data_5TFG # _model_server_result.job_id BjI7IFhQZm5NF8ClwEObPQ _model_server_result.datetime_utc '2025-07-04 18:27:28' _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 5tfg # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":702}' # _entry.id 5TFG # _exptl.entry_id 5TFG _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 498.168 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '5-Methyluridine 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 90 _cell.angle_gamma 90 _cell.entry_id 5TFG _cell.length_a 40.147 _cell.length_b 40.147 _cell.length_c 141.787 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5TFG _symmetry.cell_setting ? _symmetry.Int_Tables_number 78 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 OG1 THR 48 A THR 465 1_555 B MG MG . A MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.008 ? metalc ? metalc2 A OE1 GLN 76 A GLN 493 1_555 B MG MG . A MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.111 ? metalc ? metalc3 B MG MG . A MG 701 1_555 C O22 M5T . A M5T 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.154 ? metalc ? metalc4 B MG MG . A MG 701 1_555 C O28 M5T . A M5T 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.979 ? metalc ? metalc5 B MG MG . A MG 701 1_555 D O HOH . A HOH 812 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.165 ? metalc ? metalc6 B MG MG . A MG 701 1_555 D O HOH . A HOH 818 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.096 ? # _chem_comp.formula 'C10 H17 N2 O15 P3' _chem_comp.formula_weight 498.168 _chem_comp.id M5T _chem_comp.mon_nstd_flag . _chem_comp.name '5-Methyluridine 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 O29 C12 M5T sing 218 n n O23 P21 M5T doub 219 n n C12 C13 M5T sing 220 n n C12 C11 M5T sing 221 n n C13 C15 M5T sing 222 n n C13 O14 M5T sing 223 n n C15 O16 M5T sing 224 n n O27 P25 M5T doub 225 n n O24 P21 M5T sing 226 n n O24 P25 M5T sing 227 n n O26 P25 M5T sing 228 n n O20 P21 M5T sing 229 n n O20 P17 M5T sing 230 n n P21 O22 M5T sing 231 n n P25 O28 M5T sing 232 n n O16 P17 M5T sing 233 n n C11 O30 M5T sing 234 n n C11 C10 M5T sing 235 n n O14 C10 M5T sing 236 n n P17 O18 M5T doub 237 n n P17 O19 M5T sing 238 n n C10 N04 M5T sing 239 n n N04 C03 M5T sing 240 n n N04 C05 M5T sing 241 n n O06 C05 M5T doub 242 n n C03 C02 M5T doub 243 n n C05 N07 M5T sing 244 n n C02 C01 M5T sing 245 n n C02 C08 M5T sing 246 n n N07 C08 M5T sing 247 n n C08 O09 M5T doub 248 n n C15 H1 M5T sing 249 n n C15 H2 M5T sing 250 n n C10 H3 M5T sing 251 n n C11 H4 M5T sing 252 n n C12 H5 M5T sing 253 n n C13 H6 M5T sing 254 n n C01 H7 M5T sing 255 n n C01 H8 M5T sing 256 n n C01 H9 M5T sing 257 n n C03 H10 M5T sing 258 n n N07 H11 M5T sing 259 n n O19 H12 M5T sing 260 n n O22 H13 M5T sing 261 n n O26 H14 M5T sing 262 n n O28 H15 M5T sing 263 n n O29 H16 M5T sing 264 n n O30 H17 M5T sing 265 n n # _atom_sites.entry_id 5TFG _atom_sites.fract_transf_matrix[1][1] 0.024908 _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] 0.024908 _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] 0.007053 _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 1 701 700 MG MG . C 3 M5T A 1 702 1 M5T 5MT . D 4 HOH A 1 801 184 HOH HOH . D 4 HOH A 2 802 185 HOH HOH . D 4 HOH A 3 803 189 HOH HOH . D 4 HOH A 4 804 36 HOH HOH . D 4 HOH A 5 805 152 HOH HOH . D 4 HOH A 6 806 163 HOH HOH . D 4 HOH A 7 807 76 HOH HOH . D 4 HOH A 8 808 166 HOH HOH . D 4 HOH A 9 809 17 HOH HOH . D 4 HOH A 10 810 54 HOH HOH . D 4 HOH A 11 811 119 HOH HOH . D 4 HOH A 12 812 7 HOH HOH . D 4 HOH A 13 813 98 HOH HOH . D 4 HOH A 14 814 176 HOH HOH . D 4 HOH A 15 815 83 HOH HOH . D 4 HOH A 16 816 63 HOH HOH . D 4 HOH A 17 817 57 HOH HOH . D 4 HOH A 18 818 1 HOH HOH . D 4 HOH A 19 819 123 HOH HOH . D 4 HOH A 20 820 10 HOH HOH . D 4 HOH A 21 821 92 HOH HOH . D 4 HOH A 22 822 114 HOH HOH . D 4 HOH A 23 823 52 HOH HOH . D 4 HOH A 24 824 5 HOH HOH . D 4 HOH A 25 825 30 HOH HOH . D 4 HOH A 26 826 8 HOH HOH . D 4 HOH A 27 827 53 HOH HOH . D 4 HOH A 28 828 77 HOH HOH . D 4 HOH A 29 829 19 HOH HOH . D 4 HOH A 30 830 12 HOH HOH . D 4 HOH A 31 831 56 HOH HOH . D 4 HOH A 32 832 29 HOH HOH . D 4 HOH A 33 833 125 HOH HOH . D 4 HOH A 34 834 117 HOH HOH . D 4 HOH A 35 835 181 HOH HOH . D 4 HOH A 36 836 128 HOH HOH . D 4 HOH A 37 837 2 HOH HOH . D 4 HOH A 38 838 40 HOH HOH . D 4 HOH A 39 839 13 HOH HOH . D 4 HOH A 40 840 177 HOH HOH . D 4 HOH A 41 841 96 HOH HOH . D 4 HOH A 42 842 99 HOH HOH . D 4 HOH A 43 843 75 HOH HOH . D 4 HOH A 44 844 74 HOH HOH . D 4 HOH A 45 845 182 HOH HOH . D 4 HOH A 46 846 18 HOH HOH . D 4 HOH A 47 847 73 HOH HOH . D 4 HOH A 48 848 161 HOH HOH . D 4 HOH A 49 849 158 HOH HOH . D 4 HOH A 50 850 26 HOH HOH . D 4 HOH A 51 851 149 HOH HOH . D 4 HOH A 52 852 88 HOH HOH . D 4 HOH A 53 853 33 HOH HOH . D 4 HOH A 54 854 160 HOH HOH . D 4 HOH A 55 855 102 HOH HOH . D 4 HOH A 56 856 178 HOH HOH . D 4 HOH A 57 857 43 HOH HOH . D 4 HOH A 58 858 143 HOH HOH . D 4 HOH A 59 859 139 HOH HOH . D 4 HOH A 60 860 31 HOH HOH . D 4 HOH A 61 861 3 HOH HOH . D 4 HOH A 62 862 4 HOH HOH . D 4 HOH A 63 863 93 HOH HOH . D 4 HOH A 64 864 86 HOH HOH . D 4 HOH A 65 865 121 HOH HOH . D 4 HOH A 66 866 145 HOH HOH . D 4 HOH A 67 867 58 HOH HOH . D 4 HOH A 68 868 32 HOH HOH . D 4 HOH A 69 869 82 HOH HOH . D 4 HOH A 70 870 61 HOH HOH . D 4 HOH A 71 871 131 HOH HOH . D 4 HOH A 72 872 59 HOH HOH . D 4 HOH A 73 873 118 HOH HOH . D 4 HOH A 74 874 20 HOH HOH . D 4 HOH A 75 875 50 HOH HOH . D 4 HOH A 76 876 66 HOH HOH . D 4 HOH A 77 877 134 HOH HOH . D 4 HOH A 78 878 6 HOH HOH . D 4 HOH A 79 879 170 HOH HOH . D 4 HOH A 80 880 107 HOH HOH . D 4 HOH A 81 881 11 HOH HOH . D 4 HOH A 82 882 16 HOH HOH . D 4 HOH A 83 883 90 HOH HOH . D 4 HOH A 84 884 133 HOH HOH . D 4 HOH A 85 885 28 HOH HOH . D 4 HOH A 86 886 27 HOH HOH . D 4 HOH A 87 