data_6PW4
#
_model_server_result.job_id            ML5KSbqUcBDBbO60F4PcsQ 
_model_server_result.datetime_utc      '2025-07-31 05:58:36' 
_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          6pw4 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":1001}' 
#
_entry.id    6PW4 
#
_exptl.entry_id    6PW4 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              746.566 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '[(2R)-2-octanoyloxy-3-[oxidanyl-[(1R,2R,3S,4R,5R,6S)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phosphoryl]oxy-propyl] octanoate' 
_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          90 
_cell.angle_gamma         90 
_cell.entry_id            6PW4 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6PW4 
_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 
_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
? 2 E N N 
? 2 J N N 
#
_chem_comp.formula           'C25 H49 O19 P3' 
_chem_comp.formula_weight    746.566 
_chem_comp.id                PIO 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '[(2R)-2-octanoyloxy-3-[oxidanyl-[(1R,2R,3S,4R,5R,6S)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phosphoryl]oxy-propyl] octanoate' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     'dioctanoyl l-alpha-phosphatidyl-d-myo-inositol 4,5-diphosphate' 
#
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
C1 O1 PIO sing 671 n n 
C1 C2 PIO sing 672 n n 
C1 C6 PIO sing 673 n n 
C1 H1 PIO sing 674 n n 
O1 P1 PIO sing 675 n n 
P1 O11 PIO sing 676 n n 
O11 H11 PIO sing 677 n n 
P1 O12 PIO doub 678 n n 
P1 O13 PIO sing 679 n n 
C2 O2 PIO sing 680 n n 
C2 C3 PIO sing 681 n n 
C2 H2 PIO sing 682 n n 
O2 HO2 PIO sing 683 n n 
C3 O3 PIO sing 684 n n 
C3 C4 PIO sing 685 n n 
C3 H3 PIO sing 686 n n 
O3 HO3 PIO sing 687 n n 
C4 O4 PIO sing 688 n n 
C4 C5 PIO sing 689 n n 
C4 H4 PIO sing 690 n n 
O4 P4 PIO sing 691 n n 
P4 O41 PIO sing 692 n n 
O41 H41 PIO sing 693 n n 
P4 O42 PIO doub 694 n n 
P4 O43 PIO sing 695 n n 
O43 H43 PIO sing 696 n n 
C5 O5 PIO sing 697 n n 
C5 C6 PIO sing 698 n n 
C5 H5 PIO sing 699 n n 
O5 P5 PIO sing 700 n n 
P5 O51 PIO sing 701 n n 
O51 H51 PIO sing 702 n n 
P5 O52 PIO sing 703 n n 
O52 H52 PIO sing 704 n n 
P5 O53 PIO doub 705 n n 
C6 O6 PIO sing 706 n n 
C6 H6 PIO sing 707 n n 
O6 HO6 PIO sing 708 n n 
O13 C1C PIO sing 709 n n 
C1A O1A PIO doub 710 n n 
C1A C2A PIO sing 711 n n 
C1A O2C PIO sing 712 n n 
C1B O1B PIO doub 713 n n 
C1B C2B PIO sing 714 n n 
C1B O3C PIO sing 715 n n 
C1C C2C PIO sing 716 n n 
C1C H1C PIO sing 717 n n 
C1C H1CA PIO sing 718 n n 
C2A C3A PIO sing 719 n n 
C2A H2A PIO sing 720 n n 
C2A H2AA PIO sing 721 n n 
C2B C3B PIO sing 722 n n 
C2B H2B PIO sing 723 n n 
C2B H2BA PIO sing 724 n n 
