data_3THZ # _model_server_result.job_id z6c4dAh4-6cd5zugilroXQ _model_server_result.datetime_utc '2024-11-26 03:36:36' _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 3thz # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":935}' # _entry.id 3THZ # _exptl.entry_id 3THZ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _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 3THZ _cell.length_a 103.68 _cell.length_b 154.63 _cell.length_c 161.59 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3THZ _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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,E _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 5 _struct_asym.id E _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order hydrog 'DC-DG PAIR' hydrog1 C O2 DC 4 D DC 4 1_555 D N2 DG 27 E DG 52 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 C N3 DT 5 D DT 5 1_555 D N1 DA 26 E DA 51 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 C O4 DT 5 D DT 5 1_555 D N6 DA 26 E DA 51 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 C N1 DA 6 D DA 6 1_555 D N3 DT 25 E DT 50 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 C N6 DA 6 D DA 6 1_555 D O4 DT 25 E DT 50 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 C N3 DT 7 D DT 7 1_555 D N1 DA 24 E DA 49 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 C O4 DT 7 D DT 7 1_555 D N6 DA 24 E DA 49 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 C N3 DC 8 D DC 8 1_555 D N1 DG 23 E DG 48 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 C N4 DC 8 D DC 8 1_555 D O6 DG 23 E DG 48 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 C O2 DC 8 D DC 8 1_555 D N2 DG 23 E DG 48 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 C N3 DT 9 D DT 9 1_555 D N1 DA 22 E DA 47 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 C O4 DT 9 D DT 9 1_555 D N6 DA 22 E DA 47 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 C N1 DG 10 D DG 10 1_555 D N3 DC 21 E DC 46 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 C N2 DG 10 D DG 10 1_555 D O2 DC 21 E DC 46 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 C O6 DG 10 D DG 10 1_555 D N4 DC 21 E DC 46 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DA-DT PAIR' hydrog16 C N6 DA 11 D DA 11 1_555 D O4 DT 20 E DT 45 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 C N1 DA 12 D DA 12 1_555 D N3 DT 19 E DT 44 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 C N6 DA 12 D DA 12 1_555 D O4 DT 19 E DT 44 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 C N1 DG 13 D DG 13 1_555 D N3 DC 18 E DC 43 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 C N2 DG 13 D DG 13 1_555 D O2 DC 18 E DC 43 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog21 C O6 DG 13 D DG 13 1_555 D N4 DC 18 E DC 43 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog22 C N3 DC 14 D DC 14 1_555 D N1 DG 17 E DG 42 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog23 C N4 DC 14 D DC 14 1_555 D O6 DG 17 E DG 42 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog24 C O2 DC 14 D DC 14 1_555 D N2 DG 17 E DG 42 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog25 C N3 DC 15 D DC 15 1_555 D N1 DG 10 E DG 35 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog26 C N4 DC 15 D DC 15 1_555 D O6 DG 10 E DG 35 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog27 C O2 DC 15 D DC 15 1_555 D N2 DG 10 E DG 35 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DG-DC PAIR' hydrog28 C N1 DG 16 D DG 16 1_555 D N3 DC 9 E DC 34 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog29 C N1 DA 17 D DA 17 1_555 D N3 DT 8 E DT 33 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog30 C N6 DA 17 D DA 17 1_555 D O4 DT 8 E DT 33 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog31 C N3 DT 18 D DT 18 1_555 D N1 DA 7 E DA 32 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog32 C O4 DT 18 D DT 18 1_555 D N6 DA 7 E DA 32 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog33 C N3 DC 19 D DC 19 1_555 D N1 DG 6 E DG 31 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog34 C N4 DC 19 D DC 19 1_555 D O6 DG 6 E DG 31 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog35 C O2 DC 19 D DC 19 1_555 D N2 DG 6 E DG 31 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog36 C N1 DG 20 D DG 20 1_555 D N3 DC 5 E DC 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog37 C N2 DG 20 D DG 20 1_555 D O2 DC 5 E DC 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog38 C O6 DG 20 D DG 20 1_555 D N4 DC 5 E DC 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog39 C N1 DA 21 D DA 21 1_555 D N3 DT 4 E DT 29 