data_6PW5 # _model_server_result.job_id Nc0J1lmwop6YAr5sFK791g _model_server_result.datetime_utc '2025-08-31 14:55:34' _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":"J","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 . . . J 4 119.984 84.528 84.117 1 57.46 ? P1 PIK 1003 B 1 HETATM 2 O O11 PIK . . . J 4 121.294 84.881 83.457 1 57.46 ? O11 PIK 1003 B 1 HETATM 3 O O12 PIK . . . J 4 119.397 85.78 84.728 1 57.46 ? O12 PIK 1003 B 1 HETATM 4 O O13 PIK . . . J 4 118.954 84.021 82.935 1 57.46 ? O13 PIK 1003 B 1 HETATM 5 C CBG PIK . . . J 4 119.531 84.44 63.631 1 57.46 ? CBG PIK 1003 B 1 HETATM 6 C CBF PIK . . . J 4 118.452 83.582 64.28 1 57.46 ? CBF PIK 1003 B 1 HETATM 7 C CBE PIK . . . J 4 118.732 83.427 65.773 1 57.46 ? CBE PIK 1003 B 1 HETATM 8 C CBD PIK . . . J 4 118.753 84.792 66.46 1 57.46 ? CBD PIK 1003 B 1 HETATM 9 C CBC PIK . . . J 4 118.084 84.684 67.827 1 57.46 ? CBC PIK 1003 B 1 HETATM 10 C CBB PIK . . . J 4 118.901 85.471 68.848 1 57.46 ? CBB PIK 1003 B 1 HETATM 11 C CBA PIK . . . J 4 119.053 84.647 70.124 1 57.46 ? CBA PIK 1003 B 1 HETATM 12 C CB9 PIK . . . J 4 119.818 85.447 71.176 1 57.46 ? CB9 PIK 1003 B 1 HETATM 13 C CB8 PIK . . . J 4 118.983 85.5 72.453 1 57.46 ? CB8 PIK 1003 B 1 HETATM 14 C CB7 PIK . . . J 4 119.841 85.851 73.666 1 57.46 ? CB7 PIK 1003 B 1 HETATM 15 C CB6 PIK . . . J 4 119.41 87.176 74.296 1 57.46 ? CB6 PIK 1003 B 1 HETATM 16 C CB5 PIK . . . J 4 118.126 86.977 75.094 1 57.46 ? CB5 PIK 1003 B 1 HETATM 17 C CB4 PIK . . . J 4 117.991 88.077 76.146 1 57.46 ? CB4 PIK 1003 B 1 HETATM 18 C CB3 PIK . . . J 4 117.717 87.505 77.538 1 57.46 ? CB3 PIK 1003 B 1 HETATM 19 C CB2 PIK . . . J 4 118.53 86.242 77.819 1 57.46 ? CB2 PIK 1003 B 1 HETATM 20 C CB1 PIK . . . J 4 118.994 86.23 79.269 1 57.46 ? CB1 PIK 1003 B 1 HETATM 21 O OB2 PIK . . . J 4 120.092 86.572 79.537 1 57.46 ? OB2 PIK 1003 B 1 HETATM 22 O OB1 PIK . . . J 4 118.116 85.82 80.275 1 57.46 ? OB1 PIK 1003 B 1 HETATM 23 C C8 PIK . . . J 4 118.57 86.016 81.581 1 57.46 ? C8 PIK 1003 B 1 HETATM 24 C C7 PIK . . . J 4 117.981 84.91 82.454 1 57.46 ? C7 PIK 1003 B 1 HETATM 25 C C1 PIK . . . J 4 119.49 83.101 86.361 1 57.46 ? C1 PIK 1003 B 1 HETATM 26 C C2 PIK . . . J 4 119.731 84.157 87.458 1 57.46 ? C2 PIK 1003 B 1 HETATM 27 C C3 PIK . . . J 4 118.867 83.899 88.7 1 57.46 ? C3 PIK 1003 B 1 HETATM 28 C C4 PIK . . . J 4 119.191 82.507 89.263 1 57.46 ? C4 PIK 1003 B 1 HETATM 29 C C5 PIK . . . J 4 118.849 81.445 88.202 1 57.46 ? C5 PIK 1003 B 1 HETATM 30 C C6 PIK . . . J 4 119.663 81.67 86.905 1 57.46 ? C6 PIK 1003 B 1 HETATM 31 O O1 PIK . . . J 4 120.307 83.336 85.232 1 57.46 ? O1 PIK 1003 B 1 HETATM 32 O O2 PIK . . . J 4 121.089 