data_9B0E
#
_model_server_result.job_id            z7yGlqfXdYn10-3KAdG36w 
_model_server_result.datetime_utc      '2024-10-12 03:23:08' 
_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          9b0e 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":1102}' 
#
_entry.id    9B0E 
#
_exptl.entry_id    9B0E 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              1050.772 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '[[(2~{R},3~{S},4~{S},5~{R})-5-(6-aminopurin-9-yl)-4-oxidanyl-3-phosphonooxy-oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(3~{R})-4-[[3-[2-[2-[[1-[(2~{R},3~{S},4~{R},5~{R})-5-(hydroxymethyl)-3,4-bis(oxidanyl)oxolan-2-yl]-2-oxidanylidene-pyrimidin-4-yl]amino]-2-oxidanylidene-ethyl]sulfanylethylamino]-3-oxidanylidene-propyl]amino]-2,2-dimethyl-3-oxidanyl-4-oxidanylidene-butyl] hydrogen phosphate' 
_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            9B0E 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 9B0E 
_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    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_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 
_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
? 3 D N N 
? 3 F N N 
#
_chem_comp.formula           'C32 H49 N10 O22 P3 S' 
_chem_comp.formula_weight    1050.772 
_chem_comp.id                A1AH4 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '[[(2~{R},3~{S},4~{S},5~{R})-5-(6-aminopurin-9-yl)-4-oxidanyl-3-phosphonooxy-oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(3~{R})-4-[[3-[2-[2-[[1-[(2~{R},3~{S},4~{R},5~{R})-5-(hydroxymethyl)-3,4-bis(oxidanyl)oxolan-2-yl]-2-oxidanylidene-pyrimidin-4-yl]amino]-2-oxidanylidene-ethyl]sulfanylethylamino]-3-oxidanylidene-propyl]amino]-2,2-dimethyl-3-oxidanyl-4-oxidanylidene-butyl] hydrogen phosphate' 
_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
C32 C29 A1AH4 sing 1 n n 
C32 O22 A1AH4 sing 2 n n 
O20 C30 A1AH4 sing 3 n n 
C29 C30 A1AH4 sing 4 n n 
C29 O19 A1AH4 sing 5 n n 
C30 C31 A1AH4 sing 6 n n 
O19 C28 A1AH4 sing 7 n n 
C31 O21 A1AH4 sing 8 n n 
C31 C28 A1AH4 sing 9 n n 
N7 C22 A1AH4 sing 10 n n 
C28 N10 A1AH4 sing 11 n n 
CAA C5 A1AH4 sing 12 n n 
CAA N3 A1AH4 sing 13 n n 
C5 C6 A1AH4 sing 14 n n 
C26 N10 A1AH4 sing 15 n n 
C26 C27 A1AH4 doub 16 n n 
N10 C25 A1AH4 sing 17 n n 
C22 NAA A1AH4 doub 18 n y 
C22 C21 A1AH4 sing 19 n y 
OP3 C7 A1AH4 doub 20 n n 
O1 C6 A1AH4 doub 21 n n 
NAA C19 A1AH4 sing 22 n y 
N3 C7 A1AH4 sing 23 n n 
C6 N6 A1AH4 sing 24 n n 
N5 C21 A1AH4 sing 25 n y 
N5 C20 A1AH4 doub 26 n y 
C21 C8 A1AH4 doub 27 n y 
C27 C24 A1AH4 sing 28 n n 
