data_1ZDU
#
_model_server_result.job_id            p_prbXj3T_e6Eb0G-TJjtg 
_model_server_result.datetime_utc      '2024-11-24 05:37:22' 
_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          1zdu 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":101}' 
#
_entry.id    1ZDU 
#
_exptl.entry_id    1ZDU 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              872.997 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            PHOSPHATIDYLGLYCEROL-PHOSPHOGLYCEROL 
_entity.pdbx_number_of_molecules    1 
_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            1ZDU 
_cell.length_a            61.01 
_cell.length_b            67 
_cell.length_c            78.21 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1ZDU 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    trimeric 
_pdbx_struct_assembly.oligomeric_count      3 
_pdbx_struct_assembly.details               author_and_software_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F,G,H 
_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    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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      3 
_struct_asym.id                             D 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
_chem_comp.formula           'C41 H78 O15 P2 -2' 
_chem_comp.formula_weight    872.997 
_chem_comp.id                P3A 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              PHOSPHATIDYLGLYCEROL-PHOSPHOGLYCEROL 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
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
O43 C42 P3A doub 237 n n 
C42 C44 P3A sing 238 n n 
C42 O41 P3A sing 239 n n 
C44 C45 P3A sing 240 n n 
C44 H441 P3A sing 241 n n 
C44 H442 P3A sing 242 n n 
C45 C46 P3A sing 243 n n 
C45 H451 P3A sing 244 n n 
C45 H452 P3A sing 245 n n 
C46 C47 P3A sing 246 n n 
C46 H461 P3A sing 247 n n 
C46 H462 P3A sing 248 n n 
C47 C48 P3A sing 249 n n 
C47 H471 P3A sing 250 n n 
C47 H472 P3A sing 251 n n 
C48 C49 P3A sing 252 n n 
C48 H481 P3A sing 253 n n 
C48 H482 P3A sing 254 n n 
C49 C50 P3A sing 255 n n 
C49 H491 P3A sing 256 n n 
C49 H492 P3A sing 257 n n 
C50 C51 P3A sing 258 n n 
C50 H501 P3A sing 259 n n 
C50 H502 P3A sing 260 n n 
C51 C52 P3A sing 261 n n 
C51 H511 P3A sing 262 n n 
C51 H512 P3A sing 263 n n 
C52 C53 P3A sing 264 n n 
C52 H521 P3A sing 265 n n 
C52 H522 P3A sing 266 n n 
C53 C54 P3A sing 267 n n 
C53 H531 P3A sing 268 n n 
C53 H532 P3A sing 269 n n 
C54 C55 P3A sing 270 n n 
C54 H541 P3A sing 271 n n 
C54 H542 P3A sing 272 n n 
C55 C56 P3A sing 273 n n 
C55 H551 P3A sing 274 n n 
C55 H552 P3A sing 275 n n 
C56 C57 P3A sing 276 n n 
C56 H561 P3A sing 277 n n 
C56 H562 P3A sing 278 n n 
C57 C58 P3A sing 279 n n 
C57 H571 P3A sing 280 n n 
C57 H572 P3A sing 281 n n 
C58 H581 P3A sing 282 n n 
C58 H582 P3A sing 283 n n 
C58 H583 P3A sing 284 n n 
O41 C40 P3A sing 285 n n 
C40 C38 P3A sing 286 n n 
C40 H401 P3A sing 287 n n 
C40 H402 P3A sing 288 n n 
C38 C39 P3A sing 289 n n 
C38 O37 P3A sing 290 n n 
C38 H38 P3A sing 291 n n 
C39 O19 P3A sing 292 n n 
