data_9BKZ # _model_server_result.job_id ZBLStnmvCI23TwQgF8szDQ _model_server_result.datetime_utc '2024-12-21 17:04:15' _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 9bkz # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":301}' # _entry.id 9BKZ # _exptl.entry_id 9BKZ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _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 115.22 _cell.angle_gamma 90 _cell.entry_id 9BKZ _cell.length_a 70.096 _cell.length_b 50.551 _cell.length_c 70.595 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9BKZ _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,E,G 1 1 B,F,H 2 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 F N N # _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 9BKZ _atom_sites.fract_transf_matrix[1][1] 0.014266 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.006719 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.019782 _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] 0.015658 _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 1 301 1 ADP ADP . D 3 COA A 1 302 3 COA COA . E 4 MPD A 1 303 301 MPD MPD . F 2 ADP B 1 301 2 ADP ADP . G 5 HOH A 1 401 12 HOH HOH . G 5 HOH A 2 402 6 HOH HOH . G 5 HOH A 3 403 1 HOH HOH . G 5 HOH A 4 404 5 HOH HOH . G 5 HOH A 5 405 4 HOH HOH . G 5 HOH A 6 406 9 HOH HOH . G 5 HOH A 7 407 7 HOH HOH . G 5 HOH A 8 408 11 HOH HOH . G 5 HOH A 9 409 8 HOH HOH . H 5 HOH B 1 401 2 HOH HOH . H 5 HOH B 2 402 10 HOH HOH . H 5 HOH B 3 403 3 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 P PB ADP . . . C 2 -9.162 -12.604 -12.658 1 68.08 ? PB ADP 301 A 1 HETATM 2 O O1B ADP . . . C 2 -9.184 -11.099 -12.541 1 71.92 ? O1B ADP 301 A 1 HETATM 3 O O2B ADP . . . C 2 -10.004 -13.165 -13.78 1 75.46 ? O2B ADP 301 A 1 HETATM 4 O O3B ADP . . . C 2 -7.786 -13.214 -12.543 1 66.17 ? O3B ADP 301 A 1 HETATM 5 P PA ADP . . . C 2 -11.227 -12.324 -10.815 1 79.79 ? PA ADP 301 A 1 HETATM 6 O O1A ADP . . . C 2 -10.794 -11.214 -9.889 1 78.07 ? O1A ADP 301 A 1 HETATM 7 O O2A ADP . . . C 2 -12.074 -12.03 -12.029 1 88.19 ? O2A ADP 301 A 1 HETATM 8 O O3A ADP . . . C 2 -9.912 -13.096 -11.325 1 65.92 ? O3A ADP 301 A 1 HETATM 9 O O5' ADP . . . C 2 -11.938 -13.467 -9.929 1 77.37 ? O5' ADP 301 A 1 HETATM 10 C C5' ADP . . . C 2 -13.007 -14.245 -10.454 1 80.19 ? C5' ADP 301 A 1 HETATM 11 C C4' ADP . . . C 2 -14.042 -14.479 -9.372 1 83.78 ? C4' ADP 301 A 1 HETATM 12 O O4' ADP . . . C 2 -13.482 -15.154 -8.235 1 82.53 ? O4' ADP 301 A 1 HETATM 13 C C3' ADP . . . C 2 -14.64 -13.163 -8.86 1 87.27 ? C3' ADP 301 A 1 HETATM 14 O O3' ADP . . . C 2 -16.047 -13.145 -9.071 1 88.12 ? O3' ADP 301 A 1 HETATM 15 C C2' ADP . . . C 2 -14.36 -13.127 -7.352 1 88.63 ? C2' ADP 301 A 1 HETATM 16 O O2' ADP . . . C 2 -15.486 -12.664 -6.632 1 87.44 ? O2' ADP 301 A 1 HETATM 17 C C1' ADP . . . C 2 -14.011 -14.587 -7.023 1 89.56 ? C1' ADP 301 A 1 HETATM 18 N N9 ADP . . . C 2 -13.086 -14.711 -5.888 1 87.05 ? N9 ADP 301 A 1 HETATM 19 C C8 ADP . . . C 2 -11.915 -14.08 -5.716 1 79.46 ? C8 ADP 301 A 1 HETATM 20 N N7 ADP . . . C 2 -11.347 -14.442 -4.536 1 81.42 ? N7 ADP 301 A 1 HETATM 21 C C5 ADP . . . C 2 -12.171 -15.321 -3.934 1 85.01 ? C5 ADP 301 A 1 HETATM 22 C C6 ADP . . . C 2 -12.183 -16.096 -2.672 1 78.9 ? C6 ADP 301 A 1 HETATM 23 N N6 ADP . . . C 2 -11.166 -16.002 -1.783 1 73.25 ? N6 ADP 301 A 1 HETATM 24 N N1 ADP . . . C 2 -13.244 -16.9 -2.437 1 82.74 ? N1 ADP 301 A 1 HETATM 25 C C2 ADP . . . C 2 -14.267 -17.011 -3.304 1 85.22 ? C2 ADP 301 A 1 HETATM 26 N N3 ADP . . . C 2 -14.317 -16.337 -4.466 1 80.49 ? N3 ADP 301 A 1 HETATM 27 C C4 ADP . . . C 2 -13.322 -15.491 -4.83 1 85.54 ? C4 ADP 301 A 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 331 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 27 #