data_8HRZ # _model_server_result.job_id u9U3udlXQ6yBinHKEUUxhA _model_server_result.datetime_utc '2024-12-04 16:11:32' _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 8hrz # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"Z","auth_seq_id":501}' # _entry.id 8HRZ # _exptl.entry_id 8HRZ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _entity.pdbx_number_of_molecules 12 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 119.8 _cell.angle_gamma 90 _cell.entry_id 8HRZ _cell.length_a 170.78 _cell.length_b 178.85 _cell.length_c 171.33 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8HRZ _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details 24-meric _pdbx_struct_assembly.oligomeric_count 24 _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,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 Y N N ? 3 Z N N ? 3 AA N N ? 3 BA N N ? 3 CA N N ? 3 DA N N ? 3 EA N N ? 3 FA N N ? 3 GA N N ? 3 HA N N ? 3 IA N N ? 3 JA 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 8HRZ _atom_sites.fract_transf_matrix[1][1] 0.005855 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003353 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.005591 _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] 0.006726 _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 Y 3 ADP A 1 501 501 ADP ADP . Z 3 ADP B 1 501 501 ADP ADP . AA 3 ADP C 1 501 501 ADP ADP . BA 3 ADP D 1 501 501 ADP ADP . CA 3 ADP E 1 501 501 ADP ADP . DA 3 ADP F 1 501 501 ADP ADP . EA 3 ADP G 1 501 501 ADP ADP . FA 3 ADP H 1 501 501 ADP ADP . GA 3 ADP I 1 501 501 ADP ADP . HA 3 ADP J 1 501 501 ADP ADP . IA 3 ADP K 1 501 501 ADP ADP . JA 3 ADP L 1 501 501 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 . . . Z 3 -53.986 17.333 48.737 1 55.38 0 PB ADP 501 B 1 HETATM 2 O O1B ADP . . . Z 3 -53.157 17.092 47.501 1 55.52 0 O1B ADP 501 B 1 HETATM 3 O O2B ADP . . . Z 3 -54.252 16.067 49.587 1 50.6 0 O2B ADP 501 B 1 HETATM 4 O O3B ADP . . . Z 3 -53.53 18.516 49.57 1 62.95 0 O3B ADP 501 B 1 HETATM 5 P PA ADP . . . Z 3 -55.936 18.826 47.155 1 57.03 0 PA ADP 501 B 1 HETATM 6 O O1A ADP . . . Z 3 -54.747 19.526 46.639 1 73.16 0 O1A ADP 501 B 1 HETATM 7 O O2A ADP . . . Z 3 -57.026 19.583 47.825 1 67.82 0 O2A ADP 501 B 1 HETATM 8 O O3A ADP . . . Z 3 -55.427 17.775 48.225 1 65.17 0 O3A ADP 501 B 1 HETATM 9 O O5' ADP . . . Z 3 -56.501 17.882 45.99 1 66.76 0 O5' ADP 501 B 1 HETATM 10 C C5' ADP . . . Z 3 -56.249 18.223 44.584 1 61.88 0 C5' ADP 501 B 1 HETATM 11 C C4' ADP . . . Z 3 -57.55 18.254 43.804 1 67.96 0 C4' ADP 501 B 1 HETATM 12 O O4' ADP . . . Z 3 -57.97 16.908 43.447 1 69.59 0 O4' ADP 501 B 1 HETATM 13 C C3' ADP . . . Z 3 -58.788 18.858 44.491 1 68.96 0 C3' ADP 501 B 1 HETATM 14 O O3' ADP . . . Z 3 -58.851 20.263 44.293 1 66.97 0 O3' ADP 501 B 1 HETATM 15 C C2' ADP . . . Z 3 -59.917 18.193 43.703 1 67.36 0 C2' ADP 501 B 1 HETATM 16 O O2' ADP . . . Z 3 -60.017 18.769 42.42 1 70.54 0 O2' ADP 501 B 1 HETATM 17 C C1' ADP . . . Z 3 -59.373 16.775 43.567 1 58.8 0 C1' ADP 501 B 1 HETATM 18 N N9 ADP . . . Z 3 -59.709 15.905 44.693 1 55.23 0 N9 ADP 501 B 1 HETATM 19 C C8 ADP . . . Z 3 -58.856 15.278 45.572 1 56.38 0 C8 ADP 501 B 1 HETATM 20 N N7 ADP . . . Z 3 -59.478 14.562 46.487 1 62.74 0 N7 ADP 501 B 1 HETATM 21 C C5 ADP . . . Z 3 -60.823 14.727 46.197 1 49.96 0 C5 ADP 501 B 1 HETATM 22 C C6 ADP . . . Z 3 -61.991 14.231 46.801 1 48.96 0 C6 ADP 501 B 1 HETATM 23 N N6 ADP . . . Z 3 -62.006 13.425 47.857 1 48.91 0 N6 ADP 501 B 1 HETATM 24 N N1 ADP . . . Z 3 -63.177 14.635 46.279 1 48.18 0 N1 ADP 501 B 1 HETATM 25 C C2 ADP . . . Z 3 -63.181 15.424 45.194 1 40.62 0 C2 ADP 501 B 1 HETATM 26 N N3 ADP . . . Z 3 -62.148 15.911 44.518 1 42.53 0 N3 ADP 501 B 1 HETATM 27 C C4 ADP . . . Z 3 -60.982 15.542 45.086 1 52.29 0 C4 ADP 501 B 1 # _model_server_stats.io_time_ms 25 _model_server_stats.parse_time_ms 22 _model_server_stats.create_model_time_ms 68 _model_server_stats.query_time_ms 311 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 27 #