data_3Q71 # _model_server_result.job_id LJwRqlUXmkNDGggXT_c2Bw _model_server_result.datetime_utc '2025-02-27 11:52:29' _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 3q71 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":800}' # _entry.id 3Q71 # _exptl.entry_id 3Q71 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 559.316 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '[(2R,3S,4R,5R)-5-(6-AMINOPURIN-9-YL)-3,4-DIHYDROXY-OXOLAN-2-YL]METHYL [HYDROXY-[[(2R,3S,4R,5S)-3,4,5-TRIHYDROXYOXOLAN-2-YL]METHOXY]PHOSPHORYL] 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 120 _cell.entry_id 3Q71 _cell.length_a 66.35 _cell.length_b 66.35 _cell.length_c 110.69 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3Q71 _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _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 B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C15 H23 N5 O14 P2' _chem_comp.formula_weight 559.316 _chem_comp.id AR6 _chem_comp.mon_nstd_flag . _chem_comp.name '[(2R,3S,4R,5R)-5-(6-AMINOPURIN-9-YL)-3,4-DIHYDROXY-OXOLAN-2-YL]METHYL [HYDROXY-[[(2R,3S,4R,5S)-3,4,5-TRIHYDROXYOXOLAN-2-YL]METHOXY]PHOSPHORYL] HYDROGEN PHOSPHATE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms Adenosine-5-Diphosphoribose # 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 N1 C2 AR6 doub 13 n y N1 C6 AR6 sing 14 n y C2 N3 AR6 sing 15 n y N3 C4 AR6 doub 16 n y C4 C5 AR6 sing 17 n y C4 N9 AR6 sing 18 n y C5 C6 AR6 doub 19 n y C5 N7 AR6 sing 20 n y C6 N6 AR6 sing 21 n n N7 C8 AR6 doub 22 n y C8 N9 AR6 sing 23 n y N9 C1' AR6 sing 24 n n PA O1A AR6 sing 25 n n PA O2A AR6 doub 26 n n PA O3A AR6 sing 27 n n PA O5' AR6 sing 28 n n PB O1B AR6 sing 29 n n PB O2B AR6 doub 30 n n PB O3A AR6 sing 31 n n PB O5D AR6 sing 32 n n C1' C2' AR6 sing 33 n n C1' O4' AR6 sing 34 n n C1D O1D AR6 sing 35 n n C1D C2D AR6 sing 36 n n C1D O4D AR6 sing 37 n n C2' O2' AR6 sing 38 n n C2' C3' AR6 sing 39 n n C2D O2D AR6 sing 40 n n C2D C3D AR6 sing 41 n n C3' O3' AR6 sing 42 n n C3' C4' AR6 sing 43 n n C3D O3D AR6 sing 44 n n C3D C4D AR6 sing 45 n n C4' O4' AR6 sing 46 n n C4' C5' AR6 sing 47 n n C4D O4D AR6 sing 48 n n C4D C5D AR6 sing 49 n n C5' O5' AR6 sing 50 n n C5D O5D AR6 sing 51 n n C2 H2 AR6 sing 52 n n N6 HN6 AR6 sing 53 n n N6 HN6A AR6 sing 54 n n C8 H8 AR6 sing 55 n n C1' H1' AR6 sing 56 n n C1D H1D AR6 sing 57 n n C2' H2' AR6 sing 58 n n O2' HO2' AR6 sing 59 n n C2D H2D AR6 sing 60 n n O2D HO2D AR6 sing 61 n n C3' H3' AR6 sing 62 n n O3' HO3' AR6 sing 63 n n C3D H3D AR6 sing 64 n n O3D HO3D AR6 sing 65 n n C4' H4' AR6 sing 66 n n C4D H4D AR6 sing 67 n n C5' H5' AR6 sing 68 n n C5' "H5'A" AR6 sing 69 n n C5D H5D AR6 sing 70 n n C5D H5DA AR6 sing 71 n n O1A H1A AR6 sing 72 n n O1B H1B AR6 sing 73 n n O1D HD1 AR6 sing 74 n n # _atom_sites.entry_id 3Q71 _atom_sites.fract_transf_matrix[1][1] 0.015072 _atom_sites.fract_transf_matrix[1][2] 0.008702 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.017403 _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] 0.009034 _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 AR6 A 1 800 800 AR6 AR6 . C 3 HOH A 1 1 1 HOH HOH . C 3 HOH A 2 2 2 HOH HOH . C 3 HOH A 3 3 3 HOH HOH . C 3 HOH A 4 4 4 HOH HOH . C 3 HOH A 5 5 5 HOH HOH . C 3 HOH A 6 6 6 HOH HOH . C 3 HOH A 7 7 7 HOH HOH . C 3 HOH A 8 8 8 HOH HOH . C 3 HOH A 9 9 9 HOH HOH . C 3 HOH A 10 10 10 HOH HOH . C 3 HOH A 11 11 11 HOH HOH . C 3 HOH A 12 12 12 HOH HOH . C 3 HOH A 13 13 13 HOH HOH . C 3 HOH A 14 14 14 HOH HOH . C 3 HOH A 15 15 15 HOH HOH . C 3 HOH A 16 16 16 HOH HOH . C 3 HOH A 17 17 17 HOH HOH . C 3 HOH A 18 18 18 HOH HOH . C 3 HOH A 19 19 19 HOH HOH . C 3 HOH A 20 20 20 HOH HOH . C 3 HOH A 21 21 21 HOH HOH . C 3 HOH A 22 22 22 HOH HOH . C 3 HOH A 23 23 23 HOH HOH . C 3 HOH A 24 24 24 HOH HOH . C 3 HOH A 25 25 25 HOH HOH . C 3 HOH A 26 26 26 HOH HOH . C 3 HOH A 27 27 27 HOH HOH . C 3 HOH A 28 28 28 HOH HOH . C 3 HOH A 29 29 29 HOH HOH . C 3 HOH A 30 30 30 HOH HOH . C 3 HOH A 31 31 31 HOH HOH . C 3 HOH A 32 32 32 HOH HOH . C 3 HOH A 33 33 33 HOH HOH . C 3 HOH A 34 34 34 HOH HOH . C 3 HOH A 35 35 35 HOH HOH . C 3 HOH A 36 36 36 HOH HOH . C 3 HOH A 37 37 37 HOH HOH . C 3 HOH A 38 38 38 HOH HOH . C 3 HOH A 39 39 39 HOH HOH . C 3 HOH A 40 40 40 HOH HOH . C 3 HOH A 41 41 41 HOH HOH . C 3 HOH A 42 42 42 HOH HOH . C 3 HOH A 43 43 43 HOH HOH . C 3 HOH A 44 44 44 HOH HOH . C 3 HOH A 45 45 45 HOH HOH . C 3 HOH A 46 46 46 HOH HOH . C 3 HOH A 47 47 47 HOH HOH . C 3 HOH A 48 48 48 HOH HOH . C 3 HOH A 49 49 49 HOH HOH . C 3 HOH A 50 50 50 HOH HOH . C 3 HOH A 51 51 51 HOH HOH . C 3 HOH A 52 52 52 HOH HOH . C 3 HOH A 53 53 53 HOH HOH . C 3 HOH A 54 54 54 HOH HOH . C 3 HOH A 55 55 55 HOH HOH . C 3 HOH A 56 56 56 HOH HOH . C 3 HOH A 57 57 57 HOH HOH . C 3 HOH A 58 58 58 HOH HOH . C 3 HOH A 59 59 59 HOH HOH . C 3 HOH A 60 60 60 HOH HOH . C 3 HOH A 61 61 61 HOH HOH . C 3 HOH A 62 62 62 HOH HOH . C 3 HOH A 63 63 63 HOH HOH . C 3 HOH A 64 64 64 HOH HOH . C 3 HOH A 65 65 65 HOH HOH . C 3 HOH A 66 66 66 HOH HOH . C 3 HOH A 67 67 67 HOH HOH . C 3 HOH A 68 68 68 HOH HOH . C 3 HOH A 69 69 69 HOH HOH . C 3 HOH A 70 70 70 HOH HOH . C 3 HOH A 71 71 71 HOH HOH . C 3 HOH A 72 72 72 HOH HOH . C 3 HOH A 73 73 73 HOH HOH . C 3 HOH A 74 74 74 HOH HOH . C 3 HOH A 75 75 75 HOH HOH . C 3 HOH A 76 76 76 HOH HOH . C 3 HOH A 77 77 77 HOH HOH . C 3 HOH A 78 78 78 HOH HOH . C 3 HOH A 79 79 79 HOH HOH . C 3 HOH A 80 80 80 HOH HOH . C 3 HOH A 81 81 81 HOH HOH . C 3 HOH A 82 82 82 HOH HOH . C 3 HOH A 83 83 83 HOH HOH . C 3 HOH A 84 84 84 HOH HOH . C 3 HOH A 85 85 85 HOH HOH . C 3 HOH A 86 86 86 HOH HOH . C 3 HOH A 87 87 87 HOH HOH . C 3 HOH A 88 88 88 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 N1 AR6 . . . B 2 -26.141 7.481 -26.101 1 17.2 ? N1 AR6 