data_6G3A # _model_server_result.job_id Lk22PXBQridunR2_wd9rlw _model_server_result.datetime_utc '2024-10-18 15:29:09' _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 6g3a # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":805}' # _entry.id 6G3A # _exptl.entry_id 6G3A _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 392.15 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (2R,3R,4S,5R)-2-(4-AMINO-5-IODO-7H-PYRROLO[2,3-D]PYRIMIDIN-7-YL)-5-(HYDROXYMETHYL)TETRAHYDROFURAN-3,4-DIOL _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 6G3A _cell.length_a 78.351 _cell.length_b 78.7 _cell.length_c 79.8 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6G3A _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # _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,E,F,G _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 D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _struct_conn.ptnr1_label_asym_id C _struct_conn.ptnr1_label_atom_id I _struct_conn.ptnr1_label_comp_id IOD _struct_conn.ptnr1_label_seq_id . _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id IOD _struct_conn.ptnr1_auth_seq_id 801 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id D _struct_conn.ptnr2_label_atom_id IAE _struct_conn.ptnr2_label_comp_id 5ID _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id 5ID _struct_conn.ptnr2_auth_seq_id 805 _struct_conn.ptnr2_symmetry 1_555 _struct_conn.pdbx_ptnr1_PDB_ins_code ? _struct_conn.pdbx_ptnr1_label_alt_id C _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 3.099 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C11 H13 I N4 O4' _chem_comp.formula_weight 392.15 _chem_comp.id 5ID _chem_comp.mon_nstd_flag . _chem_comp.name (2R,3R,4S,5R)-2-(4-AMINO-5-IODO-7H-PYRROLO[2,3-D]PYRIMIDIN-7-YL)-5-(HYDROXYMETHYL)TETRAHYDROFURAN-3,4-DIOL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 5-IODOTUBERCIDIN # 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 O5' C5' 5ID sing 1 n n O5' H5' 5ID sing 2 n n C5' C4' 5ID sing 3 n n C5' "H5'1" 5ID sing 4 n n C5' "H5'2" 5ID sing 5 n n C4' O4' 5ID sing 6 n n C4' C3' 5ID sing 7 n n C4' H4' 5ID sing 8 n n O4' C1' 5ID sing 9 n n C1' N9 5ID sing 10 n n C1' C2' 5ID sing 11 n n C1' H1' 5ID sing 12 n n N9 C8 5ID sing 13 n y N9 C4 5ID sing 14 n y C8 C7 5ID doub 15 n y C8 H8 5ID sing 16 n n C7 C5 5ID sing 17 n y C7 IAE 5ID sing 18 n n C5 C6 5ID doub 19 n y C5 C4 5ID sing 20 n y C6 N1 5ID sing 21 n y C6 N6 5ID sing 22 n n N1 C2 5ID