data_6PW5 # _model_server_result.job_id tI77h18Wc0v4ZeP6YcT0OA _model_server_result.datetime_utc '2025-08-31 14:55:38' _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 6pw5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"P","auth_seq_id":1003}' # _entry.id 6PW5 # _exptl.entry_id 6PW5 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 970.992 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(2S)-3-{[(R)-hydroxy{[(1R,2R,3S,4R,5R,6S)-2,3,6-trihydroxy-4,5-bis(phosphonooxy)cyclohexyl]oxy}phosphoryl]oxy}propane-1,2-diyl dihexadecanoate' _entity.pdbx_number_of_molecules 4 _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 6PW5 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 6PW5 _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 _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 G N N ? 4 J N N ? 4 M 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 668 A CYS 668 1_555 A SG CYS 678 A CYS 678 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf2 B SG CYS 668 B CYS 668 1_555 B SG CYS 678 B CYS 678 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf3 C SG CYS 668 C CYS 668 1_555 C SG CYS 678 C CYS 678 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf4 D SG CYS 668 D CYS 668 1_555 D SG CYS 678 D CYS 678 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? # _chem_comp.formula 'C41 H81 O19 P3' _chem_comp.formula_weight 970.992 _chem_comp.id PIK _chem_comp.mon_nstd_flag . _chem_comp.name '(2S)-3-{[(R)-hydroxy{[(1R,2R,3S,4R,5R,6S)-2,3,6-trihydroxy-4,5-bis(phosphonooxy)cyclohexyl]oxy}phosphoryl]oxy}propane-1,2-diyl dihexadecanoate' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'PI(4,5)P2 dipalmitoyl (16:0,16:0)' # 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 CA2 CA3 PIK sing 396 n n CA2 CA1 PIK sing 397 n n OA1 CA1 PIK sing 398 n n OA1 C9 PIK sing 399 n n CA3 CA4 PIK sing 400 n n O3 C3 PIK sing 401 n n OB2 CB1 PIK doub 402 n n CA1 OA2 PIK doub 403 n n O41 P4 PIK doub 404 n n C9 C8 PIK sing 405 n n OB1 CB1 PIK sing 406 n n OB1 C8 PIK sing 407 n n CB1 CB2 PIK sing 408 n n CA4 CA5 PIK sing 409 n n CA5 CA6 PIK sing 410 n n C3 C2 PIK sing 411 n n C3 C4 PIK sing 412 n n C8 C7 PIK sing 413 n n P4 O42 PIK sing 414 n n P4 O4 PIK sing 415 n n P4 O43 PIK sing 416 n n O2 C2 PIK sing 417 n n C2 C1 PIK sing 418 n n CB3 CB2 PIK sing 419 n n CB3 CB4 PIK sing 420 n n O4 C4 PIK sing 421 n n C7 O13 PIK sing 422 n n O13 P1 PIK sing 423 n n C4 C5 PIK sing 424 n n CA6 CA7 PIK sing 425 n n CB5 CB4 PIK sing 426 n n CB5 CB6 PIK sing 427 n n CA7 CA8 PIK sing 428 n n C1 O1 PIK sing 429 n n C1 C6 PIK sing 430 n n O11 P1 PIK doub 431 n n O1 P1 PIK sing 432 n n P1 O12 PIK sing 433 n n CB6 CB7 PIK sing 434 n n C5 C6 PIK sing 435 n n C5 O5 