data_5IS7
#
_model_server_result.job_id            oXo9ZMsIOkAO6ttbNsI1_Q 
_model_server_result.datetime_utc      '2024-11-16 10:35:51' 
_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          5is7 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"M","auth_seq_id":502}' 
#
_entry.id    5IS7 
#
_exptl.entry_id    5IS7 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              340.401 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "5'-S-(3-aminopropyl)-5'-thioadenosine" 
_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            5IS7 
_cell.length_a            74.528 
_cell.length_b            98.935 
_cell.length_c            206.914 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5IS7 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        18 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 2' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_pdbx_struct_assembly.details               software_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 
_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 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 4 H N N 
? 4 K N N 
? 4 M N N 
? 4 O N N 
#
_chem_comp.formula           'C13 H20 N6 O3 S' 
_chem_comp.formula_weight    340.401 
_chem_comp.id                DSH 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "5'-S-(3-aminopropyl)-5'-thioadenosine" 
_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
N CA DSH sing 83 n n 
N1 C2 DSH doub 84 n y 
N1 C6 DSH sing 85 n y 
C2 N3 DSH sing 86 n y 
N3 C4 DSH doub 87 n y 
C4 C5 DSH sing 88 n y 
C4 N9 DSH sing 89 n y 
C5 C6 DSH doub 90 n y 
C5 N7 DSH sing 91 n y 
C6 N6 DSH sing 92 n n 
N7 C8 DSH doub 93 n y 
C8 N9 DSH sing 94 n y 
N9 C1' DSH sing 95 n n 
CA CB DSH sing 96 n n 
CB CG DSH sing 97 n n 
SD CG DSH sing 98 n n 
SD C5' DSH sing 99 n n 
C1' C2' DSH sing 100 n n 
C1' O4' DSH sing 101 n n 
C2' O2' DSH sing 102 n n 
C2' C3' DSH sing 103 n n 
C3' O3' DSH sing 104 n n 
C3' C4' DSH sing 105 n n 
C4' O4' DSH sing 106 n n 
C4' C5' DSH sing 107 n n 
N HN DSH sing 108 n n 
N HNA DSH sing 109 n n 
C2 H2 DSH sing 110 n n 
N6 HN6 DSH sing 111 n n 
N6 HN6A DSH sing 112 n n 
C8 H8 DSH sing 113 n n 
CA HA DSH sing 114 n n 
CB HB DSH sing 115 n n 
CG HG DSH sing 116 n n 
CG HGA DSH sing 117 n n 
C1' H1' DSH sing 118 n n 
C2' H2' DSH sing 119 n n 
O2' HO2' DSH sing 120 n n 
C3' H3' DSH sing 121 n n 
O3' HO3' DSH sing 122 n n 
C4' H4' DSH sing 123 n n 
C5' H5' DSH sing 124 n n 
C5' "H5'A" DSH sing 125 n n 
CA HAA DSH sing 126 n n 
CB HBA DSH sing 127 n n 
#
_atom_sites.entry_id                     5IS7 
_atom_sites.fract_transf_matrix[1][1]    0.013418 
_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]    0.010108 
_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]    0.004833 
_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 EDO A 1 501 4 EDO EDO . 
F 3 PEG A 1 502 6 PEG PEG . 
G 3 PEG A 1 503 7 PEG PEG . 
H 4 DSH A 1 504 1 DSH DSH . 
I 2 EDO B 1 501 2 EDO EDO . 
J 2 EDO B 1 502 3 EDO EDO . 
K 4 DSH B 1 503 2 DSH DSH . 
L 2 EDO C 1 501 1 EDO EDO . 
M 4 DSH C 1 502 3 DSH DSH . 
N 2 EDO D 1 501 5 EDO EDO . 
O 4 DSH D 1 502 4 DSH DSH . 
P 5 HOH A 1 601 30 HOH HOH . 
P 5 HOH A 2 602 12 HOH HOH . 
P 5 HOH A 3 603 104 HOH HOH . 
P 5 HOH A 4 604 94 HOH HOH . 
P 5 HOH A 5 605 37 HOH HOH . 
P 5 HOH A 6 606 79 HOH HOH . 
P 5 HOH A 7 607 35 HOH HOH . 
P 5 HOH A 8 608 65 HOH HOH . 
P 5 HOH A 9 609 31 HOH HOH . 
