data_5HC7
#
_model_server_result.job_id            IrcbPm8xOSoL-bAAjyf6Cw 
_model_server_result.datetime_utc      '2024-11-04 18:24:08' 
_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          5hc7 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":402}' 
#
_entry.id    5HC7 
#
_exptl.entry_id    5HC7 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              262.158 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'DIMETHYLALLYL S-THIOLODIPHOSPHATE' 
_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         90 
_cell.entry_id            5HC7 
_cell.length_a            54.392 
_cell.length_b            141.606 
_cell.length_c            78.918 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5HC7 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        20 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'C 2 2 21' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_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 
_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' 3_454 -x-1,y,-z-1/2 -1 0 0 0 1 0 0 0 -1 -54.392 0 -39.459 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 3 C N N 
? 3 D 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
metalc ? metalc1 A OD1 ASP 21 A ASP 76 1_555 B MG MG . A MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.347 ? 
metalc ? metalc2 B MG MG . A MG 401 1_555 C O7 DST . A DST 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.068 ? 
metalc ? metalc3 B MG MG . A MG 401 1_555 D O4 DST . A DST 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.002 ? 
metalc ? metalc4 B MG MG . A MG 401 1_555 E O HOH . A HOH 510 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.197 ? 
#
_chem_comp.formula           'C5 H12 O6 P2 S' 
_chem_comp.formula_weight    262.158 
_chem_comp.id                DST 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'DIMETHYLALLYL S-THIOLODIPHOSPHATE' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     'DMASPP;DMAPP;DMADP;Dimethylallyl pyrophosphate;dimethylallyl diphosphate;isoprenyl pyrophosphate' 
#
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
O4 P1 DST sing 83 n n 
O4 HO4 DST sing 84 n n 
P1 O6 DST sing 85 n n 
P1 O5 DST doub 86 n n 
P1 O2 DST sing 87 n n 
O6 HO6 DST sing 88 n n 
O2 P3 DST sing 89 n n 
P3 O8 DST sing 90 n n 
P3 O7 DST doub 91 n n 
P3 S9 DST sing 92 n n 
O8 HO8 DST sing 93 n n 
S9 C10 DST sing 94 n n 
C10 C11 DST sing 95 n n 
C10 H101 DST sing 96 n n 
C10 H102 DST sing 97 n n 
C11 C12 DST doub 98 n n 
C11 H111 DST sing 99 n n 
C12 C13 DST sing 100 n n 
C12 C14 DST sing 101 n n 
C13 H131 DST sing 102 n n 
C13 H132 DST sing 103 n n 
C13 H133 DST sing 104 n n 
C14 H141 DST sing 105 n n 
C14 H142 DST sing 106 n n 
C14 H143 DST sing 107 n n 
#
_atom_sites.entry_id                     5HC7 
_atom_sites.fract_transf_matrix[1][1]    0.018385 
_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]    0.007062 
_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]    0.012671 
_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
B 2 MG A 1 401 1 MG MG . 
C 3 DST A 1 402 1 DST ISP . 
D 3 DST A 1 403 2 DST ISP . 
E 4 HOH A 1 501 54 HOH HOH . 
E 4 HOH A 2 502 58 HOH HOH . 
E 4 HOH A 3 503 59 HOH HOH . 
E 4 HOH A 4 504 31 HOH HOH . 
E 4 HOH A 5 505 30 HOH HOH . 
E 4 HOH A 6 506 40 HOH HOH . 
E 4 HOH A 7 507 32 HOH HOH . 
E 4 HOH A 8 508 36 HOH HOH . 
E 4 HOH A 9 509 45 HOH HOH . 
E 4 HOH A 10 510 11 HOH HOH . 
E 4 HOH A 11 511 25 HOH HOH . 
E 4 HOH A 12 512 42 HOH HOH . 
E 4 HOH A 13 513 20 HOH HOH . 
E 4 HOH A 14 514 43 HOH HOH . 
E 4 HOH A 15 515 55 HOH HOH . 
E 4 HOH A 16 516 2 HOH HOH . 
E 4 HOH A 17 517 3 HOH HOH . 
E 4 HOH A 18 518 16 HOH HOH . 
E 4 HOH A 19 519 19 HOH HOH . 
E 4 HOH A 20 520 13 HOH HOH . 
E 4 HOH A 21 521 34 HOH HOH . 
E 4 HOH A 22 522 10 HOH HOH . 
E 4 HOH A 23 523 68 HOH HOH . 
E 4 HOH A 24 524 4 HOH HOH . 
E 4 HOH A 25 525 6 HOH HOH . 
E 4 HOH A 26 526 8 HOH HOH . 
E 4 HOH A 27 527 33 HOH HOH . 
E 4 HOH A 28 528 24 HOH HOH . 
E 4 HOH A 29 529 22 HOH HOH . 
E 4 HOH A 30 530 29 HOH HOH . 
E 4 HOH A 31 531 46 HOH HOH . 
E 4 HOH A 32 532 73 HOH HOH . 