C7 CAB A1AH4 sing 29 n n 
C11 C9 A1AH4 sing 30 n n 
C25 O18 A1AH4 doub 31 n n 
C25 NAB A1AH4 sing 32 n n 
O5 P1 A1AH4 doub 33 n n 
C19 N4 A1AH4 doub 34 n y 
C20 N9 A1AH4 sing 35 n y 
N6 C2 A1AH4 sing 36 n n 
C24 NAB A1AH4 doub 37 n n 
C24 N8 A1AH4 sing 38 n n 
C8 N4 A1AH4 sing 39 n y 
C8 N9 A1AH4 sing 40 n y 
CAB C9 A1AH4 sing 41 n n 
CAB O3 A1AH4 sing 42 n n 
C9 C10 A1AH4 sing 43 n n 
C9 C12 A1AH4 sing 44 n n 
O4 P1 A1AH4 sing 45 n n 
O4 C12 A1AH4 sing 46 n n 
N9 C1' A1AH4 sing 47 n n 
P1 OP1 A1AH4 sing 48 n n 
P1 O7 A1AH4 sing 49 n n 
C2 C3 A1AH4 sing 50 n n 
C3 S1 A1AH4 sing 51 n n 
O17 C23 A1AH4 doub 52 n n 
N8 C23 A1AH4 sing 53 n n 
O2' C2' A1AH4 sing 54 n n 
C23 C4 A1AH4 sing 55 n n 
O7 P2 A1AH4 sing 56 n n 
OP2 P3 A1AH4 doub 57 n n 
C1' C2' A1AH4 sing 58 n n 
C1' O4' A1AH4 sing 59 n n 
O9 P2 A1AH4 doub 60 n n 
C2' C3' A1AH4 sing 61 n n 
C3' C4' A1AH4 sing 62 n n 
C3' O3' A1AH4 sing 63 n n 
O4' C4' A1AH4 sing 64 n n 
S1 C4 A1AH4 sing 65 n n 
P2 O5' A1AH4 sing 66 n n 
P2 O8 A1AH4 sing 67 n n 
C5' C4' A1AH4 sing 68 n n 
C5' O5' A1AH4 sing 69 n n 
P3 O13 A1AH4 sing 70 n n 
P3 O3' A1AH4 sing 71 n n 
P3 O14 A1AH4 sing 72 n n 
N3 H1 A1AH4 sing 73 n n 
C4 H2 A1AH4 sing 74 n n 
C4 H3 A1AH4 sing 75 n n 
C5 H4 A1AH4 sing 76 n n 
C5 H5 A1AH4 sing 77 n n 
C10 H6 A1AH4 sing 78 n n 
C10 H7 A1AH4 sing 79 n n 
C10 H8 A1AH4 sing 80 n n 
C20 H9 A1AH4 sing 81 n n 
C26 H10 A1AH4 sing 82 n n 
C28 H11 A1AH4 sing 83 n n 
C1' H12 A1AH4 sing 84 n n 
C11 H13 A1AH4 sing 85 n n 
C11 H14 A1AH4 sing 86 n n 
C11 H15 A1AH4 sing 87 n n 
C12 H16 A1AH4 sing 88 n n 
C12 H17 A1AH4 sing 89 n n 
C19 H18 A1AH4 sing 90 n n 
C2 H19 A1AH4 sing 91 n n 
C2 H20 A1AH4 sing 92 n n 
C2' H21 A1AH4 sing 93 n n 
C27 H22 A1AH4 sing 94 n n 
C29 H23 A1AH4 sing 95 n n 
C3 H24 A1AH4 sing 96 n n 
C3 H25 A1AH4 sing 97 n n 
C3' H26 A1AH4 sing 98 n n 
C30 H27 A1AH4 sing 99 n n 
C31 H28 A1AH4 sing 100 n n 
C32 H29 A1AH4 sing 101 n n 
C32 H30 A1AH4 sing 102 n n 
C4' H31 A1AH4 sing 103 n n 
C5' H32 A1AH4 sing 104 n n 
C5' H33 A1AH4 sing 105 n n 
CAA H34 A1AH4 sing 106 n n 
CAA H35 A1AH4 sing 107 n n 
CAB H36 A1AH4 sing 108 n n 
N6 H37 A1AH4 sing 109 n n 
N7 H38 A1AH4 sing 110 n n 
N7 H39 A1AH4 sing 111 n n 
N8 H40 A1AH4 sing 112 n n 
O13 H41 A1AH4 sing 113 n n 
O14 H42 A1AH4 sing 114 n n 
O2' H43 A1AH4 sing 115 n n 
O20 H44 A1AH4 sing 116 n n 
O21 H45 A1AH4 sing 117 n n 
O22 H46 A1AH4 sing 118 n n 
O3 H47 A1AH4 sing 119 n n 
O8 H48 A1AH4 sing 120 n n 
OP1 H49 A1AH4 sing 121 n n 
#
_atom_sites.entry_id                     9B0E 
_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
C 2 ADP A 1 1101 1001 ADP ADP . 
