data_7PB0
#
_model_server_result.job_id            r1nMm7lzLcPfW2zkb_WQtQ 
_model_server_result.datetime_utc      '2024-11-02 19:33:50' 
_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          7pb0 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":402}' 
#
_entry.id    7PB0 
#
_exptl.entry_id    7PB0 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              466.509 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'phosphonooxy-[(10E)-3,7,11,15-tetramethylhexadeca-2,6,10,14-tetraenyl]sulfanyl-phosphinic acid' 
_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         120 
_cell.entry_id            7PB0 
_cell.length_a            185.119 
_cell.length_b            185.119 
_cell.length_c            113.062 
_cell.Z_PDB               18 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7PB0 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        155 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'H 3 2' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_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 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 11_566 x-y+2/3,-y+4/3,-z+4/3 1 0 0 0 -1 0 0 0 -1 0 213.757009 150.749333 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      4 
_struct_asym.id                             D 
_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
metalc ? metalc1 A OD1 ASP 41 A ASP 34 1_555 E MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.975 ? 
metalc ? metalc2 C O7 ISY . A ISY 401 1_555 E MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.946 ? 
metalc ? metalc3 D O1A GGS . A GGS 402 1_555 E MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.225 ? 
metalc ? metalc4 D O1B GGS . A GGS 402 1_555 E MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.951 ? 
metalc ? metalc5 E MG MG . A MG 403 1_555 F O HOH . A HOH 511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.179 ? 
metalc ? metalc6 E MG MG . A MG 403 1_555 F O HOH . A HOH 535 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.485 ? 
#
_chem_comp.formula           'C20 H36 O6 P2 S' 
_chem_comp.formula_weight    466.509 
_chem_comp.id                GGS 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'phosphonooxy-[(10E)-3,7,11,15-tetramethylhexadeca-2,6,10,14-tetraenyl]sulfanyl-phosphinic acid' 
_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
C1 S1 GGS sing 83 n n 
C1 C2 GGS sing 84 n n 
S1 PA GGS sing 85 n n 
C2 C3 GGS doub 86 n n 
C3 C4 GGS sing 87 n n 
C3 C5 GGS sing 88 z n 
C5 C6 GGS sing 89 n n 
C6 C7 GGS sing 90 n n 
C7 C8 GGS doub 91 n n 
C8 C9 GGS sing 92 n n 
C8 C10 GGS sing 93 n n 
C9 C11 GGS sing 94 n n 
PA O1A GGS doub 95 n n 
PA O2A GGS sing 96 n n 
PA O3A GGS sing 97 n n 
PB O1B GGS doub 98 n n 
PB O2B GGS sing 99 n n 
PB O3A GGS sing 100 n n 
PB O3B GGS sing 101 e n 
C11 C12 GGS sing 102 n n 
C12 C13 GGS doub 103 n n 
C13 C14 GGS sing 104 n n 
C13 C15 GGS sing 105 n n 
C15 C16 GGS sing 106 n n 
C16 C17 GGS sing 107 n n 
C17 C18 GGS doub 108 n n 
C18 C19 GGS sing 109 n n 
C18 C20 GGS sing 110 n n 
C1 H1 GGS sing 111 n n 
C1 H1A GGS sing 112 n n 
C2 H2 GGS sing 113 n n 
C4 H4 GGS sing 114 n n 
C4 H4A GGS sing 115 n n 
C4 H4B GGS sing 116 n n 
C5 H5 GGS sing 117 n n 
C5 H5A GGS sing 118 n n 
C6 H6 GGS sing 119 n n 
C6 H6A GGS sing 120 n n 
C7 H7 GGS sing 121 e n 
C9 H9 GGS sing 122 n n 
C9 H9A GGS sing 123 n n 
C10 H10 GGS sing 124 n n 
C10 H10A GGS sing 125 n n 
C10 H10B GGS sing 126 n n 
C11 H11 GGS sing 127 n n 
C11 H11A GGS sing 128 n n 
C12 H12 GGS sing 129 n n 
C14 H14 GGS sing 130 n n 
C14 H14A GGS sing 131 n n 
C14 H14B GGS sing 132 n n 
C15 H15 GGS sing 133 n n 
C15 H15A GGS sing 134 n n 
C16 H16 GGS sing 135 n n 
C16 H16A GGS sing 136 n n 
C17 H17 GGS sing 137 n n 
C19 H19 GGS sing 138 n n 
C19 H19A GGS sing 139 n n 
C19 H19B GGS sing 140 n n 
C20 H20 GGS sing 141 n n 
C20 H20A GGS sing 142 n n 
C20 H20B GGS sing 143 n n 
O2A HO2A GGS sing 144 n n 
O2B HO2B GGS sing 145 n n 
O3B HO3B GGS sing 146 n n 
#
_atom_sites.entry_id                     7PB0 
_atom_sites.fract_transf_matrix[1][1]    0.005402 
_atom_sites.fract_transf_matrix[1][2]    0.003119 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.006238 
_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]    0.008845 
_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 3 ISY A 1 401 1 ISY ISY . 