PIK sing 436 n n CA9 CA8 PIK sing 437 n n CA9 CAA PIK sing 438 n n C6 O6 PIK sing 439 n n O5 P5 PIK sing 440 n n CB7 CB8 PIK sing 441 n n CAB CAA PIK sing 442 n n CAB CAC PIK sing 443 n n O53 P5 PIK doub 444 n n P5 O52 PIK sing 445 n n P5 O51 PIK sing 446 n n CB8 CB9 PIK sing 447 n n CAC CAD PIK sing 448 n n CAD CAE PIK sing 449 n n CB9 CBA PIK sing 450 n n CBC CBB PIK sing 451 n n CBC CBD PIK sing 452 n n CBB CBA PIK sing 453 n n CBD CBE PIK sing 454 n n CAE CAF PIK sing 455 n n CBE CBF PIK sing 456 n n CAF CAG PIK sing 457 n n CBF CBG PIK sing 458 n n O12 H1 PIK sing 459 n n CBG H2 PIK sing 460 n n CBG H3 PIK sing 461 n n CBG H4 PIK sing 462 n n CBF H5 PIK sing 463 n n CBF H6 PIK sing 464 n n CBE H7 PIK sing 465 n n CBE H8 PIK sing 466 n n CBD H9 PIK sing 467 n n CBD H10 PIK sing 468 n n CBC H11 PIK sing 469 n n CBC H12 PIK sing 470 n n CBB H13 PIK sing 471 n n CBB H14 PIK sing 472 n n CBA H15 PIK sing 473 n n CBA H16 PIK sing 474 n n CB9 H17 PIK sing 475 n n CB9 H18 PIK sing 476 n n CB8 H19 PIK sing 477 n n CB8 H20 PIK sing 478 n n CB7 H21 PIK sing 479 n n CB7 H22 PIK sing 480 n n CB6 H23 PIK sing 481 n n CB6 H24 PIK sing 482 n n CB5 H25 PIK sing 483 n n CB5 H26 PIK sing 484 n n CB4 H27 PIK sing 485 n n CB4 H28 PIK sing 486 n n CB3 H29 PIK sing 487 n n CB3 H30 PIK sing 488 n n CB2 H31 PIK sing 489 n n CB2 H32 PIK sing 490 n n C8 H33 PIK sing 491 n n C7 H34 PIK sing 492 n n C7 H35 PIK sing 493 n n C1 H36 PIK sing 494 n n C2 H37 PIK sing 495 n n C3 H38 PIK sing 496 n n C4 H39 PIK sing 497 n n C5 H40 PIK sing 498 n n C6 H41 PIK sing 499 n n O2 H42 PIK sing 500 n n O3 H43 PIK sing 501 n n O6 H44 PIK sing 502 n n O42 H45 PIK sing 503 n n O43 H46 PIK sing 504 n n O51 H47 PIK sing 505 n n O52 H48 PIK sing 506 n n C9 H49 PIK sing 507 n n C9 H50 PIK sing 508 n n CA2 H51 PIK sing 509 n n CA2 H52 PIK sing 510 n n CA3 H53 PIK sing 511 n n CA3 H54 PIK sing 512 n n CA4 H55 PIK sing 513 n n CA4 H56 PIK sing 514 n n CA5 H57 PIK sing 515 n n CA5 H58 PIK sing 516 n n CA6 H59 PIK sing 517 n n CA6 H60 PIK sing 518 n n CA7 H61 PIK sing 519 n n CA7 H62 PIK sing 520 n n CA8 H63 PIK sing 521 n n CA8 H64 PIK sing 522 n n CA9 H65 PIK sing 523 n n CA9 H66 PIK sing 524 n n CAA H67 PIK sing 525 n n CAA H68 PIK sing 526 n n CAB H69 PIK sing 527 n n CAB H70 PIK sing 528 n n CAC H71 PIK sing 529 n n CAC H72 PIK sing 530 n n CAD H73 PIK sing 531 n n CAD H74 PIK sing 532 n n CAE H75 PIK sing 533 n n CAE H76 PIK sing 534 n n CAF H77 PIK sing 535 n n CAF H78 PIK sing 536 n n CAG H79 PIK sing 537 n n CAG H80 PIK sing 538 n n CAG H81 PIK sing 539 n n # _atom_sites.entry_id 6PW5 _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 E 2 PIO A 1 1001 1001 PIO PIO . F 3 PCW A 1 1002 1002 PCW PCW . G 