D 3 A1AH4 A 1 1102 1002 A1AH4 LIG . 
E 2 ADP B 1 1101 1001 ADP ADP . 
F 3 A1AH4 B 1 1102 1002 A1AH4 LIG . 
#
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 N3 A1AH4 . . . D 3 118.011 150.48 155.33 1 104.27 ? N3 A1AH4 1102 A 1 
HETATM 2 C C4 A1AH4 . . . D 3 119.852 143.668 159.787 1 107.59 ? C4 A1AH4 1102 A 1 
HETATM 3 C C5 A1AH4 . . . D 3 118.117 148.314 154.186 1 106.76 ? C5 A1AH4 1102 A 1 
HETATM 4 C C6 A1AH4 . . . D 3 119.042 147.859 155.337 1 108.01 ? C6 A1AH4 1102 A 1 
HETATM 5 C C7 A1AH4 . . . D 3 116.68 151.028 155.655 1 111.85 ? C7 A1AH4 1102 A 1 
HETATM 6 C C8 A1AH4 . . . D 3 120.464 155.928 156.972 1 115.29 ? C8 A1AH4 1102 A 1 
HETATM 7 C C10 A1AH4 . . . D 3 118.565 152.84 157.707 1 117.04 ? C10 A1AH4 1102 A 1 
HETATM 8 C C20 A1AH4 . . . D 3 119.173 157.686 156.719 1 116.94 ? C20 A1AH4 1102 A 1 
HETATM 9 C C21 A1AH4 . . . D 3 120.149 155.986 155.632 1 116.84 ? C21 A1AH4 1102 A 1 
HETATM 10 C C22 A1AH4 . . . D 3 120.638 155.047 154.795 1 115.7 ? C22 A1AH4 1102 A 1 
HETATM 11 C C24 A1AH4 . . . D 3 122.466 142.936 156.914 1 114.68 ? C24 A1AH4 1102 A 1 
HETATM 12 C C26 A1AH4 . . . D 3 123.087 143.057 154.525 1 115.19 ? C26 A1AH4 1102 A 1 
HETATM 13 C C28 A1AH4 . . . D 3 124.241 141.148 153.463 1 115.98 ? C28 A1AH4 1102 A 1 
HETATM 14 C C1' A1AH4 . . . D 3 119.982 157.184 158.939 1 112.41 ? C1' A1AH4 1102 A 1 
HETATM 15 C C11 A1AH4 . . . D 3 117.263 153.7 155.72 1 111.07 ? C11 A1AH4 1102 A 1 
HETATM 16 C C12 A1AH4 . . . D 3 116.327 153.98 158.056 1 108.34 ? C12 A1AH4 1102 A 1 
HETATM 17 C C19 A1AH4 . . . D 3 121.727 154.021 156.596 1 112.41 ? C19 A1AH4 1102 A 1 
HETATM 18 C C2 A1AH4 . . . D 3 119.456 147.527 157.835 1 112.46 ? C2 A1AH4 1102 A 1 
HETATM 19 C C2' A1AH4 . . . D 3 120.649 158.481 159.235 1 112.15 ? C2' A1AH4 1102 A 1 
HETATM 20 C C23 A1AH4 . . . D 3 120.546 143.055 158.549 1 113.1 ? C23 A1AH4 1102 A 1 
HETATM 21 C C25 A1AH4 . . . D 3 123.61 141.058 155.839 1 115.47 ? C25 A1AH4 1102 A 1 
HETATM 22 C C27 A1AH4 . . . D 3 122.5 143.653 155.655 1 112.64 ? C27 A1AH4 1102 A 1 
HETATM 23 C C29 A1AH4 . . . D 3 123.948 141.945 151.224 1 117.12 ? C29 A1AH4 1102 A 1 