84.158 87.803 1 57.46 ? O2 PIK 1003 B 1 HETATM 33 O O3 PIK . . . J 4 119.098 84.924 89.637 1 57.46 ? O3 PIK 1003 B 1 HETATM 34 O O4 PIK . . . J 4 118.513 82.272 90.472 1 57.46 ? O4 PIK 1003 B 1 HETATM 35 O O5 PIK . . . J 4 119.086 80.164 88.725 1 57.46 ? O5 PIK 1003 B 1 HETATM 36 O O6 PIK . . . J 4 119.239 80.762 85.92 1 57.46 ? O6 PIK 1003 B 1 HETATM 37 P P4 PIK . . . J 4 119.313 82.648 91.866 1 57.46 ? P4 PIK 1003 B 1 HETATM 38 O O41 PIK . . . J 4 120.799 82.531 91.639 1 57.46 ? O41 PIK 1003 B 1 HETATM 39 O O42 PIK . . . J 4 118.978 84.075 92.224 1 57.46 ? O42 PIK 1003 B 1 HETATM 40 O O43 PIK . . . J 4 118.919 81.722 92.99 1 57.46 ? O43 PIK 1003 B 1 HETATM 41 P P5 PIK . . . J 4 117.775 79.301 89.227 1 57.46 ? P5 PIK 1003 B 1 HETATM 42 O O51 PIK . . . J 4 117.591 78.081 88.356 1 57.46 ? O51 PIK 1003 B 1 HETATM 43 O O52 PIK . . . J 4 117.953 78.861 90.661 1 57.46 ? O52 PIK 1003 B 1 HETATM 44 O O53 PIK . . . J 4 116.563 80.193 89.126 1 57.46 ? O53 PIK 1003 B 1 HETATM 45 C C9 PIK . . . J 4 118.099 87.377 82.103 1 57.46 ? C9 PIK 1003 B 1 HETATM 46 O OA1 PIK . . . J 4 118.806 88.423 81.489 1 57.46 ? OA1 PIK 1003 B 1 HETATM 47 C CA1 PIK . . . J 4 119.226 89.451 82.341 1 57.46 ? CA1 PIK 1003 B 1 HETATM 48 O OA2 PIK . . . J 4 119.881 89.194 83.285 1 57.46 ? OA2 PIK 1003 B 1 HETATM 49 C CA2 PIK . . . J 4 118.865 90.909 82.059 1 57.46 ? CA2 PIK 1003 B 1 HETATM 50 C CA3 PIK . . . J 4 117.865 90.989 80.914 1 57.46 ? CA3 PIK 1003 B 1 HETATM 51 C CA4 PIK . . . J 4 116.93 92.175 81.122 1 57.46 ? CA4 PIK 1003 B 1 HETATM 52 C CA5 PIK . . . J 4 117.032 93.144 79.95 1 57.46 ? CA5 PIK 1003 B 1 HETATM 53 C CA6 PIK . . . J 4 116.795 92.408 78.638 1 57.46 ? CA6 PIK 1003 B 1 HETATM 54 C CA7 PIK . . . J 4 115.919 93.277 77.75 1 57.46 ? CA7 PIK 1003 B 1 HETATM 55 C CA8 PIK . . . J 4 114.655 92.507 77.384 1 57.46 ? CA8 PIK 1003 B 1 HETATM 56 C CA9 PIK . . . J 4 115.026 91.301 76.531 1 57.46 ? CA9 PIK 1003 B 1 HETATM 57 C CAA PIK . . . J 4 113.778 90.485 76.23 1 57.46 ? CAA PIK 1003 B 1 HETATM 58 C CAB PIK . . . J 4 114.168 89.016 76.125 1 57.46 ? CAB PIK 1003 B 1 HETATM 59 C CAC PIK . . . J 4 112.927 88.187 75.832 1 57.46 ? CAC PIK 1003 B 1 HETATM 60 C CAD PIK . . . J 4 113.258 86.715 76.038 1 57.46 ? CAD PIK 1003 B 1 HETATM 61 C CAE PIK . . . J 4 112.429 85.868 75.08 1 57.46 ? CAE PIK 1003 B 1 HETATM 62 C CAF PIK . . . J 4 112.976 84.444 75.06 1 57.46 ? CAF PIK 1003 B 1 HETATM 63 C CAG PIK . . . J 4 112.202 83.611 74.042 1 57.46 ? CAG PIK 1003 B 1 # _model_server_stats.io_time_ms 29 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 52 _model_server_stats.query_time_ms 520 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 63 #