data_7U2X
#
_model_server_result.job_id            3HAhL0hD0XoMa3o6SxR9Yg 
_model_server_result.datetime_utc      '2025-02-17 10:42:17' 
_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          7u2x 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"M","auth_seq_id":1604}' 
#
_entry.id    7U2X 
#
_exptl.entry_id    7U2X 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              792.075 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            O-[(R)-{[(2R)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-L-serine 
_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            7U2X 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7U2X 
_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    pentameric 
_pdbx_struct_assembly.oligomeric_count      5 
_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,Q,R,S,T,U 
_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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      5 
_struct_asym.id                             M 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    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 110 A CYS 110 1_555 A SG CYS 142 A CYS 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf2 B SG CYS 6 E CYS 6 1_555 B SG CYS 26 E CYS 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? 
disulf ? disulf3 C SG CYS 110 B CYS 110 1_555 C SG CYS 142 B CYS 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf4 D SG CYS 110 C CYS 110 1_555 D SG CYS 142 C CYS 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf5 E SG CYS 110 D CYS 110 1_555 E SG CYS 142 D CYS 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
#
_chem_comp.formula           'C42 H82 N O10 P' 
_chem_comp.formula_weight    792.075 
_chem_comp.id                P5S 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              O-[(R)-{[(2R)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-L-serine 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     'phosphatidyl serine' 
#
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
CA C P5S sing 314 n n 
O C P5S doub 315 n n 
C OXT P5S sing 316 n n 
CA N P5S sing 317 n n 
N HN P5S sing 318 n n 
N HNA P5S sing 319 n n 
O19 C1 P5S sing 320 n n 
C1 C2 P5S sing 321 n n 
C1 H1 P5S sing 322 n n 
C1 H1A P5S sing 323 n n 
C2 O37 P5S sing 324 n n 
C2 C3 P5S sing 325 n n 
C2 H2 P5S sing 326 n n 
O16 C3 P5S sing 327 n n 
C3 H3 P5S sing 328 n n 
C3 H3A P5S sing 329 n n 
CB CA P5S sing 330 n n 
CA HA P5S sing 331 n n 
CB OG P5S sing 332 n n 
CB HB P5S sing 333 n n 
CB HBA P5S sing 334 n n 
P12 OG P5S sing 335 n n 
O16 P12 P5S sing 336 n n 
O13 P12 P5S doub 337 n n 
P12 O15 P5S sing 338 n n 
O15 HO15 P5S sing 339 n n 
C20 C17 P5S sing 340 n n 
O19 C17 P5S sing 341 n n 
C17 O18 P5S doub 342 n n 
C21 C20 P5S sing 343 n n 
C20 H20 P5S sing 344 n n 
C20 H20A P5S sing 345 n n 
C21 C22 P5S sing 346 n n 
C21 H21 P5S sing 347 n n 
C21 H21A P5S sing 348 n n 
C23 C22 P5S sing 349 n n 
C22 H22 P5S sing 350 n n 
C22 H22A P5S sing 351 n n 