doub 23 n y C2 N3 5ID sing 24 n y C2 H2 5ID sing 25 n n N3 C4 5ID doub 26 n y N6 H6N1 5ID sing 27 n n N6 H6N2 5ID sing 28 n n C2' O2' 5ID sing 29 n n C2' C3' 5ID sing 30 n n C2' H2' 5ID sing 31 n n O2' HA 5ID sing 32 n n C3' O3' 5ID sing 33 n n C3' H3' 5ID sing 34 n n O3' HB 5ID sing 35 n n # _atom_sites.entry_id 6G3A _atom_sites.fract_transf_matrix[1][1] 0.012763 _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] 0.012707 _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] 0.012531 _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 IOD A 1 800 800 IOD IOD . C 2 IOD A 1 801 801 IOD IOD . D 3 5ID A 1 805 805 5ID 5ID . E 4 DMS A 1 806 806 DMS DMS . F 5 PO4 A 1 807 807 PO4 PO4 . G 6 HOH A 1 820 820 HOH HOH . G 6 HOH A 2 821 821 HOH HOH . G 6 HOH A 3 822 822 HOH HOH . G 6 HOH A 4 823 823 HOH HOH . G 6 HOH A 5 824 824 HOH HOH . G 6 HOH A 6 825 825 HOH HOH . G 6 HOH A 7 826 826 HOH HOH . G 6 HOH A 8 827 827 HOH HOH . G 6 HOH A 9 828 828 HOH HOH . G 6 HOH A 10 829 829 HOH HOH . G 6 HOH A 11 830 830 HOH HOH . G 6 HOH A 12 831 831 HOH HOH . G 6 HOH A 13 832 832 HOH HOH . G 6 HOH A 14 833 833 HOH HOH . G 6 HOH A 15 834 834 HOH HOH . G 6 HOH A 16 835 835 HOH HOH . G 6 HOH A 17 836 836 HOH HOH . G 6 HOH A 18 837 837 HOH HOH . G 6 HOH A 19 838 838 HOH HOH . G 6 HOH A 20 839 839 HOH HOH . G 6 HOH A 21 840 840 HOH HOH . G 6 HOH A 22 841 841 HOH HOH . G 6 HOH A 23 842 842 HOH HOH . G 6 HOH A 24 843 843 HOH HOH . G 6 HOH A 25 844 844 HOH HOH . G 6 HOH A 26 845 845 HOH HOH . G 6 HOH A 27 846 846 HOH HOH . G 6 HOH A 28 847 847 HOH HOH . G 6 HOH A 29 848 848 HOH HOH . G 6 HOH A 30 849 849 HOH HOH . G 6 HOH A 31 850 850 HOH HOH . G 6 HOH A 32 851 851 HOH HOH . G 6 HOH A 33 852 852 HOH HOH . G 6 HOH A 34 853 853 HOH HOH . G 6 HOH A 35 854 854 HOH HOH . G 6 HOH A 36 855 855 HOH HOH . G 6 HOH A 37 856 856 HOH HOH . G 6 HOH A 38 857 857 HOH HOH . G 6 HOH A 39 858 858 HOH HOH . G 6 HOH A 40 859 859 HOH HOH . G 6 HOH A 41 860 860 HOH HOH . G 6 HOH A 42 861 861 HOH HOH . G 6 HOH A 43 862 862 HOH HOH . G 6 HOH A 44 863 863 HOH HOH . G 6 HOH A 45 864 864 HOH HOH . G 6 HOH A 46 865 865 HOH HOH . G 6 HOH A 47 866 866 HOH HOH . G 6 HOH A 48 867 867 HOH HOH . G 6 HOH A 49 868 868 HOH HOH . G 6 HOH A 50 869 869 HOH HOH . G 6 HOH A 51 870 870 HOH HOH . G 6 HOH A 52 871 871 HOH HOH . G 6 HOH A 53 872 872 HOH HOH . G 6 HOH A 54 873 873 HOH HOH . G 6 HOH A 55 874 874 HOH HOH . G 6 HOH A 56 875 875 HOH HOH . G 6 HOH A 57 876 876 HOH HOH . G 