data_7L2J
#
_model_server_result.job_id            BPIIrgO7chYjmScDUhB61g 
_model_server_result.datetime_utc      '2024-11-14 18:06:15' 
_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          7l2j 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"H","auth_seq_id":901}' 
#
_entry.id    7L2J 
#
_exptl.entry_id    7L2J 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              600.633 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '(2S)-1-(butanoyloxy)-3-{[(R)-hydroxy{[(1r,2R,3S,4S,5R,6S)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propan-2-yl tridecanoate' 
_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            7L2J 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7L2J 
_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 
_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 F N N 
? 2 G N N 
? 2 H 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 390 A CYS 386 1_555 A SG CYS 394 A CYS 390 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? 
disulf ? disulf2 B SG CYS 390 B CYS 386 1_555 B SG CYS 394 B CYS 390 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? 
disulf ? disulf3 C SG CYS 390 C CYS 386 1_555 C SG CYS 394 C CYS 390 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? 
disulf ? disulf4 D SG CYS 390 D CYS 386 1_555 D SG CYS 394 D CYS 390 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? 
#
_chem_comp.formula           'C26 H49 O13 P' 
_chem_comp.formula_weight    600.633 
_chem_comp.id                XJ7 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '(2S)-1-(butanoyloxy)-3-{[(R)-hydroxy{[(1r,2R,3S,4S,5R,6S)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propan-2-yl tridecanoate' 
_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
C23 C22 XJ7 sing 374 n n 
C22 C21 XJ7 sing 375 n n 
C21 C20 XJ7 sing 376 n n 
C20 C19 XJ7 sing 377 n n 
C19 C18 XJ7 sing 378 n n 
C18 C17 XJ7 sing 379 n n 
C17 C16 XJ7 sing 380 n n 
C16 C15 XJ7 sing 381 n n 
C15 C14 XJ7 sing 382 n n 
C14 C13 XJ7 sing 383 n n 
C13 C12 XJ7 sing 384 n n 
C10 C9 XJ7 sing 385 n n 
C9 C8 XJ7 sing 386 n n 
C12 C11 XJ7 sing 387 n n 
C8 C7 XJ7 sing 388 n n 
O10 C11 XJ7 doub 389 n n 
C11 O9 XJ7 sing 390 n n 
C7 O8 XJ7 doub 391 n n 
C7 O7 XJ7 sing 392 n n 
O9 C5 XJ7 sing 393 n n 
O7 C6 XJ7 sing 394 n n 
C6 C5 XJ7 sing 395 n n 
C5 C4 XJ7 sing 396 n n 
C4 O6 XJ7 sing 397 n n 
O5 P XJ7 doub 398 n n 
O6 P XJ7 sing 399 n n 
P O3 XJ7 sing 400 n n 
P O4 XJ7 sing 401 n n 
O3 C3 XJ7 sing 402 n n 
O11 C24 XJ7 sing 403 n n 
C3 C24 XJ7 sing 404 n n 
C3 C2 XJ7 sing 405 n n 