C24 C23 P5S sing 352 n n 
C23 H23 P5S sing 353 n n 
C23 H23A P5S sing 354 n n 
C25 C24 P5S sing 355 n n 
C24 H24 P5S sing 356 n n 
C24 H24A P5S sing 357 n n 
C26 C25 P5S sing 358 n n 
C25 H25 P5S sing 359 n n 
C25 H25A P5S sing 360 n n 
C26 C27 P5S sing 361 n n 
C26 H26 P5S sing 362 n n 
C26 H26A P5S sing 363 n n 
C27 C28 P5S sing 364 n n 
C27 H27 P5S sing 365 n n 
C27 H27A P5S sing 366 n n 
C29 C28 P5S sing 367 n n 
C28 H28 P5S sing 368 n n 
C28 H28A P5S sing 369 n n 
C30 C29 P5S sing 370 n n 
C29 H29 P5S sing 371 n n 
C29 H29A P5S sing 372 n n 
C31 C30 P5S sing 373 n n 
C30 H30 P5S sing 374 n n 
C30 H30A P5S sing 375 n n 
C31 C32 P5S sing 376 n n 
C31 H31 P5S sing 377 n n 
C31 H31A P5S sing 378 n n 
C33 C32 P5S sing 379 n n 
C32 H32 P5S sing 380 n n 
C32 H32A P5S sing 381 n n 
C33 C34 P5S sing 382 n n 
C33 H33 P5S sing 383 n n 
C33 H33A P5S sing 384 n n 
C35 C34 P5S sing 385 n n 
C34 H34 P5S sing 386 n n 
C34 H34A P5S sing 387 n n 
C36 C35 P5S sing 388 n n 
C35 H35 P5S sing 389 n n 
C35 H35A P5S sing 390 n n 
C36 H36 P5S sing 391 n n 
C36 H36A P5S sing 392 n n 
C36 H36B P5S sing 393 n n 
C38 O37 P5S sing 394 n n 
O47 C38 P5S doub 395 n n 
C38 C39 P5S sing 396 n n 
C40 C39 P5S sing 397 n n 
C39 H39 P5S sing 398 n n 
C39 H39A P5S sing 399 n n 
C41 C40 P5S sing 400 n n 
C40 H40 P5S sing 401 n n 
C40 H40A P5S sing 402 n n 
C42 C41 P5S sing 403 n n 
C41 H41 P5S sing 404 n n 
C41 H41A P5S sing 405 n n 
C43 C42 P5S sing 406 n n 
C42 H42 P5S sing 407 n n 
C42 H42A P5S sing 408 n n 
C43 C44 P5S sing 409 n n 
C43 H43 P5S sing 410 n n 
C43 H43A P5S sing 411 n n 
C44 C45 P5S sing 412 n n 
C44 H44 P5S sing 413 n n 
C44 H44A P5S sing 414 n n 
C45 C46 P5S sing 415 n n 
C45 H45 P5S sing 416 n n 
C45 H45A P5S sing 417 n n 
C46 C48 P5S sing 418 n n 
C46 H46 P5S sing 419 n n 
C46 H46A P5S sing 420 n n 
C48 C49 P5S sing 421 n n 
C48 H48 P5S sing 422 n n 
C48 H48A P5S sing 423 n n 
C49 C50 P5S sing 424 n n 
C49 H49 P5S sing 425 n n 
C49 H49A P5S sing 426 n n 
C50 C51 P5S sing 427 n n 
C50 H50 P5S sing 428 n n 
C50 H50A P5S sing 429 n n 
C51 C52 P5S sing 430 n n 
C51 H51 P5S sing 431 n n 
C51 H51A P5S sing 432 n n 
C53 C52 P5S sing 433 n n 
C52 H52 P5S sing 434 n n 
C52 H52A P5S sing 435 n n 
C53 C54 P5S sing 436 n n 
C53 H53 P5S sing 437 n n 
C53 H53A P5S sing 438 n n 
C55 C54 P5S sing 439 n n 
C54 H54 P5S sing 440 n n 
C54 H54A P5S sing 441 n n 
C55 C56 P5S sing 442 n n 
C55 H55 P5S sing 443 n n 
C55 H55A P5S sing 444 n n 
C56 H56 P5S sing 445 n n 
C56 H56A P5S sing 446 n n 
C56 H56B P5S sing 447 n n 
OXT HXT P5S sing 448 n n 
#
_atom_sites.entry_id                     7U2X 
_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
F 3 PTY A 1 401 506 PTY PTY . 
G 4 POV A 1 402 505 POV POV . 
H 3 PTY A 1 403 2010 PTY PTY . 
I 3 PTY A 1 404 506 PTY PTY . 
J 3 PTY E 1 1601 2003 PTY PTY . 
K 3 PTY E 1 1602 2004 PTY PTY . 
L 3 PTY E 1 1603 2008 PTY PTY . 
M 5 P5S E 1 1604 2006 P5S P5S . 
N 6 ATP E 1 1605 2002 ATP ATP . 
O 4 POV E 1 1606 2007 POV POV . 
