data_5U8S # _model_server_result.job_id DuuVuWJTATYEK-seYMPsHQ _model_server_result.datetime_utc '2024-10-18 20:31:58' _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 5u8s # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"O","auth_seq_id":1001}' # _entry.id 5U8S # _exptl.entry_id 5U8S _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 507.181 _entity.id 14 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-TRIPHOSPHATE" _entity.pdbx_number_of_molecules 3 _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 5U8S _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5U8S _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 tridecameric _pdbx_struct_assembly.oligomeric_count 13 _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 _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 ? 14 N N N ? 14 O N N ? 14 P 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 K SG CYS 183 5 CYS 183 1_555 K SG CYS 186 5 CYS 186 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.839 ? disulf ? disulf2 K SG CYS 183 5 CYS 183 1_555 K SG CYS 211 5 CYS 211 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf3 K SG CYS 183 5 CYS 183 1_555 K SG CYS 236 5 CYS 236 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf4 K SG CYS 186 5 CYS 186 1_555 K SG CYS 211 5 CYS 211 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf5 K SG CYS 186 5 CYS 186 1_555 K SG CYS 236 5 CYS 236 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? disulf ? disulf6 K SG CYS 211 5 CYS 211 1_555 K SG CYS 236 5 CYS 236 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf7 M SG CYS 265 7 CYS 265 1_555 M SG CYS 289 7 CYS 289 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf8 M SG CYS 474 7 CYS 474 1_555 M SG CYS 522 7 CYS 522 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? hydrog WATSON-CRICK hydrog1 F N1 DA 1 F DA 1 1_555 G N3 DT 14 G DT 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 F N6 DA 1 F DA 1 1_555 G O4 DT 14 G DT 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 F N3 DT 2 F DT 2 1_555 G N1 DA 13 G DA 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 F O4 DT 2 F DT 2 1_555 G N6 DA 13 G DA 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DC-DG PAIR' hydrog5 F O2 DC 3 F DC 3 1_555 G N1 DG 12 G DG 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 F N1 DG 4 F DG 4 1_555 G N3 DC 11 G DC 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 F N2 DG 4 F DG 4 1_555 G O2 DC 11 G DC 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 F O6 DG 4 F DG 4 1_555 G N4 DC 11 G DC 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 F N1 DA 5 F DA 5 1_555 G N3 DT 10 G DT 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 F N6 DA 5 F DA 5 1_555 G O4 DT 10 G DT 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 F N3 DT 6 F DT 6 1_555 G N1 DA 9 G DA 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 F O4 DT 6 F DT 6 1_555 G N6 DA 9 G DA 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 F N3 DC 7 F DC 7 1_555 G N1 DG 8 G DG 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 F N4 DC 7 F DC 7 1_555 G O6 DG 8 G DG 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 F O2 DC 7 F DC 7 1_555 G N2 DG 8 G DG 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 F N1 DG 8 F DG 8 1_555 G N3 DC 7 G DC 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 F N2 DG 8 F DG 8 1_555 G O2 DC 7 G DC 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 F O6 DG 8 F DG 8 1_555 G N4 DC 7 G DC 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DA-DT PAIR' hydrog19 F N1 DA 9 F DA 9 1_555 G N3 DT 6 G DT 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 F N3 DT 10 F DT 10 1_555 G N1 DA 5 G DA 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog21 F O4 DT 10 F DT 10 1_555 G N6 DA 5 G DA 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog22 F N3 DC 11 F DC 11 1_555 G N1 DG 4 G DG 