data_7DEI
#
_model_server_result.job_id            r2_mLLc63khqeIPWEPmORw 
_model_server_result.datetime_utc      '2024-11-14 21:02:08' 
_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          7dei 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":901}' 
#
_entry.id    7DEI 
#
_exptl.entry_id    7DEI 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              666.587 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '(2R)-3-{[(S)-hydroxy{[(1R,2R,3R,4R,5S,6R)-2,3,5,6-tetrahydroxy-4-(phosphonooxy)cyclohexyl]oxy}phosphoryl]oxy}propane-1,2-diyl dioctanoate' 
_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         120 
_cell.entry_id            7DEI 
_cell.length_a            95.801 
_cell.length_b            95.801 
_cell.length_c            190.456 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7DEI 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        152 
_symmetry.space_group_name_Hall    'P 31 2"' 
_symmetry.space_group_name_H-M     'P 31 2 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,E 1 1 
B,D,F 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
? 2 C N N 
? 2 D N N 
#
_chem_comp.formula           'C25 H48 O16 P2' 
_chem_comp.formula_weight    666.587 
_chem_comp.id                PIF 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '(2R)-3-{[(S)-hydroxy{[(1R,2R,3R,4R,5S,6R)-2,3,5,6-tetrahydroxy-4-(phosphonooxy)cyclohexyl]oxy}phosphoryl]oxy}propane-1,2-diyl dioctanoate' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     'L-ALPHA-D-MYOPHOSPHATIDYLINOSITOL 4-PHOSPHATE;D(+)SN1,2DI-O-OCTANOYLGLYCERYL' 
#
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
C6 C1 PIF sing 260 n n 
C2 C1 PIF sing 261 n n 
C1 O1 PIF sing 262 n n 
C1 H1 PIF sing 263 n n 
O1 P1 PIF sing 264 n n 
O13 P1 PIF sing 265 n n 
P1 O11 PIF doub 266 n n 
P1 O12 PIF sing 267 n n 
O2 C2 PIF sing 268 n n 
C3 C2 PIF sing 269 n n 
C2 H2 PIF sing 270 n n 
O2 HO2 PIF sing 271 n n 
C4 C3 PIF sing 272 n n 
O3 C3 PIF sing 273 n n 
C3 H3 PIF sing 274 n n 
O3 HO3 PIF sing 275 n n 
O4 C4 PIF sing 276 n n 
C4 C5 PIF sing 277 n n 
C4 H4 PIF sing 278 n n 
P4 O4 PIF sing 279 n n 
O43 P4 PIF doub 280 n n 
P4 O41 PIF sing 281 n n 
P4 O42 PIF sing 282 n n 
O5 C5 PIF sing 283 n n 
C5 C6 PIF sing 284 n n 
C5 H5 PIF sing 285 n n 
O5 HO5 PIF sing 286 n n 
C6 O6 PIF sing 287 n n 
C6 H6 PIF sing 288 n n 
O6 HO6 PIF sing 289 n n 
O13 C7 PIF sing 290 n n 
C8 C7 PIF sing 291 n n 
C7 H7 PIF sing 292 n n 
C7 H7A PIF sing 293 n n 
O14 C8 PIF sing 294 n n 
C8 C9 PIF sing 295 n n 
C8 H8 PIF sing 296 n n 
C9 O15 PIF sing 297 n n 
C9 H9 PIF sing 298 n n 
C9 H9A PIF sing 299 n n 