6 HOH A 58 877 877 HOH HOH . G 6 HOH A 59 878 878 HOH HOH . G 6 HOH A 60 879 879 HOH HOH . G 6 HOH A 61 880 880 HOH HOH . G 6 HOH A 62 881 881 HOH HOH . G 6 HOH A 63 882 882 HOH HOH . G 6 HOH A 64 883 883 HOH HOH . G 6 HOH A 65 884 884 HOH HOH . G 6 HOH A 66 885 885 HOH HOH . G 6 HOH A 67 886 886 HOH HOH . G 6 HOH A 68 887 887 HOH HOH . G 6 HOH A 69 888 888 HOH HOH . G 6 HOH A 70 889 889 HOH HOH . G 6 HOH A 71 890 890 HOH HOH . G 6 HOH A 72 891 891 HOH HOH . G 6 HOH A 73 892 892 HOH HOH . G 6 HOH A 74 893 893 HOH HOH . G 6 HOH A 75 894 894 HOH HOH . G 6 HOH A 76 895 895 HOH HOH . G 6 HOH A 77 896 896 HOH HOH . G 6 HOH A 78 897 897 HOH HOH . G 6 HOH A 79 898 898 HOH HOH . G 6 HOH A 80 899 899 HOH HOH . G 6 HOH A 81 900 900 HOH HOH . G 6 HOH A 82 901 901 HOH HOH . G 6 HOH A 83 902 902 HOH HOH . G 6 HOH A 84 903 903 HOH HOH . G 6 HOH A 85 904 904 HOH HOH . G 6 HOH A 86 905 905 HOH HOH . G 6 HOH A 87 906 906 HOH HOH . G 6 HOH A 88 907 907 HOH HOH . G 6 HOH A 89 908 908 HOH HOH . G 6 HOH A 90 909 909 HOH HOH . G 6 HOH A 91 910 910 HOH HOH . G 6 HOH A 92 911 911 HOH HOH . G 6 HOH A 93 912 912 HOH HOH . G 6 HOH A 94 913 913 HOH HOH . G 6 HOH A 95 914 914 HOH HOH . G 6 HOH A 96 915 915 HOH HOH . G 6 HOH A 97 916 916 HOH HOH . G 6 HOH A 98 917 917 HOH HOH . G 6 HOH A 99 918 918 HOH HOH . G 6 HOH A 100 919 919 HOH HOH . G 6 HOH A 101 920 920 HOH HOH . G 6 HOH A 102 921 921 HOH HOH . G 6 HOH A 103 922 922 HOH HOH . G 6 HOH A 104 923 923 HOH HOH . G 6 HOH A 105 924 924 HOH HOH . G 6 HOH A 106 925 925 HOH HOH . G 6 HOH A 107 926 926 HOH HOH . G 6 HOH A 108 927 927 HOH HOH . G 6 HOH A 109 928 928 HOH HOH . G 6 HOH A 110 929 929 HOH HOH . G 6 HOH A 111 930 930 HOH HOH . G 6 HOH A 112 931 931 HOH HOH . G 6 HOH A 113 932 932 HOH HOH . G 6 HOH A 114 933 933 HOH HOH . G 6 HOH A 115 934 934 HOH HOH . G 6 HOH A 116 935 935 HOH HOH . G 6 HOH A 117 936 936 HOH HOH . G 6 HOH A 118 937 937 HOH HOH . G 6 HOH A 119 938 938 HOH HOH . G 6 HOH A 120 939 939 HOH HOH . G 6 HOH A 121 940 940 HOH HOH . G 6 HOH A 122 941 941 HOH HOH . G 6 HOH A 123 942 942 HOH HOH . G 6 HOH A 124 943 943 HOH HOH . G 6 HOH A 125 944 944 HOH HOH . G 6 HOH A 126 945 945 HOH HOH . G 6 HOH A 127 946 946 HOH HOH . G 6 HOH A 128 947 947 HOH HOH . G 6 HOH A 129 948 948 HOH HOH . G 6 HOH A 130 949 949 HOH HOH . G 6 HOH A 131 950 950 HOH HOH . G 6 HOH A 132 951 951 HOH HOH . G 6 HOH A 133 952 952 HOH HOH . G 6 HOH A 134 953 953 HOH HOH . G 6 HOH A 135 954 954 HOH HOH . G 6 