4 PIK A 1 1003 1003 PIK PIK . H 2 PIO B 1 1001 1001 PIO PIO . I 3 PCW B 1 1002 1002 PCW PCW . J 4 PIK B 1 1003 1003 PIK PIK . K 2 PIO C 1 1001 1001 PIO PIO . L 3 PCW C 1 1002 1002 PCW PCW . M 4 PIK C 1 1003 1003 PIK PIK . N 2 PIO D 1 1001 1001 PIO PIO . O 3 PCW D 1 1002 1002 PCW PCW . P 4 PIK D 1 1003 1003 PIK PIK . # 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 P P1 PIK . . . P 4 70.017 105.47 84.118 1 57.84 ? P1 PIK 1003 D 1 HETATM 2 O O11 PIK . . . P 4 68.707 105.115 83.458 1 57.84 ? O11 PIK 1003 D 1 HETATM 3 O O12 PIK . . . P 4 70.606 104.218 84.73 1 57.84 ? O12 PIK 1003 D 1 HETATM 4 O O13 PIK . . . P 4 71.047 105.977 82.936 1 57.84 ? O13 PIK 1003 D 1 HETATM 5 C CBG PIK . . . P 4 70.468 105.562 63.632 1 57.84 ? CBG PIK 1003 D 1 HETATM 6 C CBF PIK . . . P 4 71.548 106.419 64.281 1 57.84 ? CBF PIK 1003 D 1 HETATM 7 C CBE PIK . . . P 4 71.268 106.573 65.774 1 57.84 ? CBE PIK 1003 D 1 HETATM 8 C CBD PIK . . . P 4 71.247 105.208 66.461 1 57.84 ? CBD PIK 1003 D 1 HETATM 9 C CBC PIK . . . P 4 71.916 105.316 67.827 1 57.84 ? CBC PIK 1003 D 1 HETATM 10 C CBB PIK . . . P 4 71.099 104.529 68.848 1 57.84 ? CBB PIK 1003 D 1 HETATM 11 C CBA PIK . . . P 4 70.947 105.353 70.125 1 57.84 ? CBA PIK 1003 D 1 HETATM 12 C CB9 PIK . . . P 4 70.182 104.553 71.177 1 57.84 ? CB9 PIK 1003 D 1 HETATM 13 C CB8 PIK . . . P 4 71.016 104.5 72.453 1 57.84 ? CB8 PIK 1003 D 1 HETATM 14 C CB7 PIK . . . P 4 70.159 104.148 73.667 1 57.84 ? CB7 PIK 1003 D 1 HETATM 15 C CB6 PIK . . . P 4 70.59 102.824 74.297 1 57.84 ? CB6 PIK 1003 D 1 HETATM 16 C CB5 PIK . . . P 4 71.874 103.024 75.095 1 57.84 ? CB5 PIK 1003 D 1 HETATM 17 C CB4 PIK . . . P 4 72.009 101.923 76.147 1 57.84 ? CB4 PIK 1003 D 1 HETATM 18 C CB3 PIK . . . P 4 72.283 102.495 77.539 1 57.84 ? CB3 PIK 1003 D 1 HETATM 19 C CB2 PIK . . . P 4 71.469 103.758 77.82 1 57.84 ? CB2 PIK 1003 D 1 HETATM 20 C CB1 PIK . . . P 4 71.006 103.77 79.27 1 57.84 ? CB1 PIK 1003 D 1 HETATM 21 O OB2 PIK . . . P 4 69.908 103.428 79.539 1 57.84 ? OB2 PIK 1003 D 1 HETATM 22 O OB1 PIK . . . P 4 71.884 104.18 80.276 1 57.84 ? OB1 PIK 1003 D 1 HETATM 23 C C8 PIK . . . P 4 71.431 103.983 81.582 1 57.84 ? C8 PIK 1003 D 1 HETATM 24 C C7 PIK . . . P 4 72.02 105.087 82.456 1 57.84 ? C7 PIK 1003 D 1 HETATM 25 C C1 PIK . . . P 4 70.511 106.897 86.362 1 57.84 ? C1 PIK 1003 D 1 HETATM 26 C C2 PIK . . . P 4 70.268 105.841 87.459 1 57.84 ? C2 PIK 1003 D 1 HETATM 27 C C3 PIK . . . P 4 71.132 106.099 88.701 1 57.84 ? C3 PIK 1003 D 1 HETATM 28 C C4 PIK . . . P 4 70.809 107.491 89.264 1 57.84 ? C4 PIK 1003 D 1 HETATM 29 C C5 PIK . . . P 4 71.152 108.553 88.202 1 57.84 ? C5 PIK 1003 D 1 HETATM 30 C C6 PIK . . . P 4 70.338 108.328 86.905 1 57.84 ? C6 PIK 1003 D 1 HETATM 31 O