HETATM 24 C C3 A1AH4 . . . D 3 119.451 145.98 157.937 1 113.1 ? C3 A1AH4 1102 A 1 
HETATM 25 C C3' A1AH4 . . . D 3 119.573 159.422 159.548 1 116.67 ? C3' A1AH4 1102 A 1 
HETATM 26 C C30 A1AH4 . . . D 3 123.201 140.67 151.365 1 117.65 ? C30 A1AH4 1102 A 1 
HETATM 27 C C31 A1AH4 . . . D 3 123.272 140.257 152.767 1 116.96 ? C31 A1AH4 1102 A 1 
HETATM 28 C C32 A1AH4 . . . D 3 123 143.073 150.953 1 114.67 ? C32 A1AH4 1102 A 1 
HETATM 29 C C4' A1AH4 . . . D 3 118.516 158.596 160.174 1 114.31 ? C4' A1AH4 1102 A 1 
HETATM 30 C C5' A1AH4 . . . D 3 117.165 159.187 159.901 1 111.48 ? C5' A1AH4 1102 A 1 
HETATM 31 C C9 A1AH4 . . . D 3 117.149 153.044 157.119 1 109.65 ? C9 A1AH4 1102 A 1 
HETATM 32 C CAA A1AH4 . . . D 3 118.243 149.851 154.019 1 107.63 ? CAA A1AH4 1102 A 1 
HETATM 33 C CAB A1AH4 . . . D 3 116.43 151.677 157.021 1 111.08 ? CAB A1AH4 1102 A 1 
HETATM 34 N N10 A1AH4 . . . D 3 123.644 141.751 154.613 1 118.78 ? N10 A1AH4 1102 A 1 
HETATM 35 N N4 A1AH4 . . . D 3 121.24 154.969 157.471 1 111.21 ? N4 A1AH4 1102 A 1 
HETATM 36 N N5 A1AH4 . . . D 3 119.253 157.198 155.413 1 114.51 ? N5 A1AH4 1102 A 1 
HETATM 37 N N6 A1AH4 . . . D 3 118.581 147.955 156.731 1 105.71 ? N6 A1AH4 1102 A 1 
HETATM 38 N N7 A1AH4 . . . D 3 120.313 155.096 153.37 1 114.64 ? N7 A1AH4 1102 A 1 
HETATM 39 N N8 A1AH4 . . . D 3 121.851 143.554 158.096 1 115.8 ? N8 A1AH4 1102 A 1 
HETATM 40 N N9 A1AH4 . . . D 3 119.877 156.933 157.53 1 117.42 ? N9 A1AH4 1102 A 1 
HETATM 41 N NAA A1AH4 . . . D 3 121.412 154.082 155.264 1 114.1 ? NAA A1AH4 1102 A 1 
HETATM 42 N NAB A1AH4 . . . D 3 123.003 141.675 157.004 1 113.67 ? NAB A1AH4 1102 A 1 
HETATM 43 O O1 A1AH4 . . . D 3 120.126 147.437 155.094 1 117.96 ? O1 A1AH4 1102 A 1 
HETATM 44 O O13 A1AH4 . . . D 3 119.813 163.446 160.398 1 123.81 ? O13 A1AH4 1102 A 1 
HETATM 45 O O14 A1AH4 . . . D 3 118.311 162.24 160.848 1 121.1 ? O14 A1AH4 1102 A 1 
HETATM 46 O O17 A1AH4 . . . D 3 120.026 142.171 157.951 1 114.12 ? O17 A1AH4 1102 A 1 
HETATM 47 O O18 A1AH4 . . . D 3 124.157 139.772 155.934 1 114.79 ? O18 A1AH4 1102 A 1 
