data_3KO1 # _model_server_result.job_id U4GsXw_il_I2hrSk2KpuJA _model_server_result.datetime_utc '2025-03-04 06:05:04' _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 3ko1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"K","auth_seq_id":800}' # _entry.id 3KO1 # _exptl.entry_id 3KO1 _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 9 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 133.9 _cell.angle_gamma 90 _cell.entry_id 3KO1 _cell.length_a 223.674 _cell.length_b 283.042 _cell.length_c 160.75 _cell.Z_PDB 36 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3KO1 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details octadecameric _pdbx_struct_assembly.oligomeric_count 18 _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,F,G,H,I,J,K,L,M,N,O,P,Q,R _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_656 -x+1,y,-z+1 -1 0 0 0 1 0 0 0 -1 112.209656 0 115.828591 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 J N N ? 2 K N N ? 2 L N N ? 2 M N N ? 2 N N N ? 2 O N N ? 2 P N N ? 2 Q N N ? 2 R 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 3KO1 _atom_sites.fract_transf_matrix[1][1] 0.004471 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004302 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.003533 _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] 0.008633 _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 J 2 ADP A 1 800 800 ADP ADP . K 2 ADP B 1 800 800 ADP ADP . L 2 ADP C 1 800 800 ADP ADP . M 2 ADP D 1 800 800 ADP ADP . N 2 ADP E 1 800 800 ADP ADP . O 2 ADP F 1 800 800 ADP ADP . P 2 ADP G 1 800 800 ADP ADP . Q 2 ADP H 1 800 800 ADP ADP . R 2 ADP I 1 800 800 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 . . . K 2 -4.396 -124.703 37.154 1 150 ? PB ADP 800 B 1 HETATM 2 O O1B ADP . . . K 2 -4.404 -125.95 38.001 1 150 ? O1B ADP 800 B 1 HETATM 3 O O2B ADP . . . K 2 -5.764 -124.214 36.756 1 150 ? O2B ADP 800 B 1 HETATM 4 O O3B ADP . . . K 2 -3.476 -123.621 37.656 1 150 ? O3B ADP 800 B 1 HETATM 5 P PA ADP . . . K 2 -4.159 -126.505 34.977 1 150 ? PA ADP 800 B 1 HETATM 6 O O1A ADP . . . K 2 -3.021 -127.494 35.053 1 150 ? O1A ADP 800 B 1 HETATM 7 O O2A ADP . . . K 2 -4.709 -126.114 33.63 1 150 ? O2A ADP 800 B 1 HETATM 8 O O3A ADP . . . K 2 -3.714 -125.177 35.777 1 150 ? O3A ADP 800 B 1 HETATM 9 O O5' ADP . . . K 2 -5.388 -127.122 35.807 1 150 ? O5' ADP 800 B 1 HETATM 10 C C5' ADP . . . K 2 -6.711 -126.677 35.52 1 150 ? C5' ADP 800 B 1 HETATM 11 C C4' ADP . . . K 2 -7.641 -127.865 35.293 1 150 ? C4' ADP 800 B 1 HETATM 12 O O4' ADP . . . K 2 -7.073 -128.881 34.468 1 150 ? O4' ADP 800 B 1 HETATM 13 C C3' ADP . . . K 2 -8.046 -128.567 36.573 1 150 ? C3' ADP 800 B 1 HETATM 14 O O3' ADP . . . K 2 -9.425 -128.172 36.589 1 150 ? O3' ADP 800 B 1 HETATM 15 C C2' ADP . . . K 2 -8.026 -130.018 36.147 1 150 ? C2' ADP 800 B 1 HETATM 16 O O2' ADP . . . K 2 -8.859 -131.075 36.648 1 150 ? O2' ADP 800 B 1 HETATM 17 C C1' ADP . . . K 2 -7.788 -130.092 34.72 1 150 ? C1' ADP 800 B 1 HETATM 18 N N9 ADP . . . K 2 -6.916 -131.285 34.562 1 150 ? N9 ADP 800 B 1 HETATM 19 C C8 ADP . . . K 2 -5.712 -131.469 35.131 1 150 ? C8 ADP 800 B 1 HETATM 20 N N7 ADP . . . K 2 -5.181 -132.668 34.781 0 150 ? N7 ADP 800 B 1 HETATM 21 C C5 ADP . . . K 2 -6.062 -133.279 33.968 0 150 ? C5 ADP 800 B 1 HETATM 22 C C6 ADP . . . K 2 -6.132 -134.569 33.238 0 150 ? C6 ADP 800 B 1 HETATM 23 N N6 ADP . . . K 2 -5.126 -135.475 33.309 0 150 ? N6 ADP 800 B 1 HETATM 24 N N1 ADP . . . K 2 -7.236 -134.812 32.498 0 150 ? N1 ADP 800 B 1 HETATM 25 C C2 ADP . . . K 2 -8.245 -133.924 32.418 0 150 ? C2 ADP 800 B 1 HETATM 26 N N3 ADP . . . K 2 -8.245 -132.74 33.051 0 150 ? N3 ADP 800 B 1 HETATM 27 C C4 ADP . . . K 2 -7.204 -132.364 33.829 1 150 ? C4 ADP 800 B 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 27 _model_server_stats.query_time_ms 275 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 27 #