C2C O2C PIO sing 725 n n 
C2C C3C PIO sing 726 n n 
C2C H2C PIO sing 727 n n 
C3A C4A PIO sing 728 n n 
C3A H3A PIO sing 729 n n 
C3A H3AA PIO sing 730 n n 
C3B C4B PIO sing 731 n n 
C3B H3B PIO sing 732 n n 
C3B H3BA PIO sing 733 n n 
C3C O3C PIO sing 734 n n 
C3C H3C PIO sing 735 n n 
C3C H3CA PIO sing 736 n n 
C4A C5A PIO sing 737 n n 
C4A H4A PIO sing 738 n n 
C4A H4AA PIO sing 739 n n 
C4B C5B PIO sing 740 n n 
C4B H4B PIO sing 741 n n 
C4B H4BA PIO sing 742 n n 
C5A C6A PIO sing 743 n n 
C5A H5A PIO sing 744 n n 
C5A H5AA PIO sing 745 n n 
C5B C6B PIO sing 746 n n 
C5B H5B PIO sing 747 n n 
C5B H5BA PIO sing 748 n n 
C6A C7A PIO sing 749 n n 
C6A H6A PIO sing 750 n n 
C6A H6AA PIO sing 751 n n 
C6B C7B PIO sing 752 n n 
C6B H6B PIO sing 753 n n 
C6B H6BA PIO sing 754 n n 
C7A C8A PIO sing 755 n n 
C7A H7A PIO sing 756 n n 
C7A H7AA PIO sing 757 n n 
C7B C8B PIO sing 758 n n 
C7B H7B PIO sing 759 n n 
C7B H7BA PIO sing 760 n n 
C8A H8A PIO sing 761 n n 
C8A H8AA PIO sing 762 n n 
C8A H8AB PIO sing 763 n n 
C8B H8B PIO sing 764 n n 
C8B H8BA PIO sing 765 n n 
C8B H8BB PIO sing 766 n n 
#
_atom_sites.entry_id                     6PW4 
_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 CPL A 1 1003 1002 CPL CPL . 
H 5 PIK B 1 1001 1001 PIK PIK . 
I 5 PIK B 1 1002 1003 PIK PIK . 
J 2 PIO C 1 1001 1001 PIO PIO . 
K 3 PCW C 1 1002 1002 PCW PCW . 
L 4 CPL C 1 1003 1002 CPL CPL . 
M 5 PIK D 1 1001 1001 PIK PIK . 
N 5 PIK D 1 1002 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 C C1 PIO . . . E 2 91.024 128.925 105.394 1 59.07 ? C1 PIO 1001 A 1 
HETATM 2 O O1 PIO . . . E 2 89.853 128.771 104.627 1 59.07 ? O1 PIO 1001 A 1 
HETATM 3 P P1 PIO . . . E 2 89.974 128.314 103.044 1 59.07 ? P1 PIO 1001 A 1 
HETATM 4 C C2 PIO . . . E 2 91.284 127.637 106.205 1 59.07 ? C2 PIO 1001 A 1 
HETATM 5 O O2 PIO . . . E 2 90.331 126.672 105.837 1 59.07 ? O2 PIO 1001 A 1 
HETATM 6 C C3 PIO . . . E 2 91.236 127.791 107.737 1 59.07 ? C3 PIO 1001 A 1 
HETATM 7 O O3 PIO . . . E 2 89.894 127.727 108.159 1 59.07 ? O3 PIO 1001 A 1 
HETATM 8 C C4 PIO . . . E 2 91.894 129.078 108.288 1 59.07 ? C4 PIO 1001 A 1 
HETATM 9 O O4 PIO . . . E 2 93.159 128.715 108.777 1 59.07 ? O4 PIO 1001 A 1 
HETATM 10 P P4 PIO . . . E 2 93.308 128.24 110.344 1 59.07 ? P4 PIO 1001 A 1 
HETATM 11 C C5 PIO . . . E 2 92.077 130.216 107.264 1 59.07 ? C5 PIO 1001 A 1 
HETATM 12 O O5 PIO . . . E 2 92.145 131.474 107.897 1 59.07 ? O5 PIO 1001 A 1 
HETATM 13 P P5 PIO . . . E 2 93.555 131.917 108.63 1 59.07 ? P5 PIO 1001 A 1 
HETATM 14 C C6 PIO . . . E 2 90.948 130.215 106.23 1 59.07 ? C6 PIO 1001 A 1 
HETATM 15 O O6 PIO . . . E 2 91.081 131.34 105.402 1 59.07 ? O6 PIO 1001 A 1 
HETATM 16 O O11 PIO . . . E 2 90.785 127.045 102.948 1 59.07 ? O11 PIO 1001 A 1 