P 7 NAG E 1 1607 1 NAG NAG . 
Q 3 PTY B 1 401 506 PTY PTY . 
R 4 POV B 1 402 505 POV POV . 
S 4 POV C 1 401 505 POV POV . 
T 3 PTY C 1 402 506 PTY PTY . 
U 4 POV D 1 401 505 POV POV . 
#
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 C P5S . . . M 5 179.18 168.304 138.567 1 72.69 ? C P5S 1604 E 1 
HETATM 2 N N P5S . . . M 5 178.596 167.049 136.445 1 72.69 ? N P5S 1604 E 1 
HETATM 3 O O P5S . . . M 5 180.13 168.558 139.335 1 72.69 ? O P5S 1604 E 1 
HETATM 4 C C1 P5S . . . M 5 182.265 165.073 142.887 1 72.69 ? C1 P5S 1604 E 1 
HETATM 5 C C2 P5S . . . M 5 182.968 164.77 141.581 1 72.69 ? C2 P5S 1604 E 1 
HETATM 6 C C3 P5S . . . M 5 182.425 165.53 140.389 1 72.69 ? C3 P5S 1604 E 1 
HETATM 7 C CA P5S . . . M 5 179.256 166.992 137.735 1 72.69 ? CA P5S 1604 E 1 
HETATM 8 C CB P5S . . . M 5 180.725 166.611 137.549 1 72.69 ? CB P5S 1604 E 1 
HETATM 9 O OG P5S . . . M 5 180.889 165.225 137.302 1 72.69 ? OG P5S 1604 E 1 
HETATM 10 P P12 P5S . . . M 5 181.923 164.258 138.125 1 72.69 ? P12 P5S 1604 E 1 
HETATM 11 O O13 P5S . . . M 5 181.524 162.821 138.09 1 72.69 ? O13 P5S 1604 E 1 
HETATM 12 O O15 P5S . . . M 5 183.33 164.652 137.795 1 72.69 ? O15 P5S 1604 E 1 
HETATM 13 O O16 P5S . . . M 5 181.552 164.717 139.651 1 72.69 ? O16 P5S 1604 E 1 
HETATM 14 C C17 P5S . . . M 5 182.878 165.446 145.14 1 72.69 ? C17 P5S 1604 E 1 
HETATM 15 O O18 P5S . . . M 5 182.318 166.5 145.303 1 72.69 ? O18 P5S 1604 E 1 
HETATM 16 O O19 P5S . . . M 5 183.202 164.971 143.948 1 72.69 ? O19 P5S 1604 E 1 
HETATM 17 C C20 P5S . . . M 5 183.318 164.521 146.233 1 72.69 ? C20 P5S 1604 E 1 
HETATM 18 C C21 P5S . . . M 5 183.415 165.187 147.592 1 72.69 ? C21 P5S 1604 E 1 
HETATM 19 C C22 P5S . . . M 5 184.666 166.048 147.72 1 72.69 ? C22 P5S 1604 E 1 
HETATM 20 C C23 P5S . . . M 5 184.586 166.996 148.907 1 72.69 ? C23 P5S 1604 E 1 
HETATM 21 C C24 P5S . . . M 5 185.468 166.594 150.084 1 72.69 ? C24 P5S 1604 E 1 
HETATM 22 C C25 P5S . . . M 5 184.668 166.288 151.344 1 72.69 ? C25 P5S 1604 E 1 
HETATM 23 C C26 P5S . . . M 5 184.6 164.807 151.697 1 72.69 ? C26 P5S 1604 E 1 
HETATM 24 C C27 P5S . . . M 5 183.489 164.079 150.951 1 72.69 ? C27 P5S 1604 E 1 
HETATM 25 C C28 P5S . . . M 5 182.479 163.371 151.84 1 72.69 ? C28 P5S 1604 E 1 
HETATM 26 C C29 P5S . . . M 5 183.135 162.365 152.771 1 72.69 ? C29 P5S 1604 E 1 
HETATM 27 C C30 P5S . . . M 5 182.854 162.615 154.243 1 72.69 ? C30 P5S 1604 E 1 
