data_3PGK # _model_server_result.job_id 45Mns5HO2OKoTD4YJS-PWA _model_server_result.datetime_utc '2025-04-15 12:11:10' _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 3pgk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":417}' # _entry.id 3PGK # _exptl.entry_id 3PGK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 507.181 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-TRIPHOSPHATE" _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 134.4 _cell.angle_gamma 90 _cell.entry_id 3PGK _cell.length_a 126.6 _cell.length_b 54.4 _cell.length_c 93 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3PGK _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 ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D _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 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order metalc ? metalc1 A OD1 ASP 373 A ASP 372 1_555 B MG MG . A MG 416 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.319 ? metalc ? metalc2 B MG MG . A MG 416 1_555 C O3G ATP . A ATP 417 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.035 ? metalc ? metalc3 B MG MG . A MG 416 1_555 C O2G ATP . A ATP 417 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.365 ? metalc ? metalc4 B MG MG . A MG 416 1_555 C O1G ATP . A ATP 417 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.431 ? # _chem_comp.formula 'C10 H16 N5 O13 P3' _chem_comp.formula_weight 507.181 _chem_comp.id ATP _chem_comp.mon_nstd_flag . _chem_comp.name "ADENOSINE-5'-TRIPHOSPHATE" _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 PG O1G ATP doub 93 n n PG O2G ATP sing 94 n n PG O3G ATP sing 95 n n PG O3B ATP sing 96 n n O2G HOG2 ATP sing 97 n n O3G HOG3 ATP sing 98 n n PB O1B ATP doub 99 n n PB O2B ATP sing 100 n n PB O3B ATP sing 101 n n PB O3A ATP sing 102 n n O2B HOB2 ATP sing 103 n n PA O1A ATP doub 104 n n PA O2A ATP sing 105 n n PA O3A ATP sing 106 n n PA O5' ATP sing 107 n n O2A HOA2 ATP sing 108 n n O5' C5' ATP sing 109 n n C5' C4' ATP sing 110 n n C5' "H5'1" ATP sing 111 n n C5' "H5'2" ATP sing 112 n n C4' O4' ATP sing 113 n n C4' C3' ATP sing 114 n n C4' H4' ATP sing 115 n n O4' C1' ATP sing 116 n n C3' O3' ATP sing 117 n n C3' C2' ATP sing 118 n n C3' H3' ATP sing 119 n n O3' HO3' ATP sing 120 n n C2' O2' ATP sing 121 n n C2' C1' ATP sing 122 n n C2' H2' ATP sing 123 n n O2' HO2' ATP sing 124 n n C1' N9 ATP sing 125 n n C1' H1' ATP sing 126 n n N9 C8 ATP sing 127 n y N9 C4 ATP sing 128 n y C8 N7 ATP doub 129 n y C8 H8 ATP sing 130 n n N7 C5 ATP sing 131 n y C5 C6 ATP sing 132 n y C5 C4 ATP doub 133 n y C6 N6 ATP sing 134 n n C6 N1 ATP doub 135 n y N6 HN61 ATP sing 136 n n N6 HN62 ATP sing 137 n n N1 C2 ATP sing 138 n y C2 N3 ATP doub 139 n y C2 H2 ATP sing 140 n n N3 C4 ATP sing 141 n y # _atom_sites.entry_id 3PGK _atom_sites.fract_transf_matrix[1][1] 0.007899 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.007735 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018382 _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] 0.01505 _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 B 2 MG A 1 416 2 MG MG . C 3 ATP A 1 417 1 ATP ATP . D 4 3PG A 1 418 3 3PG MP3 . # 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 PG ATP . . . C 3 26.299 -7.663 15.877 1 0 ? PG ATP 417 A 1 HETATM 2 O O1G ATP . . . C 3 26.984 -6.784 16.851 1 0 ? O1G ATP 417 A 1 HETATM 3 O O2G ATP . . . C 3 26.302 -7.005 14.551 1 0 ? O2G ATP 417 A 1 HETATM 4 O O3G ATP . . . C 3 25.202 -7.867 14.904 1 0 ? O3G ATP 417 A 1 HETATM 5 P PB ATP . . . C 3 27.231 -10.276 16.793 1 0 ? PB ATP 417 A 1 HETATM 6 O O1B ATP . . . C 3 25.966 -10.686 17.443 1 0 ? O1B ATP 417 A 1 HETATM 7 O O2B ATP . . . C 3 27.899 -11.472 16.236 1 0 ? O2B ATP 417 A 1 HETATM 8 O O3B ATP . . . C 3 27.069 -9.112 15.786 1 0 ? O3B ATP 417 A 1 HETATM 9 P PA ATP . . . C 3 27.839 -9.007 19.234 1 0 ? PA ATP 417 A 1 HETATM 10 O O1A ATP . . . C 3 26.579 -8.233 19.223 1 0 ? O1A ATP 417 A 1 HETATM 11 O O2A ATP . . . C 3 27.757 -10.065 20.266 1 0 ? O2A ATP 417 A 1 HETATM 12 O O3A ATP . . . C 3 28.192 -9.563 17.876 1 0 ? O3A ATP 417 A 1 HETATM 13 O O5' ATP . . . C 3 29.043 -8.062 19.532 1 0 ? O5' ATP 417 A 1 HETATM 14 C C5' ATP . . . C 3 29.378 -7.944 20.887 1 0 ? C5' ATP 417 A 1 HETATM 15 C C4' ATP . . . C 3 28.508 -6.926 21.566 1 0 ? C4' ATP 417 A 1 HETATM 16 O O4' ATP . . . C 3 28.064 -7.493 22.81 1 0 ? O4' ATP 417 A 1 HETATM 17 C C3' ATP . . . C 3 29.295 -5.693 21.908 1 0 ? C3' ATP 417 A 1 HETATM 18 O O3' ATP . . . C 3 29.297 -4.776 20.797 1 0 ? O3' ATP 417 A 1 HETATM 19 C C2' ATP . . . C 3 28.599 -5.217 23.166 1 0 ? C2' ATP 417 A 1 HETATM 20 O O2' ATP . . . C 3 27.485 -4.346 22.894 1 0 ? O2' ATP 417 A 1 HETATM 21 C C1' ATP . . . C 3 28.134 -6.54 23.798 1 0 ? C1' ATP 417 A 1 HETATM 22 N N9 ATP . . . C 3 29.005 -7.147 24.743 1 0 ? N9 ATP 417 A 1 HETATM 23 C C8 ATP . . . C 3 29.412 -8.433 24.639 1 0 ? C8 ATP 417 A 1 HETATM 24 N N7 ATP . . . C 3 30.147 -8.915 25.551 1 0 ? N7 ATP 417 A 1 HETATM 25 C C5 ATP . . . C 3 30.274 -7.895 26.335 1 0 ? C5 ATP 417 A 1 HETATM 26 C C6 ATP . . . C 3 30.994 -7.827 27.495 1 0 ? C6 ATP 417 A 1 HETATM 27 N N6 ATP . . . C 3 31.688 -8.828 28.028 1 0 ? N6 ATP 417 A 1 HETATM 28 N N1 ATP . . . C 3 30.977 -6.64 28.117 1 0 ? N1 ATP 417 A 1 HETATM 29 C C2 ATP . . . C 3 30.261 -5.607 27.562 1 0 ? C2 ATP 417 A 1 HETATM 30 N N3 ATP . . . C 3 29.556 -5.585 26.474 1 0 ? N3 ATP 417 A 1 HETATM 31 C C4 ATP . . . C 3 29.601 -6.774 25.885 1 0 ? C4 ATP 417 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 267 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 31 #