O16 C10 PIF doub 300 n n 
O15 C10 PIF sing 301 n n 
C10 C11 PIF sing 302 n n 
C11 C12 PIF sing 303 n n 
C11 H11 PIF sing 304 n n 
C11 H11A PIF sing 305 n n 
C12 C13 PIF sing 306 n n 
C12 H12 PIF sing 307 n n 
C12 H12A PIF sing 308 n n 
O12 HO12 PIF sing 309 n n 
C14 C13 PIF sing 310 n n 
C13 H13 PIF sing 311 n n 
C13 H13A PIF sing 312 n n 
C14 C15 PIF sing 313 n n 
C14 H14 PIF sing 314 n n 
C14 H14A PIF sing 315 n n 
C18 O14 PIF sing 316 n n 
C16 C15 PIF sing 317 n n 
C15 H15 PIF sing 318 n n 
C15 H15A PIF sing 319 n n 
C16 C17 PIF sing 320 n n 
C16 H16 PIF sing 321 n n 
C16 H16A PIF sing 322 n n 
C17 H17 PIF sing 323 n n 
C17 H17A PIF sing 324 n n 
C17 H17B PIF sing 325 n n 
C18 O17 PIF doub 326 n n 
C19 C18 PIF sing 327 n n 
C19 C20 PIF sing 328 n n 
C19 H19 PIF sing 329 n n 
C19 H19A PIF sing 330 n n 
C20 C21 PIF sing 331 n n 
C20 H20 PIF sing 332 n n 
C20 H20A PIF sing 333 n n 
C22 C21 PIF sing 334 n n 
C21 H21 PIF sing 335 n n 
C21 H21A PIF sing 336 n n 
C22 C23 PIF sing 337 n n 
C22 H22 PIF sing 338 n n 
C22 H22A PIF sing 339 n n 
C24 C23 PIF sing 340 n n 
C23 H23 PIF sing 341 n n 
C23 H23A PIF sing 342 n n 
C24 C25 PIF sing 343 n n 
C24 H24 PIF sing 344 n n 
C24 H24A PIF sing 345 n n 
C25 H25 PIF sing 346 n n 
C25 H25A PIF sing 347 n n 
C25 H25B PIF sing 348 n n 
O41 HO41 PIF sing 349 n n 
O42 HO42 PIF sing 350 n n 
#
_atom_sites.entry_id                     7DEI 
_atom_sites.fract_transf_matrix[1][1]    0.010438 
_atom_sites.fract_transf_matrix[1][2]    0.006027 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.012053 
_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]    0.005251 
_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 PIF A 1 901 902 PIF PIF . 
D 2 PIF B 1 901 902 PIF PIF . 
E 3 HOH A 1 1001 46 HOH HOH . 
E 3 HOH A 2 1002 55 HOH HOH . 
E 3 HOH A 3 1003 36 HOH HOH . 
E 3 HOH A 4 1004 38 HOH HOH . 
E 3 HOH A 5 1005 47 HOH HOH . 
E 3 HOH A 6 1006 4 HOH HOH . 
E 3 HOH A 7 1007 19 HOH HOH . 
E 3 HOH A 8 1008 40 HOH HOH . 
E 3 HOH A 9 1009 45 HOH HOH . 
E 3 HOH A 10 1010 7 HOH HOH . 
E 3 HOH A 11 1011 33 HOH HOH . 
E 3 HOH A 12 1012 24 HOH HOH . 
E 3 HOH A 13 1013 2 HOH HOH . 
E 3 HOH A 14 1014 9 HOH HOH . 
E 3 HOH A 15 1015 25 HOH HOH . 
E 3 HOH A 16 1016 32 HOH HOH . 
E 3 HOH A 17 1017 51 HOH HOH . 
E 3 HOH A 18 1018 28 HOH HOH . 
E 3 HOH A 19 1019 42 HOH HOH . 
F 3 HOH B 1 1001 29 HOH HOH . 
F 3 HOH B 2 1002 20 HOH HOH . 
F 3 HOH B 3 1003 26 HOH HOH . 
F 3 HOH B 4 1004 3 HOH HOH . 
F 3 HOH B 5 1005 43 HOH HOH . 
F 3 HOH B 6 1006 13 HOH HOH . 
F 3 HOH B 7 1007 44 HOH HOH . 
F 3 HOH B 8 1008 27 HOH HOH . 
F 3 HOH B 9 1009 6 HOH HOH . 
