data_5ZOI # _model_server_result.job_id Xu0Cky_a40dzS3RDQPMZlQ _model_server_result.datetime_utc '2025-01-09 19:21:43' _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 5zoi # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":501}' # _entry.id 5ZOI # _exptl.entry_id 5ZOI _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 589.342 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '[[(2S,3R,4S,5R)-5-(2-azanyl-6-oxidanylidene-1H-purin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(2S,3S,4S,5R,6R)-6-methyl-3,4,5-tris(oxidanyl)oxan-2-yl] 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 120 _cell.entry_id 5ZOI _cell.length_a 121.664 _cell.length_b 121.664 _cell.length_c 64.718 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5ZOI _symmetry.cell_setting ? _symmetry.Int_Tables_number 145 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32' # _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 _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 ? 2 C N N ? 2 D N N # _chem_comp.formula 'C16 H25 N5 O15 P2' _chem_comp.formula_weight 589.342 _chem_comp.id C06 _chem_comp.mon_nstd_flag . _chem_comp.name '[[(2S,3R,4S,5R)-5-(2-azanyl-6-oxidanylidene-1H-purin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(2S,3S,4S,5R,6R)-6-methyl-3,4,5-tris(oxidanyl)oxan-2-yl] 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 C C1 C06 sing 70 n n C1 O C06 sing 71 n n C1 C2 C06 sing 72 n n O3 P C06 doub 73 n n O14 C2 C06 sing 74 n n N4 C14 C06 sing 75 n n O11 C8 C06 sing 76 n n O C5 C06 sing 77 n n O10 C9 C06 sing 78 n n C2 C3 C06 sing 79 n n C14 N3 C06 sing 80 n n C14 N2 C06 doub 81 n n N3 C15 C06 sing 82 n n O4 P C06 sing 83 n n O4 P1 C06 sing 84 n n P O2 C06 sing 85 n n P O1 C06 sing 86 n n N2 C13 C06 sing 87 n n C8 C9 C06 sing 88 n n C8 C7 C06 sing 89 n n C9 C10 C06 sing 90 n n C5 O1 C06 sing 91 n n C5 C4 C06 sing 92 n n C15 O9 C06 doub 93 n n C15 C12 C06 sing 94 n n C3 O13 C06 sing 95 n n C3 C4 C06 sing 96 n n O7 P1 C06 sing 97 n n O7 C6 C06 sing 98 n n C13 C12 C06 doub 99 n y C13 N C06 sing 100 n y C7 C6 C06 sing 101 n n C7 O8 C06 sing 102 n n C12 N1 C06 sing 103 n y C4 O12 C06 sing 104 n n P1 O5 C06 doub 105 n n P1 O6 C06 sing 106 n n C10 N C06 sing 107 n n C10 O8 C06 sing 108 n n N C11 C06 sing 109 n y N1 C11 C06 doub 110 n y C4 H1 C06 sing 111 n n C5 H2 C06 sing 112 n n C6 H3 C06 sing 113 n n C6 H4 C06 sing 114 n n C7 H5 C06 sing 115 n n C8 H6 C06 sing 116 n n C9 H7 C06 sing 117 n n C10 H8 C06 sing 118 n n O6 H9 C06 sing 119 n n C11 H10 C06 sing 120 n n N3 H11 C06 sing 121 n n N4 H12 C06 sing 122 n n N4 H13 C06 sing 123 n n C H14 C06 sing 124 n n C H15 C06 sing 125 n n C H16 C06 sing 126 n n C1 H17 C06 sing 127 n n C2 H18 C06 sing 128 n n O2 H19 C06 sing 129 n n C3 H20 C06 sing 130 n n O10 H21 C06 sing 131 n n O11 H22 C06 sing 132 n n O12 H23 C06 sing 133 n n O13 H24 C06 sing 134 n n O14 H25 C06 sing 135 n n # _atom_sites.entry_id 5ZOI _atom_sites.fract_transf_matrix[1][1] 0.008219 _atom_sites.fract_transf_matrix[1][2] 0.004745 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009491 _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] 0.015452 _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 C06 A 1 501 501 C06 C06 . D 2 C06 B 1 501 501 C06 C06 . # 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 O3 C06 . . . C 2 3.572 -22.653 6.217 1 20 ? O3 C06 501 A 1 HETATM 2 C C4 C06 . . . C 2 1.917 -25.999 8.869 1 20 ? C4 C06 501 A 1 HETATM 3 C C5 C06 . . . C 2 2.924 -25.268 7.979 1 20 ? C5 C06 501 A 1 HETATM 4 O O4 C06 . . . C 2 5.599 -23.656 7.564 1 20 ? O4 C06 501 A 1 HETATM 5 C C6 C06 . . . C 2 8.724 -25.253 9.408 1 20 ? C6 C06 501 A 1 HETATM 6 N N1 C06 . . . C 2 14.603 -28.888 9.67 1 20 ? N1 C06 501 A 1 HETATM 7 C C7 C06 . . . C 2 9.937 -25.885 8.72 1 20 ? C7 C06 501 A 1 HETATM 8 C C8 C06 . . . C 2 10.725 -24.924 7.816 1 20 ? C8 C06 501 A 1 HETATM 9 N N2 C06 . . . C 2 11.65 -28.865 7.788 1 20 ? N2 C06 501 A 1 HETATM 10 C C9 C06 . . . C 2 12.119 -25.52 7.832 1 20 ? C9 C06 501 A 1 HETATM 11 O O5 C06 . . . C 2 5.619 -25.031 9.682 1 20 ? O5 C06 501 A 1 HETATM 12 C C10 C06 . . . C 2 12.226 -26.122 9.231 1 20 ? C10 C06 501 A 1 HETATM 13 O O6 C06 . . . C 2 6.737 -22.767 9.764 1 20 ? O6 C06 501 A 1 HETATM 14 C C11 C06 . . . C 2 14.173 -27.619 9.892 1 20 ? C11 C06 501 A 1 HETATM 15 C C12 C06 . . . C 2 13.712 -29.49 8.864 1 20 ? C12 C06 501 A 1 HETATM 16 N N3 C06 . . . C 2 12.48 -31.079 7.451 1 20 ? N3 C06 501 A 1 HETATM 17 C C13 C06 . . . C 2 12.674 -28.501 8.586 1 20 ? C13 C06 501 A 1 HETATM 18 O O7 C06 . . . C 2 7.798 -24.774 8.432 1 20 ? O7 C06 501 A 1 HETATM 19 C C14 C06 . . . C 2 11.513 -30.108 7.212 1 20 ? C14 C06 501 A 1 HETATM 20 O O8 C06 . . . C 2 10.886 -26.355 9.687 1 20 ? O8 C06 501 A 1 HETATM 21 C C15 C06 . . . C 2 13.573 -30.829 8.25 1 20 ? C15 C06 501 A 1 HETATM 22 N N4 C06 . . . C 2 10.383 -30.338 6.398 1 20 ? N4 C06 501 A 1 HETATM 23 N N C06 . . . C 2 13.014 -27.388 9.24 1 20 ? N C06 501 A 1 HETATM 24 C C C06 . . . C 2 1.279 -26.116 4.7 1 20 ? C C06 501 A 1 HETATM 25 O O C06 . . . C 2 2.441 -25.177 6.632 1 20 ? O C06 501 A 1 HETATM 26 P P C06 . . . C 2 4.155 -22.953 7.687 1 20 ? P C06 501 A 1 HETATM 27 P P1 C06 . . . C 2 6.419 -24.077 8.884 1 20 ? P1 C06 501 A 1 HETATM 28 C C1 C06 . . . C 2 1.552 -26.223 6.203 1 20 ? C1 C06 501 A 1 HETATM 29 O O1 C06 . . . C 2 3.161 -23.95 8.47 1 20 ? O1 C06 501 A 1 HETATM 30 C C2 C06 . . . C 2 0.242 -26.134 6.988 1 20 ? C2 C06 501 A 1 HETATM 31 O O2 C06 . . . C 2 4.282 -21.686 8.44 1 20 ? O2 C06 501 A 1 HETATM 32 C C3 C06 . . . C 2 0.484 -25.67 8.43 1 20 ? C3 C06 501 A 1 HETATM 33 O O9 C06 . . . C 2 14.509 -31.64 8.532 1 20 ? O9 C06 501 A 1 HETATM 34 O O10 C06 . . . C 2 12.262 -26.509 6.803 1 20 ? O10 C06 501 A 1 HETATM 35 O O11 C06 . . . C 2 10.22 -24.775 6.475 1 20 ? O11 C06 501 A 1 HETATM 36 O O12 C06 . . . C 2 2.14 -25.691 10.261 1 20 ? O12 C06 501 A 1 HETATM 37 O O13 C06 . . . C 2 0.214 -24.266 8.61 1 20 ? O13 C06 501 A 1 HETATM 38 O O14 C06 . . . C 2 -0.73 -25.313 6.312 1 20 ? O14 C06 501 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 15 _model_server_stats.query_time_ms 308 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 38 #