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog23 F N4 DC 11 F DC 11 1_555 G O6 DG 4 G DG 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog24 F O2 DC 11 F DC 11 1_555 G N2 DG 4 G DG 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog25 F N1 DG 12 F DG 12 1_555 G N3 DC 3 G DC 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog26 F N2 DG 12 F DG 12 1_555 G O2 DC 3 G DC 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog27 F O6 DG 12 F DG 12 1_555 G N4 DC 3 G DC 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog28 F N1 DA 13 F DA 13 1_555 G N3 DT 2 G DT 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog29 F N6 DA 13 F DA 13 1_555 G O4 DT 2 G DT 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog30 F N3 DT 14 F DT 14 1_555 G N1 DA 1 G DA 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog31 F O4 DT 14 F DT 14 1_555 G N6 DA 1 G DA 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _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 5U8S _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 N 14 ATP 2 1 901 1 ATP ATP . O 14 ATP 3 1 1001 3 ATP ATP . P 14 ATP 5 1 801 2 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 . . . O 14 168.778 174.964 199.91 1 220.43 ? PG ATP 1001 3 1 HETATM 2 O O1G ATP . . . O 14 169.042 175.871 198.729 1 214.18 ? O1G ATP 1001 3 1 HETATM 3 O O2G ATP . . . O 14 168.346 175.694 201.16 1 245.28 -1 O2G ATP 1001 3 1 HETATM 4 O O3G ATP . . . O 14 167.959 173.736 199.587 1 213.49 ? O3G ATP 1001 3 1 HETATM 5 P PB ATP . . . O 14 171.168 173.673 199.182 1 210 ? PB ATP 1001 3 1 HETATM 6 O O1B ATP . . . O 14 170.448 173.641 197.852 1 207.67 ? O1B ATP 1001 3 1 HETATM 7 O O2B ATP . . . O 14 171.724 172.4 199.778 1 181.85 -1 O2B ATP 1001 3 1 HETATM 8 O O3B ATP . . . O 14 170.233 174.385 200.286 1 214.95 ? O3B ATP 1001 3 1 HETATM 9 P PA ATP . . . O 14 173.556 174.632 198.035 1 207.17 ? PA ATP 1001 3 1 HETATM 10 O O1A ATP . . . O 14 172.996 174.912 196.66 1 205.97 ? O1A ATP 1001 3 1 HETATM 11 O O2A ATP . . . O 14 174.305 173.351 198.316 1 206.27 ? O2A ATP 1001 3 1 HETATM 12 O O3A ATP . . . O 14 172.363 174.746 199.106 1 211.11 ? O3A ATP 1001 3 1 HETATM 13 O O5' ATP . . . O 14 174.466 175.874 198.505 1 206.86 ? O5' ATP 1001 3 1 HETATM 14 C C5' ATP . . . O 14 174.962 175.904 199.842 1 205.16 ? C5' ATP 1001 3 1 HETATM 15 C C4' ATP . . . O 14 176.15 176.848 199.961 1 205.03 ? C4' ATP 1001 3 1 HETATM 16 O O4' ATP . . . O 14 176.474 177.024 201.343 1 207.08 ? O4' ATP 1001 3 1 HETATM 17 C C3' ATP . . . O 14 177.371 176.274 199.266 1 205.16 ? C3' ATP 1001 3 1 HETATM 18 O O3' ATP . . . O 14 178.039 177.295 198.518 1 205.64 ? O3' ATP 1001 3 1 HETATM 19 C C2' ATP . . . O 14 178.239 175.751 200.392 1 204.78 ? C2' ATP 1001 3 1 HETATM 20 O O2' ATP . . . O 14 179.63 175.975 200.14 1 202.48 ? O2' ATP 1001 3 1 HETATM 21 C C1' ATP . . . O 14 177.773 176.501 201.632 1 206.38 ? C1' ATP 1001 3 1 HETATM 22 N N9 ATP . . . O 14 177.692 175.597 202.806 1 207.36 ? N9 ATP 1001 3 1 HETATM 23 C C8 ATP . . . O 14 176.616 175.429 203.602 1 207.45 ? C8 ATP 1001 3 1 HETATM 24 N N7 ATP . . . O 14 176.886 174.538 204.591 1 208.43 ? N7 ATP 1001 3 1 HETATM 25 C C5 ATP . . . O 14 178.159 174.132 204.438 1 211.63 ? C5 ATP 1001 3 1 HETATM 26 C C6 ATP . . . O 14 179.075 173.203 205.137 1 214.15 ? C6 ATP 1001 3 1 HETATM 27 N N6 ATP . . . O 14 178.658 172.517 206.229 1 211.85 ? N6 ATP 1001 3 1 HETATM 28 N N1 ATP . . . O 14 180.328 173.067 204.647 1 211.38 ? N1 ATP 1001 3 1 HETATM 29 C C2 ATP . . . O 14 180.749 173.745 203.561 1 211.36 ? C2 ATP 1001 3 1 HETATM 30 N N3 ATP . . . O 14 179.965 174.604 202.883 1 209.77 ? N3 ATP 1001 3 1 HETATM 31 C C4 ATP . . . O 14 178.688 174.838 203.265 1 208.91 ? C4 ATP 1001 3 1 # _model_server_stats.io_time_ms 26 _model_server_stats.parse_time_ms 20 _model_server_stats.create_model_time_ms 74 _model_server_stats.query_time_ms 288 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 31 #