F 3 HOH B 10 1010 18 HOH HOH . 
F 3 HOH B 11 1011 8 HOH HOH . 
F 3 HOH B 12 1012 10 HOH HOH . 
F 3 HOH B 13 1013 17 HOH HOH . 
F 3 HOH B 14 1014 50 HOH HOH . 
F 3 HOH B 15 1015 48 HOH HOH . 
F 3 HOH B 16 1016 14 HOH HOH . 
F 3 HOH B 17 1017 15 HOH HOH . 
F 3 HOH B 18 1018 39 HOH HOH . 
F 3 HOH B 19 1019 34 HOH HOH . 
F 3 HOH B 20 1020 5 HOH HOH . 
F 3 HOH B 21 1021 54 HOH HOH . 
F 3 HOH B 22 1022 16 HOH HOH . 
F 3 HOH B 23 1023 37 HOH HOH . 
F 3 HOH B 24 1024 35 HOH HOH . 
F 3 HOH B 25 1025 52 HOH HOH . 
F 3 HOH B 26 1026 11 HOH HOH . 
F 3 HOH B 27 1027 1 HOH HOH . 
F 3 HOH B 28 1028 41 HOH HOH . 
F 3 HOH B 29 1029 12 HOH HOH . 
F 3 HOH B 30 1030 31 HOH HOH . 
F 3 HOH B 31 1031 30 HOH HOH . 
F 3 HOH B 32 1032 49 HOH HOH . 
#
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 PIF . . . D 2 41.728 -23.335 7.653 1 49.87 ? C1 PIF 901 B 1 
HETATM 2 O O1 PIF . . . D 2 41.855 -23.524 6.286 1 48.66 ? O1 PIF 901 B 1 
HETATM 3 P P1 PIF . . . D 2 41.407 -24.959 5.618 1 51.59 ? P1 PIF 901 B 1 
HETATM 4 C C2 PIF . . . D 2 40.272 -23.108 8.098 1 58.4 ? C2 PIF 901 B 1 
HETATM 5 O O2 PIF . . . D 2 39.726 -22.032 7.359 1 58.25 ? O2 PIF 901 B 1 
HETATM 6 C C3 PIF . . . D 2 40.228 -22.801 9.609 1 54.85 ? C3 PIF 901 B 1 
HETATM 7 O O3 PIF . . . D 2 38.917 -22.619 10.096 1 53.6 ? O3 PIF 901 B 1 
HETATM 8 C C4 PIF . . . D 2 41.01 -21.517 9.9 1 51.71 ? C4 PIF 901 B 1 
HETATM 9 O O4 PIF . . . D 2 41.052 -21.361 11.296 1 54.79 ? O4 PIF 901 B 1 
HETATM 10 P P4 PIF . . . D 2 40.685 -19.893 11.951 1 51.87 ? P4 PIF 901 B 1 
HETATM 11 C C5 PIF . . . D 2 42.436 -21.527 9.33 1 48.29 ? C5 PIF 901 B 1 
HETATM 12 O O5 PIF . . . D 2 42.807 -20.183 9.255 1 50.12 ? O5 PIF 901 B 1 
HETATM 13 C C6 PIF . . . D 2 42.584 -22.102 7.904 1 50.68 ? C6 PIF 901 B 1 
HETATM 14 O O6 PIF . . . D 2 43.894 -22.53 7.654 1 44.81 ? O6 PIF 901 B 1 
HETATM 15 C C7 PIF . . . D 2 38.902 -25.746 5.065 1 65.03 ? C7 PIF 901 B 1 
HETATM 16 C C8 PIF . . . D 2 37.935 -25.08 4.084 1 66.01 ? C8 PIF 901 B 1 
HETATM 17 C C9 PIF . . . D 2 38.624 -23.779 3.673 1 60.89 ? C9 PIF 901 B 1 
HETATM 18 C C10 PIF . . . D 2 38.003 -22.337 2.016 1 67.33 ? C10 PIF 901 B 1 
HETATM 19 C C11 PIF . . . D 2 37.006 -21.47 1.249 1 60.94 ? C11 PIF 901 B 1 