O1 PIK . . . P 4 69.694 106.661 85.233 1 57.84 ? O1 PIK 1003 D 1 HETATM 32 O O2 PIK . . . P 4 68.91 105.843 87.804 1 57.84 ? O2 PIK 1003 D 1 HETATM 33 O O3 PIK . . . P 4 70.899 105.075 89.638 1 57.84 ? O3 PIK 1003 D 1 HETATM 34 O O4 PIK . . . P 4 71.487 107.726 90.473 1 57.84 ? O4 PIK 1003 D 1 HETATM 35 O O5 PIK . . . P 4 70.914 109.835 88.724 1 57.84 ? O5 PIK 1003 D 1 HETATM 36 O O6 PIK . . . P 4 70.763 109.235 85.92 1 57.84 ? O6 PIK 1003 D 1 HETATM 37 P P4 PIK . . . P 4 70.687 107.351 91.866 1 57.84 ? P4 PIK 1003 D 1 HETATM 38 O O41 PIK . . . P 4 69.201 107.469 91.639 1 57.84 ? O41 PIK 1003 D 1 HETATM 39 O O42 PIK . . . P 4 71.021 105.924 92.225 1 57.84 ? O42 PIK 1003 D 1 HETATM 40 O O43 PIK . . . P 4 71.081 108.277 92.991 1 57.84 ? O43 PIK 1003 D 1 HETATM 41 P P5 PIK . . . P 4 72.225 110.698 89.227 1 57.84 ? P5 PIK 1003 D 1 HETATM 42 O O51 PIK . . . P 4 72.408 111.917 88.356 1 57.84 ? O51 PIK 1003 D 1 HETATM 43 O O52 PIK . . . P 4 72.047 111.138 90.661 1 57.84 ? O52 PIK 1003 D 1 HETATM 44 O O53 PIK . . . P 4 73.437 109.806 89.126 1 57.84 ? O53 PIK 1003 D 1 HETATM 45 C C9 PIK . . . P 4 71.903 102.621 82.103 1 57.84 ? C9 PIK 1003 D 1 HETATM 46 O OA1 PIK . . . P 4 71.194 101.576 81.489 1 57.84 ? OA1 PIK 1003 D 1 HETATM 47 C CA1 PIK . . . P 4 70.774 100.548 82.341 1 57.84 ? CA1 PIK 1003 D 1 HETATM 48 O OA2 PIK . . . P 4 70.118 100.805 83.284 1 57.84 ? OA2 PIK 1003 D 1 HETATM 49 C CA2 PIK . . . P 4 71.135 99.09 82.061 1 57.84 ? CA2 PIK 1003 D 1 HETATM 50 C CA3 PIK . . . P 4 72.134 99.01 80.914 1 57.84 ? CA3 PIK 1003 D 1 HETATM 51 C CA4 PIK . . . P 4 73.07 97.825 81.122 1 57.84 ? CA4 PIK 1003 D 1 HETATM 52 C CA5 PIK . . . P 4 72.968 96.856 79.95 1 57.84 ? CA5 PIK 1003 D 1 HETATM 53 C CA6 PIK . . . P 4 73.205 97.592 78.638 1 57.84 ? CA6 PIK 1003 D 1 HETATM 54 C CA7 PIK . . . P 4 74.08 96.723 77.75 1 57.84 ? CA7 PIK 1003 D 1 HETATM 55 C CA8 PIK . . . P 4 75.345 97.493 77.384 1 57.84 ? CA8 PIK 1003 D 1 HETATM 56 C CA9 PIK . . . P 4 74.974 98.698 76.531 1 57.84 ? CA9 PIK 1003 D 1 HETATM 57 C CAA PIK . . . P 4 76.223 99.515 76.231 1 57.84 ? CAA PIK 1003 D 1 HETATM 58 C CAB PIK . . . P 4 75.832 100.984 76.125 1 57.84 ? CAB PIK 1003 D 1 HETATM 59 C CAC PIK . . . P 4 77.073 101.813 75.832 1 57.84 ? CAC PIK 1003 D 1 HETATM 60 C CAD PIK . . . P 4 76.742 103.285 76.038 1 57.84 ? CAD PIK 1003 D 1 HETATM 61 C CAE PIK . . . P 4 77.571 104.132 75.081 1 57.84 ? CAE PIK 1003 D 1 HETATM 62 C CAF PIK . . . P 4 77.024 105.556 75.06 1 57.84 ? CAF PIK 1003 D 1 HETATM 63 C CAG PIK . . . P 4 77.799 106.389 74.041 1 57.84 ? CAG PIK 1003 D 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 19 _model_server_stats.query_time_ms 362 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 63 #