data_8DTB # _model_server_result.job_id PO-rHSSpQ9xU21IidYFyhg _model_server_result.datetime_utc '2025-04-28 09:29:17' _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 8dtb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":5104}' # _entry.id 8DTB # _exptl.entry_id 8DTB _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 507.181 _entity.id 3 _entity.src_method nat _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-TRIPHOSPHATE" _entity.pdbx_number_of_molecules 4 _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 8DTB _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8DTB _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 pentameric _pdbx_struct_assembly.oligomeric_count 5 _pdbx_struct_assembly.details author_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 _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 ? _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 F N N ? 3 H N N ? 3 J N N ? 3 L N 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 disulf ? disulf1 A SG CYS 3 B CYS 3 1_555 A SG CYS 17 B CYS 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf2 A SG CYS 10 B CYS 10 1_555 A SG CYS 21 B CYS 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.008 ? disulf ? disulf3 A SG CYS 16 B CYS 16 1_555 A SG CYS 32 B CYS 32 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.064 ? disulf ? disulf4 B SG CYS 4876 G CYS 4876 1_555 B SG CYS 4882 G CYS 4882 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf5 C SG CYS 4876 A CYS 4876 1_555 C SG CYS 4882 A CYS 4882 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf6 D SG CYS 4876 D CYS 4876 1_555 D SG CYS 4882 D CYS 4882 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf7 E SG CYS 4876 J CYS 4876 1_555 E SG CYS 4882 J CYS 4882 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? # _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 70 n n PG O2G ATP sing 71 n n PG O3G ATP sing 72 n n PG O3B ATP sing 73 n n O2G HOG2 ATP sing 74 n n O3G HOG3 ATP sing 75 n n PB O1B ATP doub 76 n n PB O2B ATP sing 77 n n PB O3B ATP sing 78 n n PB O3A ATP sing 79 n n O2B HOB2 ATP sing 80 n n PA O1A ATP doub 81 n n PA O2A ATP sing 82 n n PA O3A ATP sing 83 n n PA O5' ATP sing 84 n n O2A HOA2 ATP sing 85 n n O5' C5' ATP sing 86 n n C5' C4' ATP sing 87 n n C5' "H5'1" ATP sing 88 n n C5' "H5'2" ATP sing 89 n n C4' O4' ATP sing 90 n n C4' C3' ATP sing 91 n n C4' H4' ATP sing 92 n n O4' C1' ATP sing 93 n n C3' O3' ATP sing 94 n n C3' C2' ATP sing 95 n n C3' H3' ATP sing 96 n n O3' HO3' ATP sing 97 n n C2' O2' ATP sing 98 n n C2' C1' ATP sing 99 n n C2' H2' ATP sing 100 n n O2' HO2' ATP sing 101 n n C1' N9 ATP sing 102 n n C1' H1' ATP sing 103 n n N9 C8 ATP sing 104 n y N9 C4 ATP sing 105 n y C8 N7 ATP doub 106 n y C8 H8 ATP sing 107 n n N7 C5 ATP sing 108 n y C5 C6 ATP sing 109 n y C5 C4 ATP doub 110 n y C6 N6 ATP sing 111 n n C6 N1 ATP doub 112 n y N6 HN61 ATP sing 113 n n N6 HN62 ATP sing 114 n n N1 C2 ATP sing 115 n y C2 N3 ATP doub 116 n y C2 H2 ATP sing 117 n