D 4 GGS A 1 402 1 GGS GGS . 
E 5 MG A 1 403 1 MG MG . 
F 6 HOH A 1 501 130 HOH HOH . 
F 6 HOH A 2 502 20 HOH HOH . 
F 6 HOH A 3 503 82 HOH HOH . 
F 6 HOH A 4 504 58 HOH HOH . 
F 6 HOH A 5 505 116 HOH HOH . 
F 6 HOH A 6 506 13 HOH HOH . 
F 6 HOH A 7 507 56 HOH HOH . 
F 6 HOH A 8 508 98 HOH HOH . 
F 6 HOH A 9 509 46 HOH HOH . 
F 6 HOH A 10 510 2 HOH HOH . 
F 6 HOH A 11 511 73 HOH HOH . 
F 6 HOH A 12 512 103 HOH HOH . 
F 6 HOH A 13 513 107 HOH HOH . 
F 6 HOH A 14 514 10 HOH HOH . 
F 6 HOH A 15 515 15 HOH HOH . 
F 6 HOH A 16 516 38 HOH HOH . 
F 6 HOH A 17 517 67 HOH HOH . 
F 6 HOH A 18 518 94 HOH HOH . 
F 6 HOH A 19 519 27 HOH HOH . 
F 6 HOH A 20 520 48 HOH HOH . 
F 6 HOH A 21 521 90 HOH HOH . 
F 6 HOH A 22 522 37 HOH HOH . 
F 6 HOH A 23 523 39 HOH HOH . 
F 6 HOH A 24 524 40 HOH HOH . 
F 6 HOH A 25 525 78 HOH HOH . 
F 6 HOH A 26 526 63 HOH HOH . 
F 6 HOH A 27 527 33 HOH HOH . 
F 6 HOH A 28 528 62 HOH HOH . 
F 6 HOH A 29 529 18 HOH HOH . 
F 6 HOH A 30 530 5 HOH HOH . 
F 6 HOH A 31 531 47 HOH HOH . 
F 6 HOH A 32 532 14 HOH HOH . 
F 6 HOH A 33 533 72 HOH HOH . 
F 6 HOH A 34 534 30 HOH HOH . 
F 6 HOH A 35 535 112 HOH HOH . 
F 6 HOH A 36 536 42 HOH HOH . 
F 6 HOH A 37 537 71 HOH HOH . 
F 6 HOH A 38 538 87 HOH HOH . 
F 6 HOH A 39 539 93 HOH HOH . 
F 6 HOH A 40 540 26 HOH HOH . 
F 6 HOH A 41 541 102 HOH HOH . 
F 6 HOH A 42 542 21 HOH HOH . 
F 6 HOH A 43 543 28 HOH HOH . 
F 6 HOH A 44 544 95 HOH HOH . 
F 6 HOH A 45 545 55 HOH HOH . 
F 6 HOH A 46 546 17 HOH HOH . 
F 6 HOH A 47 547 108 HOH HOH . 
F 6 HOH A 48 548 124 HOH HOH . 
F 6 HOH A 49 549 118 HOH HOH . 
F 6 HOH A 50 550 68 HOH HOH . 
F 6 HOH A 51 551 76 HOH HOH . 
F 6 HOH A 52 552 127 HOH HOH . 
F 6 HOH A 53 553 74 HOH HOH . 
F 6 HOH A 54 554 88 HOH HOH . 
F 6 HOH A 55 555 54 HOH HOH . 
F 6 HOH A 56 556 128 HOH HOH . 
