data_3KO4 # _model_server_result.job_id v4Yj7FkRFiePxqm9adsJdQ _model_server_result.datetime_utc '2024-10-13 19:23:54' _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 3ko4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":165}' # _entry.id 3KO4 # _exptl.entry_id 3KO4 _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 3 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 72.86 _cell.angle_beta 76.45 _cell.angle_gamma 88.32 _cell.entry_id 3KO4 _cell.length_a 51.174 _cell.length_b 53.005 _cell.length_c 90.432 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3KO4 _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 dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 PISA dimeric 2 author_and_software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,G,J,K 1 1 C,D,H,I,L,M 2 1 E,F 3 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 G N N ? 2 H N N ? 2 I 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 3KO4 _atom_sites.fract_transf_matrix[1][1] 0.019541 _atom_sites.fract_transf_matrix[1][2] -0.000573 _atom_sites.fract_transf_matrix[1][3] -0.004752 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018874 _atom_sites.fract_transf_matrix[2][3] -0.005853 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.011909 _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 G 2 ADP B 1 165 1 ADP ADP . H 2 ADP C 1 165 2 ADP ADP . I 2 ADP D 1 165 3 ADP ADP . J 3 HOH A 1 165 2 HOH HOH . K 3 HOH B 1 166 1 HOH HOH . K 3 HOH B 2 167 4 HOH HOH . K 3 HOH B 3 168 5 HOH HOH . K 3 HOH B 4 169 7 HOH HOH . K 3 HOH B 5 170 8 HOH HOH . K 3 HOH B 6 171 9 HOH HOH . L 3 HOH C 1 166 6 HOH HOH . M 3 HOH D 1 166 3 HOH HOH . M 3 HOH D 2 167 10 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 . . . I 2 -32.35 -15.738 -12.647 0.4 37.36 ? PB ADP 165 D 1 HETATM 2 O O1B ADP . . . I 2 -31.868 -14.3 -12.617 0.4 36.47 ? O1B ADP 165 D 1 HETATM 3 O O2B ADP . . . I 2 -31.906 -16.675 -11.544 0.4 37.18 ? O2B ADP 165 D 1 HETATM 4 O O3B ADP . . . I 2 -31.936 -16.415 -14.052 0.4 36.57 ? O3B ADP 165 D 1 HETATM 5 P PA ADP . . . I 2 -34.876 -16.974 -12.306 0.4 35.05 ? PA ADP 165 D 1 HETATM 6 O O1A ADP . . . I 2 -34.958 -16.9 -10.796 0.4 34.35 ? O1A ADP 165 D 1 HETATM 7 O O2A ADP . . . I 2 -36.136 -16.996 -13.136 0.4 33.87 ? O2A ADP 165 D 1 HETATM 8 O O3A ADP . . . I 2 -33.965 -15.73 -12.777 0.4 35.62 ? O3A ADP 165 D 1 HETATM 9 O O5' ADP . . . I 2 -33.995 -18.251 -12.75 0.4 34.48 ? O5' ADP 165 D 1 HETATM 10 C C5' ADP . . . I 2 -33.835 -19.398 -11.912 0.4 34.36 ? C5' ADP 165 D 1 HETATM 11 C C4' ADP . . . I 2 -32.993 -20.466 -12.609 0.4 34.27 ? C4' ADP 165 D 1 HETATM 12 O O4' ADP . . . I 2 -33.831 -21.231 -13.475 0.4 34.35 ? O4' ADP 165 D 1 HETATM 13 C C3' ADP . . . I 2 -31.873 -19.884 -13.466 0.4 34.54 ? C3' ADP 165 D 1 HETATM 14 O O3' ADP . . . I 2 -30.605 -20.172 -12.874 0.4 34.85 ? O3' ADP 165 D 1 HETATM 15 C C2' ADP . . . I 2 -31.999 -20.538 -14.831 0.4 34.11 ? C2' ADP 165 D 1 HETATM 16 O O2' ADP . . . I 2 -30.912 -21.428 -15.103 0.4 33.84 ? O2' ADP 165 D 1 HETATM 17 C C1' ADP . . . I 2 -33.288 -21.342 -14.791 0.4 33.29 ? C1' ADP 165 D 1 HETATM 18 N N9 ADP . . . I 2 -34.267 -20.774 -15.74 0.4 32.67 ? N9 ADP 165 D 1 HETATM 19 C C8 ADP . . . I 2 -34.363 -19.479 -16.09 0.4 32.77 ? C8 ADP 165 D 1 HETATM 20 N N7 ADP . . . I 2 -35.364 -19.289 -16.984 0.4 33.55 ? N7 ADP 165 D 1 HETATM 21 C C5 ADP . . . I 2 -35.935 -20.489 -17.216 0.4 33.22 ? C5 ADP 165 D 1 HETATM 22 C C6 ADP . . . I 2 -37.05 -21.001 -18.055 0.4 32.93 ? C6 ADP 165 D 1 HETATM 23 N N6 ADP . . . I 2 -37.78 -20.17 -18.84 0.4 32.7 ? N6 ADP 165 D 1 HETATM 24 N N1 ADP . . . I 2 -37.31 -22.327 -18.006 0.4 32.61 ? N1 ADP 165 D 1 HETATM 25 C C2 ADP . . . I 2 -36.601 -23.166 -17.223 0.4 32.96 ? C2 ADP 165 D 1 HETATM 26 N N3 ADP . . . I 2 -35.575 -22.776 -16.439 0.4 32.81 ? N3 ADP 165 D 1 HETATM 27 C C4 ADP . . . I 2 -35.203 -21.468 -16.39 0.4 33 ? C4 ADP 165 D 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 271 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 27 #