data_7QYS # _model_server_result.job_id vC54PxfE6kRhjYmrikbcCw _model_server_result.datetime_utc '2024-10-19 08:35:59' _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 7qys # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"R","auth_seq_id":401}' # _entry.id 7QYS # _exptl.entry_id 7QYS _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 11 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 88.94 _cell.angle_beta 84.37 _cell.angle_gamma 89.97 _cell.entry_id 7QYS _cell.length_a 95.905 _cell.length_b 96.091 _cell.length_c 156.992 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7QYS _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 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 PISA tetrameric 4 author_and_software_defined_assembly 1 PISA tetrameric 4 author_and_software_defined_assembly 2 PISA tetrameric 4 author_and_software_defined_assembly 3 PISA tetrameric 4 author_and_software_defined_assembly 4 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,Q,R,S,T 1 1 E,F,G,H,U,V,W 2 1 I,J,K,L,X,Y 3 1 M,N,O,P,Z,AA 4 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 Q N N ? 2 R N N ? 2 S N N ? 2 T N N ? 2 U N N ? 2 V N N ? 2 W N N ? 2 X N N ? 2 Y N N ? 2 Z N N ? 2 AA 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 7QYS _atom_sites.fract_transf_matrix[1][1] 0.010427 _atom_sites.fract_transf_matrix[1][2] -0.000005 _atom_sites.fract_transf_matrix[1][3] -0.001028 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010407 _atom_sites.fract_transf_matrix[2][3] -0.000193 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.006402 _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 Q 2 ADP A 1 401 301 ADP ADP . R 2 ADP B 1 401 301 ADP ADP . S 2 ADP C 1 401 301 ADP ADP . T 2 ADP D 1 401 301 ADP ADP . U 2 ADP E 1 401 301 ADP ADP . V 2 ADP G 1 401 301 ADP ADP . W 2 ADP H 1 401 301 ADP ADP . X 2 ADP J 1 401 301 ADP ADP . Y 2 ADP K 1 401 301 ADP ADP . Z 2 ADP M 1 401 301 ADP ADP . AA 2 ADP O 1 401 301 ADP ADP . # 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 . . . R 2 -44.329 -56.543 -7.733 0.7 115.31 ? PB ADP 401 B 1 HETATM 2 O O1B ADP . . . R 2 -44.062 -55.682 -8.946 0.7 112.61 ? O1B ADP 401 B 1 HETATM 3 O O2B ADP . . . R 2 -45.047 -57.827 -8.077 0.7 114.09 ? O2B ADP 401 B 1 HETATM 4 O O3B ADP . . . R 2 -45.007 -55.781 -6.619 0.7 112.38 ? O3B ADP 401 B 1 HETATM 5 P PA ADP . . . R 2 -41.406 -57.181 -7.75 0.7 121.5 ? PA ADP 401 B 1 HETATM 6 O O1A ADP . . . R 2 -41.378 -56.69 -9.161 0.7 118.74 ? O1A ADP 401 B 1 HETATM 7 O O2A ADP . . . R 2 -40.415 -56.599 -6.797 0.7 119.72 ? O2A ADP 401 B 1 HETATM 8 O O3A ADP . . . R 2 -42.883 -56.978 -7.146 0.7 118.44 ? O3A ADP 401 B 1 HETATM 9 O O5' ADP . . . R 2 -41.278 -58.784 -7.739 0.7 117.35 ? O5' ADP 401 B 1 HETATM 10 C C5' ADP . . . R 2 -41.722 -59.535 -6.576 0.7 111.86 ? C5' ADP 401 B 1 HETATM 11 C C4' ADP . . . R 2 -40.876 -60.776 -6.421 0.7 108.92 ? C4' ADP 401 B 1 HETATM 12 O O4' ADP . . . R 2 -39.484 -60.389 -6.279 0.7 107.09 ? O4' ADP 401 B 1 HETATM 13 C C3' ADP . . . R 2 -41.179 -61.644 -5.192 0.7 107.39 ? C3' ADP 401 B 1 HETATM 14 O O3' ADP . . . R 2 -40.932 -63.019 -5.457 0.7 108.34 ? O3' ADP 401 B 1 HETATM 15 C C2' ADP . . . R 2 -40.213 -61.077 -4.148 0.7 105.04 ? C2' ADP 401 B 1 HETATM 16 O O2' ADP . . . R 2 -39.897 -62.002 -3.129 0.7 102.68 ? O2' ADP 401 B 1 HETATM 17 C C1' ADP . . . R 2 -38.994 -60.76 -5.01 0.7 102.87 ? C1' ADP 401 B 1 HETATM 18 N N9 ADP . . . R 2 -38.18 -59.669 -4.483 0.7 96.12 ? N9 ADP 401 B 1 HETATM 19 C C8 ADP . . . R 2 -38.104 -58.385 -4.963 0.7 92.83 ? C8 ADP 401 B 1 HETATM 20 N N7 ADP . . . R 2 -37.291 -57.621 -4.277 0.7 91.34 ? N7 ADP 401 B 1 HETATM 21 C C5 ADP . . . R 2 -36.8 -58.45 -3.279 0.7 90.88 ? C5 ADP 401 B 1 HETATM 22 C C6 ADP . . . R 2 -35.891 -58.228 -2.224 0.7 89.82 ? C6 ADP 401 B 1 HETATM 23 N N6 ADP . . . R 2 -35.298 -57.059 -1.993 0.7 88.99 ? N6 ADP 401 B 1 HETATM 24 N N1 ADP . . . R 2 -35.618 -59.271 -1.404 0.7 87.1 ? N1 ADP 401 B 1 HETATM 25 C C2 ADP . . . R 2 -36.22 -60.444 -1.642 0.7 87.7 ? C2 ADP 401 B 1 HETATM 26 N N3 ADP . . . R 2 -37.09 -60.767 -2.597 0.7 88.75 ? N3 ADP 401 B 1 HETATM 27 C C4 ADP . . . R 2 -37.342 -59.716 -3.394 0.7 91.43 ? C4 ADP 401 B 1 # _model_server_stats.io_time_ms 75 _model_server_stats.parse_time_ms 18 _model_server_stats.create_model_time_ms 45 _model_server_stats.query_time_ms 309 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 27 #