887 187 HOH HOH . D 4 HOH A 88 888 87 HOH HOH . D 4 HOH A 89 889 78 HOH HOH . D 4 HOH A 90 890 106 HOH HOH . D 4 HOH A 91 891 100 HOH HOH . D 4 HOH A 92 892 112 HOH HOH . D 4 HOH A 93 893 84 HOH HOH . D 4 HOH A 94 894 60 HOH HOH . D 4 HOH A 95 895 37 HOH HOH . D 4 HOH A 96 896 120 HOH HOH . D 4 HOH A 97 897 9 HOH HOH . D 4 HOH A 98 898 41 HOH HOH . D 4 HOH A 99 899 24 HOH HOH . D 4 HOH A 100 900 14 HOH HOH . D 4 HOH A 101 901 135 HOH HOH . D 4 HOH A 102 902 62 HOH HOH . D 4 HOH A 103 903 72 HOH HOH . D 4 HOH A 104 904 130 HOH HOH . D 4 HOH A 105 905 144 HOH HOH . D 4 HOH A 106 906 91 HOH HOH . D 4 HOH A 107 907 38 HOH HOH . D 4 HOH A 108 908 68 HOH HOH . D 4 HOH A 109 909 67 HOH HOH . D 4 HOH A 110 910 47 HOH HOH . D 4 HOH A 111 911 22 HOH HOH . D 4 HOH A 112 912 46 HOH HOH . D 4 HOH A 113 913 15 HOH HOH . D 4 HOH A 114 914 105 HOH HOH . D 4 HOH A 115 915 51 HOH HOH . D 4 HOH A 116 916 190 HOH HOH . D 4 HOH A 117 917 65 HOH HOH . D 4 HOH A 118 918 34 HOH HOH . D 4 HOH A 119 919 23 HOH HOH . D 4 HOH A 120 920 81 HOH HOH . D 4 HOH A 121 921 124 HOH HOH . D 4 HOH A 122 922 45 HOH HOH . D 4 HOH A 123 923 138 HOH HOH . D 4 HOH A 124 924 44 HOH HOH . D 4 HOH A 125 925 55 HOH HOH . D 4 HOH A 126 926 136 HOH HOH . D 4 HOH A 127 927 129 HOH HOH . D 4 HOH A 128 928 42 HOH HOH . D 4 HOH A 129 929 71 HOH HOH . D 4 HOH A 130 930 141 HOH HOH . D 4 HOH A 131 931 69 HOH HOH . D 4 HOH A 132 932 146 HOH HOH . D 4 HOH A 133 933 95 HOH HOH . D 4 HOH A 134 934 39 HOH HOH . D 4 HOH A 135 935 150 HOH HOH . D 4 HOH A 136 936 155 HOH HOH . D 4 HOH A 137 937 113 HOH HOH . D 4 HOH A 138 938 108 HOH HOH . D 4 HOH A 139 939 49 HOH HOH . D 4 HOH A 140 940 104 HOH HOH . D 4 HOH A 141 941 137 HOH HOH . D 4 HOH A 142 942 165 HOH HOH . D 4 HOH A 143 943 175 HOH HOH . D 4 HOH A 144 944 89 HOH HOH . D 4 HOH A 145 945 179 HOH HOH . D 4 HOH A 146 946 64 HOH HOH . D 4 HOH A 147 947 70 HOH HOH . D 4 HOH A 148 948 101 HOH HOH . D 4 HOH A 149 949 25 HOH HOH . D 4 HOH A 150 950 94 HOH HOH . D 4 HOH A 151 951 168 HOH HOH . D 4 HOH A 152 952 126 HOH HOH . D 4 HOH A 153 953 48 HOH HOH . D 4 HOH A 154 954 111 HOH HOH . D 4 HOH A 155 955 156 HOH HOH . D 4 HOH A 156 956 21 HOH HOH . D 4 HOH A 157 957 154 HOH HOH . D 4 HOH A 158 958 97 HOH HOH . D 4 HOH A 159 959 148 HOH HOH . D 4 HOH A 160 960 169 HOH HOH . D 4 HOH A 161 961 147 HOH HOH . D 4 HOH A 162 962 110 HOH HOH . D 4 HOH A 163 963 183 HOH HOH . D 4 HOH A 164 964 186 HOH HOH . D 4 HOH A 165 965 116 HOH HOH . D 4 HOH A 166 966 159 HOH HOH . D 4 HOH A 167 967 79 HOH HOH . D 4 HOH A 168 968 35 HOH HOH . D 4 HOH A 169 969 80 HOH HOH . D 4 HOH A 170 970 122 HOH HOH . D 4 HOH A 171 971 164 HOH HOH . D 4 HOH A 172 972 142 HOH HOH . D 4 HOH A 173 973 153 HOH HOH . D 4 HOH A 174 974 167 HOH HOH . D 4 HOH A 175 975 180 HOH HOH . D 4 HOH A 176 976 127 HOH HOH . D 4 HOH A 177 977 115 HOH HOH . D 4 HOH A 178 978 109 HOH HOH . D 4 HOH A 