HETATM 17 O O12 PIO . . . E 2 88.601 128.049 102.477 1 59.07 ? O12 PIO 1001 A 1 
HETATM 18 O O13 PIO . . . E 2 90.692 129.502 102.16 1 59.07 ? O13 PIO 1001 A 1 
HETATM 19 C C1A PIO . . . E 2 91.529 130.733 99.368 1 59.07 ? C1A PIO 1001 A 1 
HETATM 20 O O1A PIO . . . E 2 91.687 129.67 98.875 1 59.07 ? O1A PIO 1001 A 1 
HETATM 21 C C1B PIO . . . E 2 91.024 134.686 102.409 1 59.07 ? C1B PIO 1001 A 1 
HETATM 22 O O1B PIO . . . E 2 91.765 135.013 101.546 1 59.07 ? O1B PIO 1001 A 1 
HETATM 23 C C1C PIO . . . E 2 90.238 130.816 102.275 1 59.07 ? C1C PIO 1001 A 1 
HETATM 24 C C2A PIO . . . E 2 90.821 131.827 98.58 1 59.07 ? C2A PIO 1001 A 1 
HETATM 25 C C2B PIO . . . E 2 89.832 135.574 102.755 1 59.07 ? C2B PIO 1001 A 1 
HETATM 26 C C2C PIO . . . E 2 91.172 131.735 101.493 1 59.07 ? C2C PIO 1001 A 1 
HETATM 27 O O2C PIO . . . E 2 92.002 130.976 100.661 1 59.07 ? O2C PIO 1001 A 1 
HETATM 28 C C3A PIO . . . E 2 91.863 132.663 97.854 1 59.07 ? C3A PIO 1001 A 1 
HETATM 29 C C3B PIO . . . E 2 89.315 136.277 101.504 1 59.07 ? C3B PIO 1001 A 1 
HETATM 30 C C3C PIO . . . E 2 92.031 132.557 102.454 1 59.07 ? C3C PIO 1001 A 1 
HETATM 31 O O3C PIO . . . E 2 91.23 133.492 103.111 1 59.07 ? O3C PIO 1001 A 1 
HETATM 32 O O41 PIO . . . E 2 92.399 129.087 111.199 1 59.07 ? O41 PIO 1001 A 1 
HETATM 33 O O42 PIO . . . E 2 94.741 128.418 110.777 1 59.07 ? O42 PIO 1001 A 1 
HETATM 34 O O43 PIO . . . E 2 92.923 126.789 110.483 1 59.07 ? O43 PIO 1001 A 1 
HETATM 35 C C4A PIO . . . E 2 91.171 133.873 97.243 1 59.07 ? C4A PIO 1001 A 1 
HETATM 36 C C4B PIO . . . E 2 87.813 136.519 101.637 1 59.07 ? C4B PIO 1001 A 1 
HETATM 37 O O51 PIO . . . E 2 94.69 131.113 108.046 1 59.07 ? O51 PIO 1001 A 1 
HETATM 38 O O52 PIO . . . E 2 93.843 133.388 108.447 1 59.07 ? O52 PIO 1001 A 1 
HETATM 39 O O53 PIO . . . E 2 93.441 131.617 110.102 1 59.07 ? O53 PIO 1001 A 1 
HETATM 40 C C5A PIO . . . E 2 91.765 135.141 97.844 1 59.07 ? C5A PIO 1001 A 1 
HETATM 41 C C5B PIO . . . E 2 87.194 136.739 100.256 1 59.07 ? C5B PIO 1001 A 1 
HETATM 42 C C6A PIO . . . E 2 90.96 136.34 97.358 1 59.07 ? C6A PIO 1001 A 1 
HETATM 43 C C6B PIO . . . E 2 86.013 135.795 100.042 1 59.07 ? C6B PIO 1001 A 1 
HETATM 44 C C7A PIO . . . E 2 91.176 136.524 95.861 1 59.07 ? C7A PIO 1001 A 1 
HETATM 45 C C7B PIO . . . E 2 86.528 134.385 99.765 1 59.07 ? C7B PIO 1001 A 1 
HETATM 46 C C8A PIO . . . E 2 92.626 136.923 95.611 1 59.07 ? C8A PIO 1001 A 1 
HETATM 47 C C8B PIO . . . E 2 86.918 134.257 98.295 1 59.07 ? C8B PIO 1001 A 1 
#
_model_server_stats.io_time_ms              13 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    27 
_model_server_stats.query_time_ms           335 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           47 
#