HETATM 20 O O11 PIF . . . D 2 41.848 -26.068 6.508 1 54.16 -1 O11 PIF 901 B 1 
HETATM 21 C C12 PIF . . . D 2 37.313 -21.542 -0.241 1 61.04 ? C12 PIF 901 B 1 
HETATM 22 O O12 PIF . . . D 2 42.036 -25.133 4.251 1 50.82 ? O12 PIF 901 B 1 
HETATM 23 C C13 PIF . . . D 2 36.917 -22.873 -0.872 1 62.05 ? C13 PIF 901 B 1 
HETATM 24 O O13 PIF . . . D 2 39.765 -24.768 5.542 1 54.86 ? O13 PIF 901 B 1 
HETATM 25 C C14 PIF . . . D 2 36.272 -22.601 -2.235 1 69.93 ? C14 PIF 901 B 1 
HETATM 26 O O14 PIF . . . D 2 37.748 -25.958 2.994 1 62.95 ? O14 PIF 901 B 1 
HETATM 27 C C15 PIF . . . D 2 36.745 -23.531 -3.358 1 70.8 ? C15 PIF 901 B 1 
HETATM 28 O O15 PIF . . . D 2 37.727 -22.766 3.321 1 62.11 ? O15 PIF 901 B 1 
HETATM 29 C C16 PIF . . . D 2 36.655 -25.003 -2.953 1 73.71 ? C16 PIF 901 B 1 
HETATM 30 O O16 PIF . . . D 2 39.019 -22.686 1.492 1 65.76 ? O16 PIF 901 B 1 
HETATM 31 C C17 PIF . . . D 2 37.148 -25.961 -4.042 1 77.57 ? C17 PIF 901 B 1 
HETATM 32 O O17 PIF . . . D 2 35.641 -25.218 2.688 1 74.43 ? O17 PIF 901 B 1 
HETATM 33 C C18 PIF . . . D 2 36.447 -26.075 2.496 1 68.42 ? C18 PIF 901 B 1 
HETATM 34 C C19 PIF . . . D 2 36.081 -27.305 1.675 1 68.58 ? C19 PIF 901 B 1 
HETATM 35 C C20 PIF . . . D 2 35.813 -26.966 0.209 1 67.36 ? C20 PIF 901 B 1 
HETATM 36 C C21 PIF . . . D 2 36.582 -27.87 -0.762 1 77.54 ? C21 PIF 901 B 1 
HETATM 37 C C22 PIF . . . D 2 36.956 -29.241 -0.17 1 84.36 ? C22 PIF 901 B 1 
HETATM 38 C C23 PIF . . . D 2 36.976 -30.379 -1.206 1 81.97 ? C23 PIF 901 B 1 
HETATM 39 C C24 PIF . . . D 2 36.718 -31.757 -0.582 1 87.85 ? C24 PIF 901 B 1 
HETATM 40 C C25 PIF . . . D 2 37.393 -32.81 -1.003 1 91.11 ? C25 PIF 901 B 1 
HETATM 41 O O41 PIF . . . D 2 41.718 -18.858 11.552 1 54.53 ? O41 PIF 901 B 1 
HETATM 42 O O42 PIF . . . D 2 40.74 -20.043 13.457 1 60.94 -1 O42 PIF 901 B 1 
HETATM 43 O O43 PIF . . . D 2 39.32 -19.415 11.511 1 50.57 ? O43 PIF 901 B 1 
#
_model_server_stats.io_time_ms              12 
_model_server_stats.parse_time_ms           14 
_model_server_stats.create_model_time_ms    8 
_model_server_stats.query_time_ms           297 
_model_server_stats.encode_time_ms          7 
_model_server_stats.element_count           43 
#