P 5 HOH A 10 610 119 HOH HOH . 
P 5 HOH A 11 611 28 HOH HOH . 
P 5 HOH A 12 612 74 HOH HOH . 
P 5 HOH A 13 613 106 HOH HOH . 
P 5 HOH A 14 614 8 HOH HOH . 
P 5 HOH A 15 615 6 HOH HOH . 
P 5 HOH A 16 616 105 HOH HOH . 
P 5 HOH A 17 617 26 HOH HOH . 
P 5 HOH A 18 618 111 HOH HOH . 
P 5 HOH A 19 619 96 HOH HOH . 
P 5 HOH A 20 620 5 HOH HOH . 
P 5 HOH A 21 621 39 HOH HOH . 
P 5 HOH A 22 622 13 HOH HOH . 
P 5 HOH A 23 623 101 HOH HOH . 
P 5 HOH A 24 624 80 HOH HOH . 
P 5 HOH A 25 625 23 HOH HOH . 
P 5 HOH A 26 626 46 HOH HOH . 
P 5 HOH A 27 627 48 HOH HOH . 
P 5 HOH A 28 628 10 HOH HOH . 
P 5 HOH A 29 629 83 HOH HOH . 
P 5 HOH A 30 630 18 HOH HOH . 
P 5 HOH A 31 631 9 HOH HOH . 
P 5 HOH A 32 632 42 HOH HOH . 
P 5 HOH A 33 633 52 HOH HOH . 
P 5 HOH A 34 634 4 HOH HOH . 
P 5 HOH A 35 635 103 HOH HOH . 
P 5 HOH A 36 636 45 HOH HOH . 
P 5 HOH A 37 637 38 HOH HOH . 
P 5 HOH A 38 638 21 HOH HOH . 
P 5 HOH A 39 639 60 HOH HOH . 
P 5 HOH A 40 640 86 HOH HOH . 
P 5 HOH A 41 641 36 HOH HOH . 
P 5 HOH A 42 642 25 HOH HOH . 
P 5 HOH A 43 643 116 HOH HOH . 
P 5 HOH A 44 644 57 HOH HOH . 
P 5 HOH A 45 645 81 HOH HOH . 
P 5 HOH A 46 646 99 HOH HOH . 
P 5 HOH A 47 647 67 HOH HOH . 
P 5 HOH A 48 648 118 HOH HOH . 
P 5 HOH A 49 649 63 HOH HOH . 
P 5 HOH A 50 650 114 HOH HOH . 
P 5 HOH A 51 651 120 HOH HOH . 
P 5 HOH A 52 652 91 HOH HOH . 
P 5 HOH A 53 653 115 HOH HOH . 
P 5 HOH A 54 654 59 HOH HOH . 
P 5 HOH A 55 655 40 HOH HOH . 
P 5 HOH A 56 656 82 HOH HOH . 
P 5 HOH A 57 657 117 HOH HOH . 
P 5 HOH A 58 658 84 HOH HOH . 
P 5 HOH A 59 659 100 HOH HOH . 
P 5 HOH A 60 660 53 HOH HOH . 
P 5 HOH A 61 661 110 HOH HOH . 
Q 5 HOH B 1 601 2 HOH HOH . 
Q 5 HOH B 2 602 3 HOH HOH . 
Q 5 HOH B 3 603 108 HOH HOH . 
Q 5 HOH B 4 604 107 HOH HOH . 
Q 5 HOH B 5 605 44 HOH HOH . 
Q 5 HOH B 6 606 77 HOH HOH . 
Q 5 HOH B 7 607 24 HOH HOH . 
Q 5 HOH B 8 608 49 HOH HOH . 
Q 5 HOH B 9 609 43 HOH HOH . 
Q 5 HOH B 10 610 71 HOH HOH . 
Q 5 HOH B 11 611 1 HOH HOH . 
Q 5 HOH B 12 612 33 HOH HOH . 
Q 5 HOH B 13 613 14 HOH HOH . 
Q 5 HOH B 14 614 15 HOH HOH . 
Q 5 HOH B 15 615 7 HOH HOH . 
Q 5 HOH B 16 616 95 HOH HOH . 
Q 5 HOH B 17 617 51 HOH HOH . 
Q 5 HOH B 18 618 58 HOH HOH . 
Q 5 HOH B 19 619 27 HOH HOH . 