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog40 C N6 DA 21 D DA 21 1_555 D O4 DT 4 E DT 29 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog41 C N3 DT 22 D DT 22 1_555 D N1 DA 3 E DA 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog42 C O4 DT 22 D DT 22 1_555 D N6 DA 3 E DA 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DG-DC PAIR' hydrog43 C N2 DG 23 D DG 23 1_555 D O2 DC 2 E DC 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'C10 H15 N5 O10 P2' _chem_comp.formula_weight 427.201 _chem_comp.id ADP _chem_comp.mon_nstd_flag n _chem_comp.name "ADENOSINE-5'-DIPHOSPHATE" _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 PB O1B ADP doub 1 n n PB O2B ADP sing 2 n n PB O3B ADP sing 3 n n PB O3A ADP sing 4 n n O2B HOB2 ADP sing 5 n n O3B HOB3 ADP sing 6 n n PA O1A ADP doub 7 n n PA O2A ADP sing 8 n n PA O3A ADP sing 9 n n PA O5' ADP sing 10 n n O2A HOA2 ADP sing 11 n n O5' C5' ADP sing 12 n n C5' C4' ADP sing 13 n n C5' "H5'1" ADP sing 14 n n C5' "H5'2" ADP sing 15 n n C4' O4' ADP sing 16 n n C4' C3' ADP sing 17 n n C4' H4' ADP sing 18 n n O4' C1' ADP sing 19 n n C3' O3' ADP sing 20 n n C3' C2' ADP sing 21 n n C3' H3' ADP sing 22 n n O3' HO3' ADP sing 23 n n C2' O2' ADP sing 24 n n C2' C1' ADP sing 25 n n C2' H2' ADP sing 26 n n O2' HO2' ADP sing 27 n n C1' N9 ADP sing 28 n n C1' H1' ADP sing 29 n n N9 C8 ADP sing 30 n y N9 C4 ADP sing 31 n y C8 N7 ADP doub 32 n y C8 H8 ADP sing 33 n n N7 C5 ADP sing 34 n y C5 C6 ADP sing 35 n y C5 C4 ADP doub 36 n y C6 N6 ADP sing 37 n n C6 N1 ADP doub 38 n y N6 HN61 ADP sing 39 n n N6 HN62 ADP sing 40 n n N1 C2 ADP sing 41 n y C2 N3 ADP doub 42 n y C2 H2 ADP sing 43 n n N3 C4 ADP sing 44 n y # _atom_sites.entry_id 3THZ _atom_sites.fract_transf_matrix[1][1] 0.009645 _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] 0.006467 _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] 0.006189 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # _pdbx_nonpoly_scheme.asym_id E _pdbx_nonpoly_scheme.entity_id 5 _pdbx_nonpoly_scheme.mon_id ADP _pdbx_nonpoly_scheme.pdb_strand_id A _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 935 _pdbx_nonpoly_scheme.auth_seq_num 1 _pdbx_nonpoly_scheme.pdb_mon_id ADP _pdbx_nonpoly_scheme.auth_mon_id ADP _pdbx_nonpoly_scheme.pdb_ins_code . # 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 P PB ADP . . . E 5 -27.646 5.279 -28.377 1 262.5 ? PB ADP 935 A 1 HETATM 2 O O1B ADP . . . E 5 -26.739 4.661 -27.336 1 261.25 ? O1B ADP 935 A 1 HETATM 3 O O2B ADP . . . E 5 -29.098 5.332 -27.96 1 263.83 ? O2B ADP 935 A 1 HETATM 4 O O3B ADP . . . E 5 -27.437 4.765 -29.785 1 261 ? O3B ADP 935 A 1 HETATM 5 P PA ADP . . . E 5 -25.679 7.331 -28.602 1 260.48 ? PA ADP 935 A 1 HETATM 6 O O1A ADP . . . E 5 -25.003 7.347 -27.251 1 258.51 ? O1A ADP 935 A 1 HETATM 7 O O2A ADP . . . E 5 -25.063 6.594 -29.771 1 261.91 ? O2A ADP 935 A 1 HETATM 8 O O3A ADP . . . E 5 -27.209 6.836 -28.428 1 262.18 ? O3A ADP 935 A 1 HETATM 9 O O5' ADP . . . E 5 -25.831 8.86 -29.072 1 263.6 ? O5' ADP 935 A 1 HETATM 10 C C5' ADP . . . E 5 -24.701 9.547 -29.599 1 267.33 ? C5' ADP 935 A 1 HETATM 11 C C4' ADP . . . E 5 -25.123 10.978 -29.874 1 270.77 ? C4' ADP 935 A 1 HETATM 12 O O4' ADP . . . E 5 -25.881 11.44 -28.761 1 270.41 ? O4' ADP 935 A 1 HETATM 13 C C3' ADP . . . E 5 -23.936 11.907 -30.041 1 271.67 ? C3' ADP 935 A 1 HETATM 14 O O3' ADP . . . E 5 -23.936 12.428 -31.373 1 275.05 ? O3' ADP 935 A 1 HETATM 15 C C2' ADP . . . E 5 -24.138 13.026 -29.038 1 272.02 ? C2' ADP 935 A 1 HETATM 16 O O2' ADP . . . E 5 -24.234 14.274 -29.724 1 274.35 ? O2' ADP 935 A 1 HETATM 17 C C1' ADP . . . E 5 -25.466 12.743 -28.36 1 272.05 ? C1' ADP 935 A 1 HETATM 18 N N9 ADP . . . E 5 -25.352 12.744 -26.883 1 271.49 ? N9 ADP 935 A 1 HETATM 19 C C8 ADP . . . E 5 -25.164 11.647 -26.131 1 271.91 ? C8 ADP 935 A 1 HETATM 20 N N7 ADP . . . E 5 -25.117 11.961 -24.814 1 271.74 ? N7 ADP 935 A 1 HETATM 21 C C5 ADP . . . E 5 -25.285 13.289 -24.709 1 271.35 ? C5 ADP 935 A 1 HETATM 22 C C6 ADP . . . E 5 -25.339 14.267 -23.601 1 271.16 ? C6 ADP 935 A 1 HETATM 23 N N6 ADP . . . E 5 -25.198 13.865 -22.315 1 270.63 ? N6 ADP 935 A 1 HETATM 24 N N1 ADP . . . E 5 -25.532 15.565 -23.921 1 271.61 ? N1 ADP 935 A 1 HETATM 25 C C2 ADP . . . E 5 -25.671 15.969 -25.196 1 272.19 ? C2 ADP 935 A 1 HETATM 26 N N3 ADP . . . E 5 -25.631 15.135 -26.249 1 272.41 ? N3 ADP 935 A 1 HETATM 27 C C4 ADP . . . E 5 -25.445 13.804 -26.076 1 272.12 ? C4 ADP 935 A 1 # _model_server_stats.io_time_ms 126 _model_server_stats.parse_time_ms 27 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 337 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 27 #