179 979 85 HOH HOH . D 4 HOH A 180 980 151 HOH HOH . D 4 HOH A 181 981 188 HOH HOH . D 4 HOH A 182 982 103 HOH HOH . D 4 HOH A 183 983 172 HOH HOH . D 4 HOH A 184 984 173 HOH HOH . D 4 HOH A 185 985 140 HOH HOH . D 4 HOH A 186 986 162 HOH HOH . D 4 HOH A 187 987 174 HOH HOH . D 4 HOH A 188 988 132 HOH HOH . D 4 HOH A 189 989 157 HOH HOH . D 4 HOH A 190 990 171 HOH HOH . # 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 C C15 M5T . . . C 3 93.707 18.386 -12.96 1 17.73 ? C15 M5T 702 A 1 HETATM 2 C C10 M5T . . . C 3 96.444 19.102 -11.205 1 24.68 ? C10 M5T 702 A 1 HETATM 3 C C11 M5T . . . C 3 96.541 17.56 -11.835 1 28.27 ? C11 M5T 702 A 1 HETATM 4 C C12 M5T . . . C 3 96.132 17.684 -13.034 1 27.25 ? C12 M5T 702 A 1 HETATM 5 C C13 M5T . . . C 3 95.025 18.835 -13.018 1 23.64 ? C13 M5T 702 A 1 HETATM 6 C C01 M5T . . . C 3 93.644 18.082 -7.372 1 24.64 ? C01 M5T 702 A 1 HETATM 7 C C02 M5T . . . C 3 94.951 18.647 -7.925 1 27.94 ? C02 M5T 702 A 1 HETATM 8 C C03 M5T . . . C 3 95.17 18.639 -9.285 1 25.99 ? C03 M5T 702 A 1 HETATM 9 N N04 M5T . . . C 3 96.296 19.114 -9.783 1 26.58 ? N04 M5T 702 A 1 HETATM 10 C C05 M5T . . . C 3 97.232 19.616 -8.975 1 31.53 ? C05 M5T 702 A 1 HETATM 11 O O06 M5T . . . C 3 98.238 20.047 -9.428 1 31.22 ? O06 M5T 702 A 1 HETATM 12 N N07 M5T . . . C 3 97.07 19.643 -7.66 1 25.87 ? N07 M5T 702 A 1 HETATM 13 C C08 M5T . . . C 3 95.958 19.17 -7.112 1 32.87 ? C08 M5T 702 A 1 HETATM 14 O O09 M5T . . . C 3 95.819 19.205 -5.931 1 32 ? O09 M5T 702 A 1 HETATM 15 O O14 M5T . . . C 3 95.38 19.638 -11.746 1 25.33 ? O14 M5T 702 A 1 HETATM 16 O O16 M5T . . . C 3 93.643 17.419 -11.956 1 21.49 ? O16 M5T 702 A 1 HETATM 17 P P17 M5T . . . C 3 92.237 16.966 -11.242 1 17.79 ? P17 M5T 702 A 1 HETATM 18 O O18 M5T . . . C 3 91.405 18.171 -10.902 1 15.24 ? O18 M5T 702 A 1 HETATM 19 O O19 M5T . . . C 3 92.616 16.114 -10.061 1 18.63 -1 O19 M5T 702 A 1 HETATM 20 O O20 M5T . . . C 3 91.456 16.118 -12.393 1 16 ? O20 M5T 702 A 1 HETATM 21 P P21 M5T . . . C 3 90.138 15.174 -12.211 1 15.5 ? P21 M5T 702 A 1 HETATM 22 O O22 M5T . . . C 3 89.629 15.222 -10.797 1 13.39 ? O22 M5T 702 A 1 HETATM 23 O O23 M5T . . . C 3 89.146 15.672 -13.23 1 16.02 -1 O23 M5T 702 A 1 HETATM 24 O O24 M5T . . . C 3 90.706 13.725 -12.666 1 17.79 ? O24 M5T 702 A 1 HETATM 25 P P25 M5T . . . C 3 90.246 12.266 -12.112 1 16.3 ? P25 M5T 702 A 1 HETATM 26 O O26 M5T . . . C 3 91.352 11.329 -12.513 1 18.43 ? O26 M5T 702 A 1 HETATM 27 O O27 M5T . . . C 3 88.977 11.824 -12.795 1 16.42 -1 O27 M5T 702 A 1 HETATM 28 O O28 M5T . . . C 3 90.064 12.347 -10.611 1 19.71 -1 O28 M5T 702 A 1 HETATM 29 O O29 M5T . . . C 3 97.267 18.146 -13.892 1 29.5 ? O29 M5T 702 A 1 HETATM 30 O O30 M5T . . . C 3 97.918 17.083 -11.758 1 32.67 ? O30 M5T 702 A 1 # _model_server_stats.io_time_ms 51 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 279 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 30 #