Q 5 HOH B 20 620 47 HOH HOH . 
Q 5 HOH B 21 621 70 HOH HOH . 
Q 5 HOH B 22 622 56 HOH HOH . 
Q 5 HOH B 23 623 32 HOH HOH . 
Q 5 HOH B 24 624 98 HOH HOH . 
Q 5 HOH B 25 625 19 HOH HOH . 
Q 5 HOH B 26 626 92 HOH HOH . 
Q 5 HOH B 27 627 90 HOH HOH . 
Q 5 HOH B 28 628 34 HOH HOH . 
Q 5 HOH B 29 629 62 HOH HOH . 
Q 5 HOH B 30 630 54 HOH HOH . 
Q 5 HOH B 31 631 22 HOH HOH . 
Q 5 HOH B 32 632 88 HOH HOH . 
Q 5 HOH B 33 633 66 HOH HOH . 
Q 5 HOH B 34 634 85 HOH HOH . 
Q 5 HOH B 35 635 29 HOH HOH . 
Q 5 HOH B 36 636 73 HOH HOH . 
Q 5 HOH B 37 637 61 HOH HOH . 
Q 5 HOH B 38 638 55 HOH HOH . 
Q 5 HOH B 39 639 41 HOH HOH . 
Q 5 HOH B 40 640 113 HOH HOH . 
Q 5 HOH B 41 641 102 HOH HOH . 
Q 5 HOH B 42 642 75 HOH HOH . 
Q 5 HOH B 43 643 69 HOH HOH . 
Q 5 HOH B 44 644 76 HOH HOH . 
R 5 HOH C 1 601 50 HOH HOH . 
R 5 HOH C 2 602 11 HOH HOH . 
R 5 HOH C 3 603 64 HOH HOH . 
R 5 HOH C 4 604 17 HOH HOH . 
R 5 HOH C 5 605 16 HOH HOH . 
R 5 HOH C 6 606 72 HOH HOH . 
R 5 HOH C 7 607 78 HOH HOH . 
R 5 HOH C 8 608 97 HOH HOH . 
R 5 HOH C 9 609 68 HOH HOH . 
R 5 HOH C 10 610 93 HOH HOH . 
R 5 HOH C 11 611 87 HOH HOH . 
S 5 HOH D 1 601 109 HOH HOH . 
S 5 HOH D 2 602 89 HOH HOH . 
S 5 HOH D 3 603 112 HOH HOH . 
S 5 HOH D 4 604 20 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 N N DSH . . . M 4 22.668 29.946 178.792 1 123.75 ? N DSH 502 C 1 
HETATM 2 N N1 DSH . . . M 4 25.872 42.91 183.868 1 116.96 ? N1 DSH 502 C 1 
HETATM 3 C C2 DSH . . . M 4 25.976 42.821 182.538 1 118 ? C2 DSH 502 C 1 
HETATM 4 N N3 DSH . . . M 4 26.077 41.729 181.776 1 118.72 ? N3 DSH 502 C 1 
HETATM 5 C C4 DSH . . . M 4 26.062 40.62 182.523 1 119.45 ? C4 DSH 502 C 1 
HETATM 6 C C5 DSH . . . M 4 25.956 40.551 183.903 1 119.82 ? C5 DSH 502 C 1 
HETATM 7 C C6 DSH . . . M 4 25.862 41.773 184.596 1 118.52 ? C6 DSH 502 C 1 
HETATM 8 N N6 DSH . . . M 4 25.784 41.871 185.927 1 117.1 ? N6 DSH 502 C 1 
HETATM 9 N N7 DSH . . . M 4 25.967 39.232 184.331 1 118.26 ? N7 DSH 502 C 1 
HETATM 10 C C8 DSH . . . M 4 26.081 38.547 183.219 1 117.92 ? C8 DSH 502 C 1 
HETATM 11 N N9 DSH . . . M 4 26.149 39.319 182.09 1 116.95 ? N9 DSH 502 C 1 
HETATM 12 C CA DSH . . . M 4 22.635 31.428 178.817 1 122.08 ? CA DSH 502 C 1 
HETATM 13 C CB DSH . . . M 4 23.894 31.992 179.43 1 119.97 ? CB DSH 502 C 1 
HETATM 14 S SD DSH . . . M 4 24.794 34.558 178.799 1 112.88 ? SD DSH 502 C 1 
HETATM 15 C CG DSH . . . M 4 23.714 33.456 179.748 1 117.86 ? CG DSH 502 C 1 
HETATM 16 C C1' DSH . . . M 4 26.318 38.86 180.716 1 111.37 ? C1' DSH 502 C 1 