F 6 HOH A 57 557 114 HOH HOH . 
F 6 HOH A 58 558 34 HOH HOH . 
F 6 HOH A 59 559 50 HOH HOH . 
F 6 HOH A 60 560 91 HOH HOH . 
F 6 HOH A 61 561 117 HOH HOH . 
F 6 HOH A 62 562 19 HOH HOH . 
F 6 HOH A 63 563 79 HOH HOH . 
F 6 HOH A 64 564 65 HOH HOH . 
F 6 HOH A 65 565 22 HOH HOH . 
F 6 HOH A 66 566 123 HOH HOH . 
F 6 HOH A 67 567 115 HOH HOH . 
F 6 HOH A 68 568 64 HOH HOH . 
F 6 HOH A 69 569 99 HOH HOH . 
F 6 HOH A 70 570 57 HOH HOH . 
F 6 HOH A 71 571 77 HOH HOH . 
F 6 HOH A 72 572 120 HOH HOH . 
F 6 HOH A 73 573 49 HOH HOH . 
F 6 HOH A 74 574 60 HOH HOH . 
F 6 HOH A 75 575 92 HOH HOH . 
F 6 HOH A 76 576 81 HOH HOH . 
F 6 HOH A 77 577 111 HOH HOH . 
F 6 HOH A 78 578 97 HOH HOH . 
F 6 HOH A 79 579 80 HOH HOH . 
F 6 HOH A 80 580 110 HOH HOH . 
F 6 HOH A 81 581 89 HOH HOH . 
F 6 HOH A 82 582 70 HOH HOH . 
F 6 HOH A 83 583 52 HOH HOH . 
F 6 HOH A 84 584 121 HOH HOH . 
F 6 HOH A 85 585 59 HOH HOH . 
F 6 HOH A 86 586 126 HOH HOH . 
G 6 HOH B 1 301 106 HOH HOH . 
G 6 HOH B 2 302 66 HOH HOH . 
G 6 HOH B 3 303 11 HOH HOH . 
G 6 HOH B 4 304 75 HOH HOH . 
G 6 HOH B 5 305 41 HOH HOH . 
G 6 HOH B 6 306 16 HOH HOH . 
G 6 HOH B 7 307 1 HOH HOH . 
G 6 HOH B 8 308 8 HOH HOH . 
G 6 HOH B 9 309 25 HOH HOH . 
G 6 HOH B 10 310 9 HOH HOH . 
G 6 HOH B 11 311 86 HOH HOH . 
G 6 HOH B 12 312 44 HOH HOH . 
G 6 HOH B 13 313 4 HOH HOH . 
G 6 HOH B 14 314 6 HOH HOH . 
G 6 HOH B 15 315 12 HOH HOH . 
G 6 HOH B 16 316 84 HOH HOH . 
G 6 HOH B 17 317 43 HOH HOH . 
G 6 HOH B 18 318 7 HOH HOH . 
G 6 HOH B 19 319 23 HOH HOH . 
G 6 HOH B 20 320 61 HOH HOH . 
G 6 HOH B 21 321 122 HOH HOH . 
G 6 HOH B 22 322 45 HOH HOH . 
G 6 HOH B 23 323 85 HOH HOH . 
G 6 HOH B 24 324 83 HOH HOH . 
G 6 HOH B 25 325 24 HOH HOH . 
G 6 HOH B 26 326 36 HOH HOH . 
G 6 HOH B 27 327 119 HOH HOH . 
G 6 HOH B 28 328 29 HOH HOH . 
G 6 HOH B 29 329 51 HOH HOH . 
G 6 HOH B 30 330 3 HOH HOH . 
G 6 HOH B 31 331 100 HOH HOH . 
G 6 HOH B 32 332 32 HOH HOH . 
G 6 HOH B 33 333 129 HOH HOH . 
G 6 HOH B 34 334 96 HOH HOH . 
G 6 HOH B 35 335 113 HOH HOH . 
G 6 HOH B 36 336 105 HOH HOH . 
G 6 HOH B 37 337 109 HOH HOH . 
G 6 HOH B 38 338 31 HOH HOH . 
G 6 HOH B 39 339 125 HOH HOH . 
G 6 HOH B 40 340 53 HOH HOH . 
G 6 HOH B 41 341 35 HOH HOH . 
