data_7EM8 # _model_server_result.job_id 2-PP0UJYOSd-DoHrjXUzqQ _model_server_result.datetime_utc '2024-11-24 13:05:33' _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 7em8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":501}' # _entry.id 7EM8 # _exptl.entry_id 7EM8 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 442.216 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '[(2~{R},3~{S},4~{R},5~{R})-5-[2,6-bis(azanyl)purin-9-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl phosphono hydrogen phosphate' _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 90 _cell.entry_id 7EM8 _cell.length_a 109.487 _cell.length_b 184.854 _cell.length_c 106.735 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7EM8 _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall 'C 2c 2' _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 _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 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C10 H16 N6 O10 P2' _chem_comp.formula_weight 442.216 _chem_comp.id CX0 _chem_comp.mon_nstd_flag . _chem_comp.name '[(2~{R},3~{S},4~{R},5~{R})-5-[2,6-bis(azanyl)purin-9-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl phosphono 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 O3B PB CX0 doub 70 n n O1A PA CX0 doub 71 n n O2A PA CX0 sing 72 n n PA O3A CX0 sing 73 n n PA O5' CX0 sing 74 n n PB O3A CX0 sing 75 n n PB O1B CX0 sing 76 n n PB O2B CX0 sing 77 n n O5' C5' CX0 sing 78 n n C5' C4' CX0 sing 79 n n C4' O4' CX0 sing 80 n n C4' C3' CX0 sing 81 n n O4' C1' CX0 sing 82 n n C3' O3' CX0 sing 83 n n C3' C2' CX0 sing 84 n n C1' C2' CX0 sing 85 n n C1' N9 CX0 sing 86 n n C8 N7 CX0 doub 87 n y C8 N9 CX0 sing 88 n y C2' O2' CX0 sing 89 n n N7 C5 CX0 sing 90 n y N9 C4 CX0 sing 91 n y C5 C4 CX0 doub 92 n y C5 C6 CX0 sing 93 n y C4 N3 CX0 sing 94 n y N6 C6 CX0 sing 95 n n C6 N1 CX0 doub 96 n y N3 C2 CX0 doub 97 n y N1 C2 CX0 sing 98 n y C2 N2 CX0 sing 99 n n C5' H1 CX0 sing 100 n n C5' H2 CX0 sing 101 n n C4' H3 CX0 sing 102 n n C3' H4 CX0 sing 103 n n C2' H5 CX0 sing 104 n n O3' H6 CX0 sing 105 n n C1' H7 CX0 sing 106 n n O2' H8 CX0 sing 107 n n C8 H9 CX0 sing 108 n n N2 H10 CX0 sing 109 n n N2 H11 CX0 sing 110 n n N6 H12 CX0 sing 111 n n N6 H13 CX0 sing 112 n n O1B H14 CX0 sing 113 n n O2A H15 CX0 sing 114 n n O2B H16 CX0 sing 115 n n # _atom_sites.entry_id 7EM8 _atom_sites.fract_transf_matrix[1][1] 0.009134 _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] 0.00541 _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] 0.009369 _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 CX0 A 1 501 501 CX0 CXC . D 3 CXC A 1 502 502 CXC CXC . # 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 C5' CX0 . . . C 2 46.53 62.932 -7.382 1 165.07 ? C5' CX0 501 A 1 HETATM 2 C C4' CX0 . . . C 2 45.223 62.376 -6.764 1 149.06 ? C4' CX0 501 A 1 HETATM 3 C C3' CX0 . . . C 2 44.701 63.198 -5.554 1 141.44 ? C3' CX0 501 A 1 HETATM 4 C C2' CX0 . . . C 2 45.316 62.42 -4.43 1 137.5 ? C2' CX0 501 A 1 HETATM 5 O O3' CX0 . . . C 2 43.27 63.082 -5.435 1 138.46 ? O3' CX0 501 A 1 HETATM 6 O O4' CX0 . . . C 2 45.547 61.074 -6.206 1 138.25 ? O4' CX0 501 A 1 HETATM 7 C C1' CX0 . . . C 2 44.917 61.052 -4.899 1 129.09 ? C1' CX0 501 A 1 HETATM 8 O O2' CX0 . . . C 2 44.657 62.742 -3.209 1 140.99 ? O2' CX0 501 A 1 HETATM 9 C C8 CX0 . . . C 2 46.476 59.305 -4.862 1 104.37 ? C8 CX0 501 A 1 HETATM 10 C C6 CX0 . . . C 2 46.436 57.365 -2 1 88.1 ? C6 CX0 501 A 1 HETATM 11 C C5 CX0 . . . C 2 46.298 58.219 -3.017 1 101.31 ? C5 CX0 501 A 1 HETATM 12 N N3 CX0 . . . C 2 44.622 59.323 -1.9 1 95.7 ? N3 CX0 501 A 1 HETATM 13 C C4 CX0 . . . C 2 45.397 59.211 -2.992 1 101.69 ? C4 CX0 501 A 1 HETATM 14 C C2 CX0 . . . C 2 44.776 58.439 -0.87 1 93.92 ? C2 CX0 501 A 1 HETATM 15 N N2 CX0 . . . C 2 44.025 58.513 0.224 1 95.73 ? N2 CX0 501 A 1 HETATM 16 N N1 CX0 . . . C 2 45.682 57.451 -0.909 1 85.36 ? N1 CX0 501 A 1 HETATM 17 N N6 CX0 . . . C 2 47.36 56.425 -2.136 1 80.11 ? N6 CX0 501 A 1 HETATM 18 N N7 CX0 . . . C 2 46.956 58.284 -4.166 1 105.78 ? N7 CX0 501 A 1 HETATM 19 N N9 CX0 . . . C 2 45.516 59.891 -4.149 1 108.26 ? N9 CX0 501 A 1 HETATM 20 O O1A CX0 . . . C 2 45.746 61.866 -10.911 1 193.39 ? O1A CX0 501 A 1 HETATM 21 O O1B CX0 . . . C 2 43.017 65.158 -9.363 1 210.68 ? O1B CX0 501 A 1 HETATM 22 O O2A CX0 . . . C 2 47.607 63.576 -10.677 1 194.72 ? O2A CX0 501 A 1 HETATM 23 O O2B CX0 . . . C 2 43.22 62.62 -9.26 1 212.2 ? O2B CX0 501 A 1 HETATM 24 O O3A CX0 . . . C 2 45.299 64.053 -9.694 1 204.41 ? O3A CX0 501 A 1 HETATM 25 O O3B CX0 . . . C 2 43.495 63.815 -11.437 1 212.53 ? O3B CX0 501 A 1 HETATM 26 O O5' CX0 . . . C 2 46.84 62.282 -8.642 1 179.14 ? O5' CX0 501 A 1 HETATM 27 P PA CX0 . . . C 2 46.412 62.914 -10.111 1 193.61 ? PA CX0 501 A 1 HETATM 28 P PB CX0 . . . C 2 43.655 63.906 -9.844 1 211.04 ? PB CX0 501 A 1 # _model_server_stats.io_time_ms 84 _model_server_stats.parse_time_ms 18 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 286 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 28 #