HETATM 17 C C2' DSH . . . M 4 27.566 38.015 180.485 1 109.35 ? C2' DSH 502 C 1 
HETATM 18 O O2' DSH . . . M 4 28.707 38.838 180.279 1 107.15 ? O2' DSH 502 C 1 
HETATM 19 C C3' DSH . . . M 4 27.159 37.255 179.223 1 111.48 ? C3' DSH 502 C 1 
HETATM 20 O O3' DSH . . . M 4 27.382 38.015 178.04 1 113.46 ? O3' DSH 502 C 1 
HETATM 21 C C4' DSH . . . M 4 25.667 37.007 179.45 1 111.05 ? C4' DSH 502 C 1 
HETATM 22 O O4' DSH . . . M 4 25.225 38.031 180.372 1 109.97 ? O4' DSH 502 C 1 
HETATM 23 C C5' DSH . . . M 4 25.466 35.644 180.081 1 110.48 ? C5' DSH 502 C 1 
HETATM 24 H HN DSH . . . M 4 21.786 29.548 179.098 1 148.5 ? HN DSH 502 C 1 
HETATM 25 H HNA DSH . . . M 4 23.392 29.59 179.408 1 148.5 ? HNA DSH 502 C 1 
HETATM 26 H H2 DSH . . . M 4 25.976 43.777 182.017 1 141.6 ? H2 DSH 502 C 1 
HETATM 27 H HN6 DSH . . . M 4 25.788 41.052 186.526 1 140.52 ? HN6 DSH 502 C 1 
HETATM 28 H HN6A DSH . . . M 4 25.718 42.784 186.365 1 140.52 ? HN6A DSH 502 C 1 
HETATM 29 H H8 DSH . . . M 4 26.118 37.458 183.197 1 141.51 ? H8 DSH 502 C 1 
HETATM 30 H HA DSH . . . M 4 21.757 31.761 179.369 1 146.49 ? HA DSH 502 C 1 
HETATM 31 H HB DSH . . . M 4 24.744 31.892 178.756 1 143.97 ? HB DSH 502 C 1 
HETATM 32 H HG DSH . . . M 4 23.902 33.653 180.803 1 141.43 ? HG DSH 502 C 1 
HETATM 33 H HGA DSH . . . M 4 22.679 33.753 179.588 1 141.43 ? HGA DSH 502 C 1 
HETATM 34 H H1' DSH . . . M 4 26.287 39.721 180.05 1 133.65 ? H1' DSH 502 C 1 
HETATM 35 H H2' DSH . . . M 4 27.751 37.324 181.306 1 131.23 ? H2' DSH 502 C 1 
HETATM 36 H HO2' DSH . . . M 4 28.579 39.31 179.414 1 128.58 ? HO2' DSH 502 C 1 
HETATM 37 H H3' DSH . . . M 4 27.705 36.316 179.137 1 133.77 ? H3' DSH 502 C 1 
HETATM 38 H HO3' DSH . . . M 4 27.034 38.927 178.218 1 136.15 ? HO3' DSH 502 C 1 
HETATM 39 H H4' DSH . . . M 4 25.05 37.146 178.563 1 133.26 ? H4' DSH 502 C 1 
HETATM 40 H H5' DSH . . . M 4 24.75 35.68 180.901 1 132.58 ? H5' DSH 502 C 1 
HETATM 41 H "H5'A" DSH . . . M 4 26.37 35.224 180.52 1 132.58 ? "H5'A" DSH 502 C 1 
HETATM 42 H HAA DSH . . . M 4 22.493 31.815 177.809 1 146.49 ? HAA DSH 502 C 1 
HETATM 43 H HBA DSH . . . M 4 24.167 31.468 180.345 1 143.97 ? HBA DSH 502 C 1 
HETATM 44 H H21 DSH . . . M 4 22.852 29.599 177.856 1 148.5 ? H21 DSH 502 C 1 
#
_model_server_stats.io_time_ms              37 
_model_server_stats.parse_time_ms           14 
_model_server_stats.create_model_time_ms    39 
_model_server_stats.query_time_ms           291 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           44 
#