HETATM 48 O O19 A1AH4 . . . D 3 124.679 142.209 152.501 1 117.53 ? O19 A1AH4 1102 A 1 
HETATM 49 O O2' A1AH4 . . . D 3 121.425 158.95 158.1 1 115.61 ? O2' A1AH4 1102 A 1 
HETATM 50 O O20 A1AH4 . . . D 3 121.809 140.858 150.982 1 116.72 ? O20 A1AH4 1102 A 1 
HETATM 51 O O21 A1AH4 . . . D 3 121.957 140.371 153.371 1 118.31 ? O21 A1AH4 1102 A 1 
HETATM 52 O O22 A1AH4 . . . D 3 123.482 144.249 151.562 1 115.16 ? O22 A1AH4 1102 A 1 
HETATM 53 O O3 A1AH4 . . . D 3 115.069 151.87 157.199 1 111.94 ? O3 A1AH4 1102 A 1 
HETATM 54 O O3' A1AH4 . . . D 3 120.025 160.459 160.464 1 116.51 ? O3' A1AH4 1102 A 1 
HETATM 55 O O4 A1AH4 . . . D 3 115.1 154.307 157.427 1 101.15 ? O4 A1AH4 1102 A 1 
HETATM 56 O O4' A1AH4 . . . D 3 118.617 157.241 159.555 1 115.54 ? O4' A1AH4 1102 A 1 
HETATM 57 O O5 A1AH4 . . . D 3 114.247 156.538 156.432 1 117.31 ? O5 A1AH4 1102 A 1 
HETATM 58 O O5' A1AH4 . . . D 3 116.188 158.469 160.646 1 104.95 ? O5' A1AH4 1102 A 1 
HETATM 59 O O7 A1AH4 . . . D 3 115.485 156.691 158.696 1 103.08 ? O7 A1AH4 1102 A 1 
HETATM 60 O O8 A1AH4 . . . D 3 113.965 157.151 160.727 1 112.29 ? O8 A1AH4 1102 A 1 
HETATM 61 O O9 A1AH4 . . . D 3 114.087 158.798 159.184 1 117.75 ? O9 A1AH4 1102 A 1 
HETATM 62 O OP1 A1AH4 . . . D 3 113.121 155.769 158.233 1 110.9 ? OP1 A1AH4 1102 A 1 
HETATM 63 O OP2 A1AH4 . . . D 3 120.096 162.319 158.798 1 116.82 ? OP2 A1AH4 1102 A 1 
HETATM 64 O OP3 A1AH4 . . . D 3 115.803 150.958 154.859 1 113.25 ? OP3 A1AH4 1102 A 1 
HETATM 65 P P1 A1AH4 . . . D 3 114.479 155.83 157.691 1 99.4 ? P1 A1AH4 1102 A 1 
HETATM 66 P P2 A1AH4 . . . D 3 114.921 157.779 159.816 1 109.98 ? P2 A1AH4 1102 A 1 
HETATM 67 P P3 A1AH4 . . . D 3 119.569 162.026 160.132 1 136.84 ? P3 A1AH4 1102 A 1 
HETATM 68 S S1 A1AH4 . . . D 3 119.85 145.493 159.654 1 104.89 ? S1 A1AH4 1102 A 1 
#
_model_server_stats.io_time_ms              11 
_model_server_stats.parse_time_ms           22 
_model_server_stats.create_model_time_ms    14 
_model_server_stats.query_time_ms           287 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           68 
#