C39 H391 P3A sing 293 n n 
C39 H392 P3A sing 294 n n 
O19 P16 P3A sing 295 n n 
P16 O17 P3A doub 296 n n 
P16 O18 P3A sing 297 n n 
P16 O15 P3A sing 298 n n 
O15 C14 P3A sing 299 n n 
C14 C6 P3A sing 300 n n 
C14 H141 P3A sing 301 n n 
C14 H142 P3A sing 302 n n 
C6 O7 P3A sing 303 n n 
C6 C8 P3A sing 304 n n 
C6 H6 P3A sing 305 n n 
O7 HO7 P3A sing 306 n n 
C8 O9 P3A sing 307 n n 
C8 H81 P3A sing 308 n n 
C8 H82 P3A sing 309 n n 
O9 P10 P3A sing 310 n n 
P10 O12 P3A doub 311 n n 
P10 O13 P3A sing 312 n n 
P10 O11 P3A sing 313 n n 
O11 C1 P3A sing 314 n n 
C1 C2 P3A sing 315 n n 
C1 H11 P3A sing 316 n n 
C1 H12 P3A sing 317 n n 
C2 C4 P3A sing 318 n n 
C2 O3 P3A sing 319 n n 
C2 H2 P3A sing 320 n n 
C4 O5 P3A sing 321 n n 
C4 H41 P3A sing 322 n n 
C4 H42 P3A sing 323 n n 
O5 HO5 P3A sing 324 n n 
O3 HO3 P3A sing 325 n n 
O37 C21 P3A sing 326 n n 
C21 O20 P3A doub 327 n n 
C21 C22 P3A sing 328 n n 
C22 C23 P3A sing 329 n n 
C22 H221 P3A sing 330 n n 
C22 H222 P3A sing 331 n n 
C23 C24 P3A sing 332 n n 
C23 H231 P3A sing 333 n n 
C23 H232 P3A sing 334 n n 
C24 C25 P3A sing 335 n n 
C24 H241 P3A sing 336 n n 
C24 H242 P3A sing 337 n n 
C25 C26 P3A sing 338 n n 
C25 H251 P3A sing 339 n n 
C25 H252 P3A sing 340 n n 
C26 C27 P3A sing 341 n n 
C26 H261 P3A sing 342 n n 
C26 H262 P3A sing 343 n n 
C27 C28 P3A sing 344 n n 
C27 H271 P3A sing 345 n n 
C27 H272 P3A sing 346 n n 
C28 C29 P3A sing 347 n n 
C28 H281 P3A sing 348 n n 
C28 H282 P3A sing 349 n n 
C29 C30 P3A doub 350 z n 
C29 H29 P3A sing 351 n n 
C30 C31 P3A sing 352 n n 
C30 H30 P3A sing 353 n n 
C31 C32 P3A sing 354 n n 
C31 H311 P3A sing 355 n n 
C31 H312 P3A sing 356 n n 
C32 C33 P3A sing 357 n n 
C32 H321 P3A sing 358 n n 
C32 H322 P3A sing 359 n n 
C33 C34 P3A sing 360 n n 
C33 H331 P3A sing 361 n n 
C33 H332 P3A sing 362 n n 
C34 C35 P3A sing 363 n n 
C34 H341 P3A sing 364 n n 
C34 H342 P3A sing 365 n n 
C35 C36 P3A sing 366 n n 
C35 H351 P3A sing 367 n n 
C35 H352 P3A sing 368 n n 
C36 H361 P3A sing 369 n n 
C36 H362 P3A sing 370 n n 
C36 H363 P3A sing 371 n n 
#
_atom_sites.entry_id                     1ZDU 
_atom_sites.fract_transf_matrix[1][1]    0.016391 
_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]    0.014925 
_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]    0.012786 
_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
D 3 P3A A 1 101 1 P3A PPA . 
E 4 TRS A 1 103 3 TRS TRS . 
F 5 HOH A 1 1 1 HOH HOH . 
F 5 HOH A 2 2 2 HOH HOH . 
F 5 HOH A 3 3 3 HOH HOH . 
F 5 HOH A 4 4 4 HOH HOH . 
F 5 HOH A 5 5 5 HOH HOH . 
F 5 HOH A 6 6 6 HOH HOH . 
F 5 HOH A 7 7 7 HOH HOH . 
F 5 HOH A 8 8 8 HOH HOH . 
F 5 HOH A 9 9 9 HOH HOH . 
F 5 HOH A 10 10 10 HOH HOH . 
F 5 HOH A 11 11 11 HOH HOH . 
F 5 HOH A 12 12 12 HOH HOH . 
F 5 HOH A 13 13 13 HOH HOH . 
F 5 HOH A 14 14 14 HOH HOH . 
F 5 HOH A 15 15 15 HOH HOH . 
F 5 HOH A 16 16 16 HOH HOH . 
F 5 HOH A 17 17 17 HOH HOH . 
F 5 HOH A 18 18 18 HOH HOH . 
F 5 HOH A 19 19 19 HOH HOH . 
F 5 HOH A 20 20 20 HOH HOH . 
F 5 HOH A 21 21 21 HOH HOH . 
F 5 HOH A 22 22 22 HOH HOH . 
F 5 HOH A 23 23 23 HOH HOH . 