HETATM 28 C C31 P5S . . . M 5 183.416 161.516 155.132 1 72.69 ? C31 P5S 1604 E 1 
HETATM 29 C C32 P5S . . . M 5 182.719 161.377 156.476 1 72.69 ? C32 P5S 1604 E 1 
HETATM 30 C C33 P5S . . . M 5 183.622 160.781 157.547 1 72.69 ? C33 P5S 1604 E 1 
HETATM 31 C C34 P5S . . . M 5 184.79 161.694 157.891 1 72.69 ? C34 P5S 1604 E 1 
HETATM 32 C C35 P5S . . . M 5 184.357 163.108 158.26 1 72.69 ? C35 P5S 1604 E 1 
HETATM 33 C C36 P5S . . . M 5 185.498 164.111 158.172 1 72.69 ? C36 P5S 1604 E 1 
HETATM 34 O O37 P5S . . . M 5 182.973 163.362 141.289 1 72.69 ? O37 P5S 1604 E 1 
HETATM 35 C C38 P5S . . . M 5 183.549 162.478 142.101 1 72.69 ? C38 P5S 1604 E 1 
HETATM 36 C C39 P5S . . . M 5 184.572 161.652 141.365 1 72.69 ? C39 P5S 1604 E 1 
HETATM 37 C C40 P5S . . . M 5 184.689 160.248 141.933 1 72.69 ? C40 P5S 1604 E 1 
HETATM 38 C C41 P5S . . . M 5 185.412 160.243 143.269 1 72.69 ? C41 P5S 1604 E 1 
HETATM 39 C C42 P5S . . . M 5 184.675 159.367 144.267 1 72.69 ? C42 P5S 1604 E 1 
HETATM 40 C C43 P5S . . . M 5 184.682 159.974 145.659 1 72.69 ? C43 P5S 1604 E 1 
HETATM 41 C C44 P5S . . . M 5 184.454 158.964 146.771 1 72.69 ? C44 P5S 1604 E 1 
HETATM 42 C C45 P5S . . . M 5 184.431 159.624 148.139 1 72.69 ? C45 P5S 1604 E 1 
HETATM 43 C C46 P5S . . . M 5 183.04 159.862 148.705 1 72.69 ? C46 P5S 1604 E 1 
HETATM 44 O O47 P5S . . . M 5 183.312 162.368 143.279 1 72.69 ? O47 P5S 1604 E 1 
HETATM 45 C C48 P5S . . . M 5 182.817 159.146 150.029 1 72.69 ? C48 P5S 1604 E 1 
HETATM 46 C C49 P5S . . . M 5 183.077 157.647 149.958 1 72.69 ? C49 P5S 1604 E 1 
HETATM 47 C C50 P5S . . . M 5 182.848 156.947 151.288 1 72.69 ? C50 P5S 1604 E 1 
HETATM 48 C C51 P5S . . . M 5 183.653 155.666 151.443 1 72.69 ? C51 P5S 1604 E 1 
HETATM 49 C C52 P5S . . . M 5 182.969 154.457 150.825 1 72.69 ? C52 P5S 1604 E 1 
HETATM 50 C C53 P5S . . . M 5 182.033 153.749 151.797 1 72.69 ? C53 P5S 1604 E 1 
HETATM 51 C C54 P5S . . . M 5 181.661 152.339 151.361 1 72.69 ? C54 P5S 1604 E 1 
HETATM 52 C C55 P5S . . . M 5 181.377 151.409 152.531 1 72.69 ? C55 P5S 1604 E 1 
HETATM 53 C C56 P5S . . . M 5 181.563 149.941 152.185 1 72.69 ? C56 P5S 1604 E 1 
HETATM 54 O OXT P5S . . . M 5 178.158 169.005 138.399 1 72.69 ? OXT P5S 1604 E 1 
#
_model_server_stats.io_time_ms              29 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    21 
_model_server_stats.query_time_ms           277 
_model_server_stats.encode_time_ms          9 
_model_server_stats.element_count           54 
#