800 A 1 HETATM 2 C C2 AR6 . . . B 2 -26.672 7.71 -24.9 1 18.29 ? C2 AR6 800 A 1 HETATM 3 N N3 AR6 . . . B 2 -26.209 8.654 -24.075 1 16.53 ? N3 AR6 800 A 1 HETATM 4 C C4 AR6 . . . B 2 -25.156 9.403 -24.457 1 16.71 ? C4 AR6 800 A 1 HETATM 5 C C5 AR6 . . . B 2 -24.576 9.187 -25.693 1 17.07 ? C5 AR6 800 A 1 HETATM 6 C C6 AR6 . . . B 2 -25.091 8.207 -26.525 1 17.02 ? C6 AR6 800 A 1 HETATM 7 N N6 AR6 . . . B 2 -24.525 8.009 -27.707 1 15.9 ? N6 AR6 800 A 1 HETATM 8 N N7 AR6 . . . B 2 -23.571 10.048 -25.824 1 19.14 ? N7 AR6 800 A 1 HETATM 9 C C8 AR6 . . . B 2 -23.505 10.784 -24.717 1 17.49 ? C8 AR6 800 A 1 HETATM 10 N N9 AR6 . . . B 2 -24.468 10.382 -23.879 1 16 ? N9 AR6 800 A 1 HETATM 11 P PA AR6 . . . B 2 -24.615 16.148 -24.01 1 17.23 ? PA AR6 800 A 1 HETATM 12 P PB AR6 . . . B 2 -26.494 17.973 -22.76 1 18.73 ? PB AR6 800 A 1 HETATM 13 C C1' AR6 . . . B 2 -24.77 10.958 -22.588 1 15.17 ? C1' AR6 800 A 1 HETATM 14 O O1A AR6 . . . B 2 -24.53 15.67 -25.394 1 19.11 ? O1A AR6 800 A 1 HETATM 15 O O1B AR6 . . . B 2 -27.987 17.913 -22.776 1 16.67 ? O1B AR6 800 A 1 HETATM 16 C C1D AR6 . . . B 2 -26.079 22.247 -25.492 1 35.3 ? C1D AR6 800 A 1 HETATM 17 O O1D AR6 . . . B 2 -26.945 22.973 -26.274 1 34.82 ? O1D AR6 800 A 1 HETATM 18 C C2' AR6 . . . B 2 -23.644 11.72 -21.937 1 15.03 ? C2' AR6 800 A 1 HETATM 19 O O2' AR6 . . . B 2 -22.966 10.841 -21.06 1 15.72 ? O2' AR6 800 A 1 HETATM 20 O O2A AR6 . . . B 2 -23.53 17.007 -23.492 1 17.51 ? O2A AR6 800 A 1 HETATM 21 O O2B AR6 . . . B 2 -25.76 17.82 -21.487 1 15.99 ? O2B AR6 800 A 1 HETATM 22 C C2D AR6 . . . B 2 -24.713 22.069 -26.157 1 35.85 ? C2D AR6 800 A 1 HETATM 23 O O2D AR6 . . . B 2 -24.606 22.935 -27.275 1 33.96 ? O2D AR6 800 A 1 HETATM 24 C C3' AR6 . . . B 2 -24.418 12.76 -21.138 1 16.81 ? C3' AR6 800 A 1 HETATM 25 O O3' AR6 . . . B 2 -24.726 12.214 -19.858 1 16.23 ? O3' AR6 800 A 1 HETATM 26 O O3A AR6 . . . B 2 -26.041 16.845 -23.84 1 18.37 ? O3A AR6 800 A 1 HETATM 27 C C3D AR6 . . . B 2 -24.736 20.648 -26.649 1 35.2 ? C3D AR6 800 A 1 HETATM 28 O O3D AR6 . . . B 2 -25.279 20.644 -27.968 1 37.81 ? O3D AR6 800 A 1 HETATM 29 C C4' AR6 . . . B 2 -25.733 12.942 -21.919 1 15.2 ? C4' AR6 800 A 1 HETATM 30 O O4' AR6 . . . B 2 -25.63 12.037 -23.031 1 14.8 ? O4' AR6 800 A 1 HETATM 31 C C4D AR6 . . . B 2 -25.787 20.003 -25.771 1 33.57 ? C4D AR6 800 A 1 HETATM 32 O O4D AR6 . . . B 2 -26.755 21.003 -25.548 1 36.13 ? O4D AR6 800 A 1 HETATM 33 C C5' AR6 . . . B 2 -25.882 14.394 -22.416 1 16.25 ? C5' AR6 800 A 1 HETATM 34 O O5' AR6 . . . B 2 -24.681 14.843 -23.066 1 17.89 ? O5' AR6 800 A 1 HETATM 35 C C5D AR6 . . . B 2 -25.233 19.519 -24.48 1 31.22 ? C5D AR6 800 A 1 HETATM 36 O O5D AR6 . . . B 2 -26.244 19.366 -23.499 1 22.69 ? O5D AR6 800 A 1 # _model_server_stats.io_time_ms 5 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 247 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 36 #