F 5 HOH A 24 24 24 HOH HOH . 
F 5 HOH A 25 25 25 HOH HOH . 
F 5 HOH A 26 26 26 HOH HOH . 
F 5 HOH A 27 27 27 HOH HOH . 
F 5 HOH A 28 28 28 HOH HOH . 
F 5 HOH A 29 29 29 HOH HOH . 
F 5 HOH A 30 30 30 HOH HOH . 
F 5 HOH A 31 37 37 HOH HOH . 
G 5 HOH P 1 31 31 HOH HOH . 
G 5 HOH P 2 32 32 HOH HOH . 
G 5 HOH P 3 33 33 HOH HOH . 
H 5 HOH Q 1 34 34 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 O O43 P3A . . . D 3 -2.683 13.046 2.647 1 36.59 ? O43 P3A 101 A 1 
HETATM 2 C C42 P3A . . . D 3 -1.973 12.439 1.856 1 36.77 ? C42 P3A 101 A 1 
HETATM 3 C C44 P3A . . . D 3 -1.315 13.116 0.665 1 36.61 ? C44 P3A 101 A 1 
HETATM 4 C C45 P3A . . . D 3 -1.556 14.627 0.599 1 36 ? C45 P3A 101 A 1 
HETATM 5 C C46 P3A . . . D 3 -0.46 15.423 1.301 1 35.69 ? C46 P3A 101 A 1 
HETATM 6 C C47 P3A . . . D 3 -0.89 16.866 1.574 1 35.51 ? C47 P3A 101 A 1 
HETATM 7 C C48 P3A . . . D 3 0.176 17.655 2.34 1 35.35 ? C48 P3A 101 A 1 
HETATM 8 C C49 P3A . . . D 3 -0.44 18.673 3.301 1 35.77 ? C49 P3A 101 A 1 
HETATM 9 C C50 P3A . . . D 3 0.569 19.206 4.325 1 35.36 ? C50 P3A 101 A 1 
HETATM 10 C C51 P3A . . . D 3 1.309 20.425 3.796 1 35.59 ? C51 P3A 101 A 1 
HETATM 11 C C52 P3A . . . D 3 2.761 20.483 4.283 1 36.7 ? C52 P3A 101 A 1 
HETATM 12 C C53 P3A . . . D 3 2.893 20.954 5.734 1 36.61 ? C53 P3A 101 A 1 
HETATM 13 C C54 P3A . . . D 3 4.043 21.942 5.875 1 36.48 ? C54 P3A 101 A 1 
HETATM 14 C C55 P3A . . . D 3 4.143 22.465 7.304 1 37.07 ? C55 P3A 101 A 1 
HETATM 15 C C56 P3A . . . D 3 4.833 21.46 8.196 1 37.56 ? C56 P3A 101 A 1 
HETATM 16 C C57 P3A . . . D 3 5.276 21.837 9.396 1 38.55 ? C57 P3A 101 A 1 
HETATM 17 C C58 P3A . . . D 3 5.976 20.859 10.319 1 38.57 ? C58 P3A 101 A 1 
HETATM 18 O O41 P3A . . . D 3 -1.752 11.011 2.077 1 36.88 ? O41 P3A 101 A 1 
HETATM 19 C C40 P3A . . . D 3 -1.735 10.466 3.404 1 35.73 ? C40 P3A 101 A 1 
HETATM 20 C C38 P3A . . . D 3 -0.454 10.84 4.147 1 34.28 ? C38 P3A 101 A 1 
HETATM 21 C C39 P3A . . . D 3 -0.291 9.981 5.398 1 33.72 ? C39 P3A 101 A 1 
HETATM 22 O O19 P3A . . . D 3 -1.199 10.305 6.457 1 33.32 ? O19 P3A 101 A 1 
HETATM 23 P P16 P3A . . . D 3 -1.011 9.49 7.839 1 33.4 ? P16 P3A 101 A 1 
HETATM 24 O O17 P3A . . . D 3 0.404 9.747 8.301 1 32.8 ? O17 P3A 101 A 1 
HETATM 25 O O18 P3A . . . D 3 -1.47 8.066 7.62 1 34.54 ? O18 P3A 101 A 1 
HETATM 26 O O15 P3A . . . D 3 -2.015 10.119 8.93 1 34.72 ? O15 P3A 101 A 1 
HETATM 27 C C14 P3A . . . D 3 -1.556 10.312 10.276 1 35.34 ? C14 P3A 101 A 1 
HETATM 28 C C6 P3A . . . D 3 -2.191 9.386 11.302 1 35.84 ? C6 P3A 101 A 1 
