data_6UGD # _model_server_result.job_id rQenqLvZBc6Tjn2aHDitzA _model_server_result.datetime_utc '2024-10-15 11:19:01' _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 6ugd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"P","auth_seq_id":501}' # _entry.id 6UGD # _exptl.entry_id 6UGD _exptl.method 'ELECTRON MICROSCOPY' # _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 6 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details heptameric _pdbx_struct_assembly.oligomeric_count 7 _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,M,N,O,P,Q,R _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 H N N ? 3 J N N ? 3 L N N ? 3 N N N ? 3 P N N ? 3 R 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 metalc ? metalc1 A OG1 THR 258 A THR 240 1_555 I MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? metalc ? metalc2 H O2G ATP . A ATP 501 1_555 I MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.848 ? metalc ? metalc3 B OG1 THR 258 B THR 240 1_555 K MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.899 ? metalc ? metalc4 J O2G ATP . B ATP 501 1_555 K MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.711 ? metalc ? metalc5 J O3G ATP . B ATP 501 1_555 K MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.117 ? metalc ? metalc6 J O2B ATP . B ATP 501 1_555 K MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.204 ? metalc ? metalc7 J O3B ATP . B ATP 501 1_555 K MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.332 ? metalc ? metalc8 C OG1 THR 258 C THR 240 1_555 M MG MG . C MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.124 ? metalc ? metalc9 L O2G ATP . C ATP 501 1_555 M MG MG . C MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.798 ? metalc ? metalc10 L O3B ATP . C ATP 501 1_555 M MG MG . C MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.082 ? metalc ? metalc11 D OG1 THR 258 D THR 240 1_555 O MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.555 ? metalc ? metalc12 N O2G ATP . D ATP 501 1_555 O MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.231 ? metalc ? metalc13 N O3G ATP . D ATP 501 1_555 O MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.127 ? metalc ? metalc14 N O2B ATP . D ATP 501 1_555 O MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.126 ? metalc ? metalc15 N O3B ATP . D ATP 501 1_555 O MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.9 ? metalc ? metalc16 E OG1 THR 258 E THR 240 1_555 Q MG MG . E MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.187 ? metalc ? metalc17 P O1G ATP . E ATP 501 1_555 Q MG MG . E MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.257 ? metalc ? metalc18 P O1B ATP . E ATP 501 1_555 Q MG MG . E MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.522 ? # _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 6UGD _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 H 3 ATP A 1 501 501 ATP ATP . I 4 MG A 1 502 3 MG MG . J 3 ATP B 1 501 501 ATP ATP . K 4 MG B 1 502 4 MG MG . L 3 ATP C 1 501 501 ATP ATP . M 4 MG C 1 502 5 MG MG . N 3 ATP D 1 501 501 ATP ATP . O 4 MG D 1 502 1 MG MG . P 3 ATP E 1 501 501 ATP ATP . Q 4 MG E 1 502 2 MG MG . R 3 ATP F 1 501 501 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 . . . P 3 121.659 90.424 134.509 1 1.2 ? PG ATP 501 E 1 HETATM 2 O O1G ATP . . . P 3 122.06 91.112 133.23 1 1.2 ? O1G ATP 501 E 1 HETATM 3 O O2G ATP . . . P 3 120.188 90.506 134.809 1 1.2 -1 O2G ATP 501 E 1 HETATM 4 O O3G ATP . . . P 3 122.547 90.743 135.68 1 1.2 ? O3G ATP 501 E 1 HETATM 5 P PB ATP . . . P 3 123.377 88.309 133.919 1 1.2 ? PB ATP 501 E 1 HETATM 6 O O1B ATP . . . P 3 123.827 88.948 132.631 1 1.2 -1 O1B ATP 501 E 1 HETATM 7 O O2B ATP . . . P 3 124.223 88.422 135.16 1 1.2 ? O2B ATP 501 E 1 HETATM 8 O O3B ATP . . . P 3 121.904 88.857 134.246 1 1.2 ? O3B ATP 501 E 1 HETATM 9 P PA ATP . . . P 3 124.354 85.858 133.066 1 1.2 ? PA ATP 501 E 1 HETATM 10 O O1A ATP . . . P 3 123.796 85.122 131.88 1 1.2 -1 O1A ATP 501 E 1 HETATM 11 O O2A ATP . . . P 3 125.584 86.706 132.883 1 1.2 ? O2A ATP 501 E 1 HETATM 12 O O3A ATP . . . P 3 123.153 86.747 133.649 1 1.2 ? O3A ATP 501 E 1 HETATM 13 O O5' ATP . . . P 3 124.679 84.769 134.197 1 1.2 ? O5' ATP 501 E 1 HETATM 14 C C5' ATP . . . P 3 125.689 85.019 135.166 1 1.2 ? C5' ATP 501 E 1 HETATM 15 C C4' ATP . . . P 3 126.28 83.692 135.624 1 1.2 ? C4' ATP 501 E 1 HETATM 16 O O4' ATP . . . P 3 125.237 82.789 135.984 1 1.2 ? O4' ATP 501 E 1 HETATM 17 C C3' ATP . . . P 3 127.079 83.034 134.519 1 1.2 ? C3' ATP 501 E 1 HETATM 18 O O3' ATP . . . P 3 128.446 82.941 134.918 1 1.2 ? O3' ATP 501 E 1 HETATM 19 C C2' ATP . . . P 3 126.515 81.643 134.366 1 1.2 ? C2' ATP 501 E 1 HETATM 20 O O2' ATP . . . P 3 127.553 80.693 134.599 1 1.2 ? O2' ATP 501 E 1 HETATM 21 C C1' ATP . . . P 3 125.459 81.491 135.44 1 1.2 ? C1' ATP 501 E 1 HETATM 22 N N9 ATP . . . P 3 124.177 81.013 134.875 1 1.2 ? N9 ATP 501 E 1 HETATM 23 C C8 ATP . . . P 3 123.016 81.677 134.98 1 1.2 ? C8 ATP 501 E 1 HETATM 24 N N7 ATP . . . P 3 122.004 81.007 134.383 1 1.2 ? N7 ATP 501 E 1 HETATM 25 C C5 ATP . . . P 3 122.522 79.877 133.886 1 1.2 ? C5 ATP 501 E 1 HETATM 26 C C6 ATP . . . P 3 121.996 78.723 133.137 1 1.2 ? C6 ATP 501 E 1 HETATM 27 N N6 ATP . . . P 3 120.688 78.658 132.805 1 1.2 ? N6 ATP 501 E 1 HETATM 28 N N1 ATP . . . P 3 122.859 77.744 132.804 1 1.2 ? N1 ATP 501 E 1 HETATM 29 C C2 ATP . . . P 3 124.159 77.807 133.134 1 1.2 ? C2 ATP 501 E 1 HETATM 30 N N3 ATP . . . P 3 124.703 78.827 133.814 1 1.2 ? N3 ATP 501 E 1 HETATM 31 C C4 ATP . . . P 3 123.951 79.877 134.214 1 1.2 ? C4 ATP 501 E 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 14 _model_server_stats.query_time_ms 291 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 31 #