C24 C25 XJ7 sing 406 n n 
O2 C2 XJ7 sing 407 n n 
C2 C1 XJ7 sing 408 n n 
C25 O12 XJ7 sing 409 n n 
C25 C XJ7 sing 410 n n 
C1 C XJ7 sing 411 n n 
C1 O1 XJ7 sing 412 n n 
C O XJ7 sing 413 n n 
C10 H1 XJ7 sing 414 n n 
C10 H2 XJ7 sing 415 n n 
C10 H3 XJ7 sing 416 n n 
O11 H4 XJ7 sing 417 n n 
C16 H5 XJ7 sing 418 n n 
C16 H6 XJ7 sing 419 n n 
C17 H7 XJ7 sing 420 n n 
C17 H8 XJ7 sing 421 n n 
C19 H9 XJ7 sing 422 n n 
C19 H10 XJ7 sing 423 n n 
C20 H11 XJ7 sing 424 n n 
C20 H12 XJ7 sing 425 n n 
C21 H13 XJ7 sing 426 n n 
C21 H14 XJ7 sing 427 n n 
C23 H15 XJ7 sing 428 n n 
C23 H16 XJ7 sing 429 n n 
C23 H17 XJ7 sing 430 n n 
C25 H18 XJ7 sing 431 n n 
C1 H19 XJ7 sing 432 n n 
C H20 XJ7 sing 433 n n 
O H21 XJ7 sing 434 n n 
C12 H22 XJ7 sing 435 n n 
C12 H23 XJ7 sing 436 n n 
C13 H24 XJ7 sing 437 n n 
C13 H25 XJ7 sing 438 n n 
C14 H26 XJ7 sing 439 n n 
C14 H27 XJ7 sing 440 n n 
C15 H28 XJ7 sing 441 n n 
C15 H29 XJ7 sing 442 n n 
C18 H30 XJ7 sing 443 n n 
C18 H31 XJ7 sing 444 n n 
C2 H32 XJ7 sing 445 n n 
C22 H33 XJ7 sing 446 n n 
C22 H34 XJ7 sing 447 n n 
C24 H35 XJ7 sing 448 n n 
C3 H36 XJ7 sing 449 n n 
C4 H37 XJ7 sing 450 n n 
C4 H38 XJ7 sing 451 n n 
C5 H39 XJ7 sing 452 n n 
C6 H40 XJ7 sing 453 n n 
C6 H41 XJ7 sing 454 n n 
C8 H42 XJ7 sing 455 n n 
C8 H43 XJ7 sing 456 n n 
C9 H44 XJ7 sing 457 n n 
C9 H45 XJ7 sing 458 n n 
O1 H46 XJ7 sing 459 n n 
O12 H47 XJ7 sing 460 n n 
O2 H48 XJ7 sing 461 n n 
O4 H49 XJ7 sing 462 n n 
#
_atom_sites.entry_id                     7L2J 
_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 XJ7 A 1 901 801 XJ7 6ES . 
F 2 XJ7 B 1 901 801 XJ7 6ES . 
G 2 XJ7 C 1 901 801 XJ7 6ES . 
H 2 XJ7 D 1 901 801 XJ7 6ES . 
#
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 C10 XJ7 . . . H 2 117.806 108.088 117.682 1 63.78 ? C10 XJ7 901 D 1 
HETATM 2 O O11 XJ7 . . . H 2 121.103 105.916 126.696 1 63.78 ? O11 XJ7 901 D 1 
HETATM 3 C C16 XJ7 . . . H 2 121.582 108.12 115.776 1 63.78 ? C16 XJ7 901 D 1 
HETATM 4 C C17 XJ7 . . . H 2 120.528 107.583 114.811 1 63.78 ? C17 XJ7 901 D 1 
HETATM 5 C C19 XJ7 . . . H 2 120.032 107.083 112.413 1 63.78 ? C19 XJ7 901 D 1 
HETATM 6 C C20 XJ7 . . . H 2 120.584 106.932 111.01 1 63.78 ? C20 XJ7 901 D 1 
HETATM 7 C C21 XJ7 . . . H 2 119.448 106.773 110.025 1 63.78 ? C21 XJ7 901 D 1 
HETATM 8 C C23 XJ7 . . . H 2 118.806 106.27 107.658 1 63.78 ? C23 XJ7 901 D 1 
HETATM 9 C C25 XJ7 . . . H 2 120.893 105 128.907 1 63.78 ? C25 XJ7 901 D 1 
HETATM 10 C C1 XJ7 . . . H 2 120.786 102.462 129.119 1 63.78 ? C1 XJ7 901 D 1 
HETATM 11 C C XJ7 . . . H 2 120.325 103.814 129.686 1 63.78 ? C XJ7 901 D 1 
