 PGW . . . F 4 -32.797 46.026 -18.408 1 95.04 ? C23 PGW 404 A 1 HETATM 45 C C24 PGW . . . F 4 -32.941 45.195 -17.136 1 90.86 ? C24 PGW 404 A 1 HETATM 46 C C25 PGW . . . F 4 -33.187 43.723 -17.449 1 87.29 ? C25 PGW 404 A 1 HETATM 47 C C26 PGW . . . F 4 -32.176 42.809 -16.758 1 83.84 ? C26 PGW 404 A 1 HETATM 48 C C27 PGW . . . F 4 -31.21 42.138 -17.74 1 77.69 ? C27 PGW 404 A 1 HETATM 49 C C28 PGW . . . F 4 -26.213 42.217 -14.993 1 54.27 ? C28 PGW 404 A 1 HETATM 50 C C29 PGW . . . F 4 -24.307 43.017 -13.569 1 49.94 ? C29 PGW 404 A 1 HETATM 51 C C30 PGW . . . F 4 -25.543 43.445 -14.35 1 52.87 ? C30 PGW 404 A 1 # _model_server_stats.io_time_ms 17 _model_server_stats.parse_time_ms 27 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 310 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 51 #