n N3 C4 ATP sing 118 n y # _atom_sites.entry_id 8DTB _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 F 3 ATP G 1 5301 5301 ATP ATP . G 4 CFF A 1 5102 5102 CFF CFF . H 3 ATP A 1 5103 5103 ATP ATP . I 4 CFF D 1 5103 5103 CFF CFF . J 3 ATP D 1 5104 5104 ATP ATP . K 4 CFF J 1 5101 5101 CFF CFF . L 3 ATP J 1 5105 5105 ATP ATP . # 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 . . . J 3 284.691 251.543 214.716 1 111.24 ? PG ATP 5104 D 1 HETATM 2 O O1G ATP . . . J 3 286.081 251.032 214.889 1 108.61 ? O1G ATP 5104 D 1 HETATM 3 O O2G ATP . . . J 3 284.598 253.072 214.674 1 106.56 ? O2G ATP 5104 D 1 HETATM 4 O O3G ATP . . . J 3 283.97 250.964 213.493 1 107.46 ? O3G ATP 5104 D 1 HETATM 5 P PB ATP . . . J 3 282.555 251.673 216.814 1 105.25 ? PB ATP 5104 D 1 HETATM 6 O O1B ATP . . . J 3 282.998 252.581 217.891 1 98.33 ? O1B ATP 5104 D 1 HETATM 7 O O2B ATP . . . J 3 281.729 250.466 217.259 1 99 ? O2B ATP 5104 D 1 HETATM 8 O O3B ATP . . . J 3 283.776 251.119 215.958 1 106.74 ? O3B ATP 5104 D 1 HETATM 9 P PA ATP . . . J 3 280.723 253.689 215.653 1 103.97 ? PA ATP 5104 D 1 HETATM 10 O O1A ATP . . . J 3 279.568 253.431 214.769 1 101.05 ? O1A ATP 5104 D 1 HETATM 11 O O2A ATP . . . J 3 281.563 254.912 215.285 1 97.98 ? O2A ATP 5104 D 1 HETATM 12 O O3A ATP . . . J 3 281.71 252.442 215.704 1 103.04 ? O3A ATP 5104 D 1 HETATM 13 O O5' ATP . . . J 3 280.263 253.835 217.157 1 93.84 ? O5' ATP 5104 D 1 HETATM 14 C C5' ATP . . . J 3 278.989 253.324 217.603 1 86.63 ? C5' ATP 5104 D 1 HETATM 15 C C4' ATP . . . J 3 279.227 252.275 218.659 1 83.82 ? C4' ATP 5104 D 1 HETATM 16 O O4' ATP . . . J 3 278.614 252.691 219.901 1 81.49 ? O4' ATP 5104 D 1 HETATM 17 C C3' ATP . . . J 3 278.648 250.896 218.348 1 82.78 ? C3' ATP 5104 D 1 HETATM 18 O O3' ATP . . . J 3 279.469 249.865 218.885 1 82.34 ? O3' ATP 5104 D 1 HETATM 19 C C2' ATP . . . J 3 277.281 250.948 219.032 1 79.27 ? C2' ATP 5104 D 1 HETATM 20 O O2' ATP . . . J 3 276.822 249.651 219.394 1 78.14 ? O2' ATP 5104 D 1 HETATM 21 C C1' ATP . . . J 3 277.606 251.77 220.28 1 78.01 ? C1' ATP 5104 D 1 HETATM 22 N N9 ATP . . . J 3 276.473 252.518 220.815 1 73.45 ? N9 ATP 5104 D 1 HETATM 23 C C8 ATP . . . J 3 275.745 252.22 221.938 1 68.77 ? C8 ATP 5104 D 1 HETATM 24 N N7 ATP . . . J 3 274.775 253.065 222.188 1 67.81 ? N7 ATP 5104 D 1 HETATM 25 C C5 ATP . . . J 3 274.87 253.987 221.155 1 68.61 ? C5 ATP 5104 D 1 HETATM 26 C C6 ATP . . . J 3 274.125 255.14 220.84 1 67.23 ? C6 ATP 5104 D 1 HETATM 27 N N6 ATP . . . J 3 273.093 255.582 221.566 1 64.68 ? N6 ATP 5104 D 1 HETATM 28 N N1 ATP . . . J 3 274.481 255.836 219.737 1 66.5 ? N1 ATP 5104 D 1 HETATM 29 C C2 ATP . . . J 3 275.511 255.401 219.007 1 70.31 ? C2 ATP 5104 D 1 HETATM 30 N N3 ATP . . . J 3 276.284 254.331 219.205 1 73.63 ? N3 ATP 5104 D 1 HETATM 31 C C4 ATP . . . J 3 275.911 253.661 220.301 1 72.5 ? C4 ATP 5104 D 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 34 _model_server_stats.query_time_ms 271 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 31 #