HETATM 12 O O XJ7 . . . H 2 118.925 103.907 129.61 1 63.78 ? O XJ7 901 D 1 
HETATM 13 C C11 XJ7 . . . H 2 123.704 104.586 119.565 1 63.78 ? C11 XJ7 901 D 1 
HETATM 14 C C12 XJ7 . . . H 2 124.573 105.793 119.194 1 63.78 ? C12 XJ7 901 D 1 
HETATM 15 C C13 XJ7 . . . H 2 124.394 106.274 117.745 1 63.78 ? C13 XJ7 901 D 1 
HETATM 16 C C14 XJ7 . . . H 2 123.119 107.102 117.542 1 63.78 ? C14 XJ7 901 D 1 
HETATM 17 C C15 XJ7 . . . H 2 122.648 107.066 116.082 1 63.78 ? C15 XJ7 901 D 1 
HETATM 18 C C18 XJ7 . . . H 2 121.126 107.196 113.463 1 63.78 ? C18 XJ7 901 D 1 
HETATM 19 C C2 XJ7 . . . H 2 120.643 102.307 127.598 1 63.78 ? C2 XJ7 901 D 1 
HETATM 20 C C22 XJ7 . . . H 2 119.952 106.448 108.638 1 63.78 ? C22 XJ7 901 D 1 
HETATM 21 C C24 XJ7 . . . H 2 120.594 104.831 127.421 1 63.78 ? C24 XJ7 901 D 1 
HETATM 22 C C3 XJ7 . . . H 2 121.184 103.535 126.857 1 63.78 ? C3 XJ7 901 D 1 
HETATM 23 C C4 XJ7 . . . H 2 122.991 104.336 123.193 1 63.78 ? C4 XJ7 901 D 1 
HETATM 24 C C5 XJ7 . . . H 2 122.965 104.975 121.807 1 63.78 ? C5 XJ7 901 D 1 
HETATM 25 C C6 XJ7 . . . H 2 121.499 105.194 121.416 1 63.78 ? C6 XJ7 901 D 1 
HETATM 26 C C7 XJ7 . . . H 2 120.106 106.936 120.616 1 63.78 ? C7 XJ7 901 D 1 
HETATM 27 C C8 XJ7 . . . H 2 119.569 107.056 119.186 1 63.78 ? C8 XJ7 901 D 1 
HETATM 28 C C9 XJ7 . . . H 2 118.339 107.956 119.112 1 63.78 ? C9 XJ7 901 D 1 
HETATM 29 O O1 XJ7 . . . H 2 120.024 101.447 129.711 1 63.78 ? O1 XJ7 901 D 1 
HETATM 30 O O10 XJ7 . . . H 2 123.11 104.023 118.71 1 63.78 ? O10 XJ7 901 D 1 
HETATM 31 O O12 XJ7 . . . H 2 120.244 106.167 129.346 1 63.78 ? O12 XJ7 901 D 1 
HETATM 32 O O2 XJ7 . . . H 2 121.365 101.167 127.207 1 63.78 ? O2 XJ7 901 D 1 
HETATM 33 O O3 XJ7 . . . H 2 120.831 103.493 125.491 1 63.78 ? O3 XJ7 901 D 1 
HETATM 34 O O4 XJ7 . . . H 2 122.883 102.01 125.311 1 63.78 ? O4 XJ7 901 D 1 
HETATM 35 O O5 XJ7 . . . H 2 120.823 101.276 124.234 1 63.78 ? O5 XJ7 901 D 1 
HETATM 36 O O6 XJ7 . . . H 2 122.181 103.193 123.132 1 63.78 ? O6 XJ7 901 D 1 
HETATM 37 O O7 XJ7 . . . H 2 121.415 106.481 120.855 1 63.78 ? O7 XJ7 901 D 1 
HETATM 38 O O8 XJ7 . . . H 2 119.411 107.23 121.521 1 63.78 ? O8 XJ7 901 D 1 
HETATM 39 O O9 XJ7 . . . H 2 123.625 104.126 120.899 1 63.78 ? O9 XJ7 901 D 1 
HETATM 40 P P XJ7 . . . H 2 121.687 102.465 124.529 1 63.78 ? P XJ7 901 D 1 
#
_model_server_stats.io_time_ms              11 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    16 
_model_server_stats.query_time_ms           262 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           40 
#