data_8VP5 # _model_server_result.job_id aSCNmxOF4Np5WZbsdH_jXA _model_server_result.datetime_utc '2024-12-26 14:48:38' _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 8vp5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":801}' # _entry.id 8VP5 # _exptl.entry_id 8VP5 _exptl.method 'ELECTRON MICROSCOPY' # _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 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 8VP5 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8VP5 _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 _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 E N N ? 3 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 83 n n PB O2B ADP sing 84 n n PB O3B ADP sing 85 n n PB O3A ADP sing 86 n n O2B HOB2 ADP sing 87 n n O3B HOB3 ADP sing 88 n n PA O1A ADP doub 89 n n PA O2A ADP sing 90 n n PA O3A ADP sing 91 n n PA O5' ADP sing 92 n n O2A HOA2 ADP sing 93 n n O5' C5' ADP sing 94 n n C5' C4' ADP sing 95 n n C5' "H5'1" ADP sing 96 n n C5' "H5'2" ADP sing 97 n n C4' O4' ADP sing 98 n n C4' C3' ADP sing 99 n n C4' H4' ADP sing 100 n n O4' C1' ADP sing 101 n n C3' O3' ADP sing 102 n n C3' C2' ADP sing 103 n n C3' H3' ADP sing 104 n n O3' HO3' ADP sing 105 n n C2' O2' ADP sing 106 n n C2' C1' ADP sing 107 n n C2' H2' ADP sing 108 n n O2' HO2' ADP sing 109 n n C1' N9 ADP sing 110 n n C1' H1' ADP sing 111 n n N9 C8 ADP sing 112 n y N9 C4 ADP sing 113 n y C8 N7 ADP doub 114 n y C8 H8 ADP sing 115 n n N7 C5 ADP sing 116 n y C5 C6 ADP sing 117 n y C5 C4 ADP doub 118 n y C6 N6 ADP sing 119 n n C6 N1 ADP doub 120 n y N6 HN61 ADP sing 121 n n N6 HN62 ADP sing 122 n n N1 C2 ADP sing 123 n y C2 N3 ADP doub 124 n y C2 H2 ADP sing 125 n n N3 C4 ADP sing 126 n y # _atom_sites.entry_id 8VP5 _atom_sites.fract_transf_matrix[1][1] 1 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 1 _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] 1 _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 E 3 ADP A 1 801 801 ADP ADP . F 4 A1ACX A 1 802 803 A1ACX FAA . G 4 A1ACX A 1 803 804 A1ACX FAA . H 4 A1ACX B 1 801 802 A1ACX FAA . I 3 ADP B 1 802 801 ADP ADP . J 4 A1ACX B 1 803 802 A1ACX FAA . K 5 POV B 1 804 803 POV EPC . # 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 . . . E 3 115.94 115.521 163.227 1 130.03 ? PB ADP 801 A 1 HETATM 2 O O1B ADP . . . E 3 115.586 114.402 164.176 1 123.19 ? O1B ADP 801 A 1 HETATM 3 O O2B ADP . . . E 3 114.891 115.814 162.183 1 126.11 ? O2B ADP 801 A 1 HETATM 4 O O3B ADP . . . E 3 116.508 116.748 163.896 1 123.65 ? O3B ADP 801 A 1 HETATM 5 P PA ADP . . . E 3 116.986 113.706 161.361 1 127.73 ? PA ADP 801 A 1 HETATM 6 O O1A ADP . . . E 3 116.213 112.615 162.056 1 120.44 ? O1A ADP 801 A 1 HETATM 7 O O2A ADP . . . E 3 116.476 114.229 160.04 1 121.54 ? O2A ADP 801 A 1 HETATM 8 O O3A ADP . . . E 3 117.179 114.934 162.384 1 126.81 ? O3A ADP 801 A 1 HETATM 9 O O5' ADP . . . E 3 118.494 113.185 161.165 1 126.67 ? O5' ADP 801 A 1 HETATM 10 C C5' ADP . . . E 3 118.818 111.817 161.396 1 123.55 ? C5' ADP 801 A 1 HETATM 11 C C4' ADP . . . E 3 120.014 111.428 160.54 1 123.37 ? C4' ADP 801 A 1 HETATM 12 O O4' ADP . . . E 3 119.564 110.598 159.471 1 124.23 ? O4' ADP 801 A 1 HETATM 13 C C3' ADP . . . E 3 120.691 112.644 159.929 1 122.67 ? C3' ADP 801 A 1 HETATM 14 O O3' ADP . . . E 3 122.034 112.746 160.407 1 121.49 ? O3' ADP 801 A 1 HETATM 15 C C2' ADP . . . E 3 120.695 112.413 158.432 1 121.71 ? C2' ADP 801 A 1 HETATM 16 O O2' ADP . . . E 3 122.034 112.459 157.931 1 122.17 ? O2' ADP 801 A 1 HETATM 17 C C1' ADP . . . E 3 120.108 111.028 158.224 1 122.57 ? C1' ADP 801 A 1 HETATM 18 N N9 ADP . . . E 3 119.027 111.088 157.212 1 121.57 ? N9 ADP 801 A 1 HETATM 19 C C8 ADP . . . E 3 117.885 111.789 157.325 1 121.12 ? C8 ADP 801 A 1 HETATM 20 N N7 ADP . . . E 3 117.106 111.634 156.225 1 121.37 ? N7 ADP 801 A 1 HETATM 21 C C5 ADP . . . E 3 117.761 110.817 155.381 1 123.55 ? C5 ADP 801 A 1 HETATM 22 C C6 ADP . . . E 3 117.507 110.243 154.041 1 123.52 ? C6 ADP 801 A 1 HETATM 23 N N6 ADP . . . E 3 116.365 110.522 153.37 1 122.21 ? N6 ADP 801 A 1 HETATM 24 N N1 ADP . . . E 3 118.451 109.433 153.514 1 122.08 ? N1 ADP 801 A 1 HETATM 25 C C2 ADP . . . E 3 119.589 109.149 154.173 1 121.28 ? C2 ADP 801 A 1 HETATM 26 N N3 ADP . . . E 3 119.885 109.635 155.391 1 122.08 ? N3 ADP 801 A 1 HETATM 27 C C4 ADP . . . E 3 119.028 110.461 156.034 1 122.8 ? C4 ADP 801 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 19 _model_server_stats.query_time_ms 319 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 27 #