HETATM 29 O O7 P3A . . . D 3 -3.227 10.071 11.968 1 35.93 ? O7 P3A 101 A 1 
HETATM 30 C C8 P3A . . . D 3 -1.182 8.964 12.355 1 36.16 ? C8 P3A 101 A 1 
HETATM 31 O O9 P3A . . . D 3 -1.615 7.735 12.931 1 37.73 ? O9 P3A 101 A 1 
HETATM 32 P P10 P3A . . . D 3 -2.873 7.663 13.933 1 39.45 ? P10 P3A 101 A 1 
HETATM 33 O O12 P3A . . . D 3 -4.116 7.289 13.15 1 40.2 ? O12 P3A 101 A 1 
HETATM 34 O O13 P3A . . . D 3 -2.848 8.894 14.792 1 38.1 ? O13 P3A 101 A 1 
HETATM 35 O O11 P3A . . . D 3 -2.556 6.354 14.835 1 39.26 ? O11 P3A 101 A 1 
HETATM 36 C C1 P3A . . . D 3 -2.997 6.26 16.19 1 37.98 ? C1 P3A 101 A 1 
HETATM 37 C C2 P3A . . . D 3 -4.455 5.829 16.286 1 37.45 ? C2 P3A 101 A 1 
HETATM 38 C C4 P3A . . . D 3 -5.119 6.606 17.415 1 37.2 ? C4 P3A 101 A 1 
HETATM 39 O O5 P3A . . . D 3 -5.436 7.911 16.978 1 36.01 ? O5 P3A 101 A 1 
HETATM 40 O O3 P3A . . . D 3 -4.558 4.439 16.569 1 36.89 ? O3 P3A 101 A 1 
HETATM 41 O O37 P3A . . . D 3 -0.493 12.216 4.51 1 34.58 ? O37 P3A 101 A 1 
HETATM 42 C C21 P3A . . . D 3 0.8 12.858 4.656 1 34.98 ? C21 P3A 101 A 1 
HETATM 43 O O20 P3A . . . D 3 1.663 12.665 3.821 1 35.77 ? O20 P3A 101 A 1 
HETATM 44 C C22 P3A . . . D 3 1.064 13.763 5.837 1 35.7 ? C22 P3A 101 A 1 
HETATM 45 C C23 P3A . . . D 3 1.171 15.234 5.433 1 36.25 ? C23 P3A 101 A 1 
HETATM 46 C C24 P3A . . . D 3 2.597 15.624 5.056 1 36.54 ? C24 P3A 101 A 1 
HETATM 47 C C25 P3A . . . D 3 3.562 15.418 6.214 1 36.61 ? C25 P3A 101 A 1 
HETATM 48 C C26 P3A . . . D 3 4.644 16.488 6.265 1 37.07 ? C26 P3A 101 A 1 
HETATM 49 C C27 P3A . . . D 3 5.594 16.193 7.426 1 37.44 ? C27 P3A 101 A 1 
HETATM 50 C C28 P3A . . . D 3 6.185 17.459 8.035 1 37.93 ? C28 P3A 101 A 1 
HETATM 51 C C29 P3A . . . D 3 5.94 17.528 9.527 1 38.45 ? C29 P3A 101 A 1 
HETATM 52 C C30 P3A . . . D 3 4.73 17.746 10.054 1 39.11 ? C30 P3A 101 A 1 
HETATM 53 C C31 P3A . . . D 3 3.494 17.929 9.2 1 38.75 ? C31 P3A 101 A 1 
HETATM 54 C C32 P3A . . . D 3 2.382 18.6 10.002 1 37.88 ? C32 P3A 101 A 1 
HETATM 55 C C33 P3A . . . D 3 1.194 18.898 9.087 1 37.14 ? C33 P3A 101 A 1 
HETATM 56 C C34 P3A . . . D 3 0.081 19.598 9.852 1 36.55 ? C34 P3A 101 A 1 
HETATM 57 C C35 P3A . . . D 3 0.284 21.107 9.89 1 35.37 ? C35 P3A 101 A 1 
HETATM 58 C C36 P3A . . . D 3 -0.314 21.757 8.667 1 34.63 ? C36 P3A 101 A 1 
#
_model_server_stats.io_time_ms              48 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           338 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           58 
#