G 6 HOH B 42 342 104 HOH HOH . 
G 6 HOH B 43 343 101 HOH HOH . 
G 6 HOH B 44 344 69 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 GGS . . . D 4 29.505 117.729 27.033 1 53.67 ? C1 GGS 402 A 1 
HETATM 2 S S1 GGS . . . D 4 28.493 117.052 25.718 1 35.99 ? S1 GGS 402 A 1 
HETATM 3 C C2 GGS . . . D 4 28.808 118.929 27.63 1 61.54 ? C2 GGS 402 A 1 
HETATM 4 C C3 GGS . . . D 4 29.373 120.093 27.668 1 54.93 ? C3 GGS 402 A 1 
HETATM 5 C C4 GGS . . . D 4 30.773 120.285 27.112 1 46.99 ? C4 GGS 402 A 1 
HETATM 6 C C5 GGS . . . D 4 28.593 121.219 28.305 1 58.95 ? C5 GGS 402 A 1 
HETATM 7 C C6 GGS . . . D 4 27.753 121.949 27.273 1 62.26 ? C6 GGS 402 A 1 
HETATM 8 C C7 GGS . . . D 4 26.337 122.083 27.799 1 61.02 ? C7 GGS 402 A 1 
HETATM 9 C C8 GGS . . . D 4 25.773 123.258 27.923 1 60.33 ? C8 GGS 402 A 1 
HETATM 10 C C9 GGS . . . D 4 26.539 124.52 27.551 1 54.69 ? C9 GGS 402 A 1 
HETATM 11 P PA GGS . . . D 4 29.955 116.363 24.398 1 38.84 ? PA GGS 402 A 1 
HETATM 12 P PB GGS . . . D 4 29.606 113.878 23.135 1 43.2 ? PB GGS 402 A 1 
HETATM 13 C C10 GGS . . . D 4 24.352 123.343 28.441 1 60.6 ? C10 GGS 402 A 1 
HETATM 14 C C11 GGS . . . D 4 25.844 125.756 28.136 1 67.52 ? C11 GGS 402 A 1 
HETATM 15 C C12 GGS . . . D 4 25.663 125.568 29.636 1 73.19 ? C12 GGS 402 A 1 
HETATM 16 C C13 GGS . . . D 4 25.684 126.593 30.451 1 72.29 ? C13 GGS 402 A 1 
HETATM 17 C C14 GGS . . . D 4 25.5 126.388 31.945 1 70.29 ? C14 GGS 402 A 1 
HETATM 18 C C15 GGS . . . D 4 25.901 127.988 29.912 1 73.71 ? C15 GGS 402 A 1 
HETATM 19 C C16 GGS . . . D 4 27.397 128.237 29.909 1 66.21 ? C16 GGS 402 A 1 
HETATM 20 C C17 GGS . . . D 4 28.01 127.52 28.723 1 67.7 ? C17 GGS 402 A 1 
HETATM 21 C C18 GGS . . . D 4 29.302 127.292 28.698 1 67.9 ? C18 GGS 402 A 1 
HETATM 22 C C19 GGS . . . D 4 30.205 127.739 29.849 1 72.28 ? C19 GGS 402 A 1 
HETATM 23 O O1A GGS . . . D 4 30.966 115.593 25.149 1 37.55 ? O1A GGS 402 A 1 
HETATM 24 O O1B GGS . . . D 4 29.94 113.315 24.474 1 38.17 ? O1B GGS 402 A 1 
HETATM 25 C C20 GGS . . . D 4 29.897 126.57 27.496 1 58.88 ? C20 GGS 402 A 1 
HETATM 26 O O2A GGS . . . D 4 30.618 117.526 23.782 1 44.77 -1 O2A GGS 402 A 1 
HETATM 27 O O2B GGS . . . D 4 30.745 113.73 22.204 1 53.01 -1 O2B GGS 402 A 1 
HETATM 28 O O3A GGS . . . D 4 29.289 115.447 23.277 1 43.22 ? O3A GGS 402 A 1 
HETATM 29 O O3B GGS . . . D 4 28.449 113.215 22.532 1 35.14 -1 O3B GGS 402 A 1 
#
_model_server_stats.io_time_ms              14 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    16 
_model_server_stats.query_time_ms           224 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           29 
#