E 4 HOH A 33 533 39 HOH HOH . 
E 4 HOH A 34 534 71 HOH HOH . 
E 4 HOH A 35 535 28 HOH HOH . 
E 4 HOH A 36 536 17 HOH HOH . 
E 4 HOH A 37 537 5 HOH HOH . 
E 4 HOH A 38 538 14 HOH HOH . 
E 4 HOH A 39 539 15 HOH HOH . 
E 4 HOH A 40 540 23 HOH HOH . 
E 4 HOH A 41 541 9 HOH HOH . 
E 4 HOH A 42 542 51 HOH HOH . 
E 4 HOH A 43 543 41 HOH HOH . 
E 4 HOH A 44 544 27 HOH HOH . 
E 4 HOH A 45 545 7 HOH HOH . 
E 4 HOH A 46 546 48 HOH HOH . 
E 4 HOH A 47 547 74 HOH HOH . 
E 4 HOH A 48 548 75 HOH HOH . 
E 4 HOH A 49 549 35 HOH HOH . 
E 4 HOH A 50 550 18 HOH HOH . 
E 4 HOH A 51 551 60 HOH HOH . 
E 4 HOH A 52 552 44 HOH HOH . 
E 4 HOH A 53 553 67 HOH HOH . 
E 4 HOH A 54 554 38 HOH HOH . 
E 4 HOH A 55 555 21 HOH HOH . 
E 4 HOH A 56 556 12 HOH HOH . 
E 4 HOH A 57 557 37 HOH HOH . 
E 4 HOH A 58 558 78 HOH HOH . 
E 4 HOH A 59 559 57 HOH HOH . 
E 4 HOH A 60 560 61 HOH HOH . 
E 4 HOH A 61 561 72 HOH HOH . 
E 4 HOH A 62 562 77 HOH HOH . 
E 4 HOH A 63 563 69 HOH HOH . 
E 4 HOH A 64 564 79 HOH HOH . 
E 4 HOH A 65 565 49 HOH HOH . 
E 4 HOH A 66 566 64 HOH HOH . 
E 4 HOH A 67 567 50 HOH HOH . 
E 4 HOH A 68 568 1 HOH HOH . 
E 4 HOH A 69 569 62 HOH HOH . 
E 4 HOH A 70 570 65 HOH HOH . 
E 4 HOH A 71 571 52 HOH HOH . 
E 4 HOH A 72 572 53 HOH HOH . 
E 4 HOH A 73 573 63 HOH HOH . 
E 4 HOH A 74 574 70 HOH HOH . 
E 4 HOH A 75 575 76 HOH HOH . 
E 4 HOH A 76 576 47 HOH HOH . 
E 4 HOH A 77 577 56 HOH HOH . 
E 4 HOH A 78 578 26 HOH HOH . 
E 4 HOH A 79 579 66 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 O4 DST . . . C 3 -14.184 -12.655 -20.168 1 53.35 ? O4 DST 402 A 1 
HETATM 2 P P1 DST . . . C 3 -13.884 -14.131 -20.624 1 50.26 ? P1 DST 402 A 1 
HETATM 3 O O6 DST . . . C 3 -12.611 -14.343 -21.326 1 65.65 ? O6 DST 402 A 1 
HETATM 4 O O5 DST . . . C 3 -15.152 -14.786 -21.564 1 46.97 ? O5 DST 402 A 1 
HETATM 5 O O2 DST . . . C 3 -13.657 -14.95 -19.253 1 71.24 ? O2 DST 402 A 1 
HETATM 6 P P3 DST . . . C 3 -12.804 -14.522 -17.885 1 70.4 ? P3 DST 402 A 1 
HETATM 7 O O8 DST . . . C 3 -11.81 -15.834 -17.568 1 76.03 ? O8 DST 402 A 1 
HETATM 8 O O7 DST . . . C 3 -12.06 -13.209 -17.865 1 56.48 ? O7 DST 402 A 1 
HETATM 9 S S9 DST . . . C 3 -14.298 -14.755 -16.417 1 62.37 ? S9 DST 402 A 1 
HETATM 10 C C10 DST . . . C 3 -13.41 -16.331 -15.995 1 63.73 ? C10 DST 402 A 1 
HETATM 11 C C11 DST . . . C 3 -14.111 -16.896 -14.856 1 64.09 ? C11 DST 402 A 1 
HETATM 12 C C12 DST . . . C 3 -13.508 -16.388 -13.551 1 63.79 ? C12 DST 402 A 1 
HETATM 13 C C13 DST . . . C 3 -14.591 -15.639 -12.714 1 61.22 ? C13 DST 402 A 1 
HETATM 14 C C14 DST . . . C 3 -13.037 -17.59 -12.753 1 66.29 ? C14 DST 402 A 1 
#
_model_server_stats.io_time_ms              6 
_model_server_stats.parse_time_ms           14 
_model_server_stats.create_model_time_ms    11 
_model_server_stats.query_time_ms           246 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           14 
#