HOH A 136 955 955 HOH HOH . G 6 HOH A 137 956 956 HOH HOH . G 6 HOH A 138 957 957 HOH HOH . G 6 HOH A 139 958 958 HOH HOH . G 6 HOH A 140 959 959 HOH HOH . G 6 HOH A 141 960 960 HOH HOH . G 6 HOH A 142 961 961 HOH HOH . G 6 HOH A 143 962 962 HOH HOH . G 6 HOH A 144 963 963 HOH HOH . G 6 HOH A 145 964 964 HOH HOH . G 6 HOH A 146 965 965 HOH HOH . G 6 HOH A 147 966 966 HOH HOH . G 6 HOH A 148 967 967 HOH HOH . G 6 HOH A 149 968 968 HOH HOH . G 6 HOH A 150 969 969 HOH HOH . G 6 HOH A 151 970 970 HOH HOH . G 6 HOH A 152 971 971 HOH HOH . G 6 HOH A 153 972 972 HOH HOH . G 6 HOH A 154 973 973 HOH HOH . G 6 HOH A 155 974 974 HOH HOH . G 6 HOH A 156 975 975 HOH HOH . G 6 HOH A 157 976 976 HOH HOH . G 6 HOH A 158 977 977 HOH HOH . G 6 HOH A 159 978 978 HOH HOH . G 6 HOH A 160 979 979 HOH HOH . G 6 HOH A 161 980 980 HOH HOH . G 6 HOH A 162 981 981 HOH HOH . G 6 HOH A 163 982 982 HOH HOH . G 6 HOH A 164 983 983 HOH HOH . G 6 HOH A 165 984 984 HOH HOH . G 6 HOH A 166 985 985 HOH HOH . G 6 HOH A 167 986 986 HOH HOH . G 6 HOH A 168 987 987 HOH HOH . G 6 HOH A 169 988 988 HOH HOH . G 6 HOH A 170 989 989 HOH HOH . G 6 HOH A 171 990 990 HOH HOH . G 6 HOH A 172 991 991 HOH HOH . G 6 HOH A 173 992 992 HOH HOH . G 6 HOH A 174 993 993 HOH HOH . G 6 HOH A 175 994 994 HOH HOH . G 6 HOH A 176 995 995 HOH HOH . G 6 HOH A 177 996 996 HOH HOH . G 6 HOH A 178 997 997 HOH HOH . G 6 HOH A 179 998 998 HOH HOH . G 6 HOH A 180 999 999 HOH HOH . G 6 HOH A 181 1000 1000 HOH HOH . G 6 HOH A 182 1001 1001 HOH HOH . G 6 HOH A 183 1002 1002 HOH HOH . G 6 HOH A 184 1003 1003 HOH HOH . G 6 HOH A 185 1004 1004 HOH HOH . G 6 HOH A 186 1005 1005 HOH HOH . G 6 HOH A 187 1006 1006 HOH HOH . G 6 HOH A 188 1007 1007 HOH HOH . G 6 HOH A 189 1008 1008 HOH HOH . G 6 HOH A 190 1009 1009 HOH HOH . G 6 HOH A 191 1010 1010 HOH HOH . G 6 HOH A 192 1011 1011 HOH HOH . G 6 HOH A 193 1012 1012 HOH HOH . G 6 HOH A 194 1013 1013 HOH HOH . G 6 HOH A 195 1014 1014 HOH HOH . G 6 HOH A 196 1015 1015 HOH HOH . G 6 HOH A 197 1016 1016 HOH HOH . G 6 HOH A 198 1017 1017 HOH HOH . G 6 HOH A 199 1018 1018 HOH HOH . G 6 HOH A 200 1019 1019 HOH HOH . G 6 HOH A 201 1020 1020 HOH HOH . G 6 HOH A 202 1021 1021 HOH HOH . G 6 HOH A 203 1022 1022 HOH HOH . G 6 HOH A 204 1023 1023 HOH HOH . G 6 HOH A 205 1024 1024 HOH HOH . G 6 HOH A 206 1025 1025 HOH HOH . G 6 HOH A 207 1026 1026 HOH HOH . G 6 HOH A 208 1027 1027 HOH HOH . G 6 HOH A 209 1028 1028 HOH HOH . G 6 HOH A 210 1029 1029 HOH HOH . G 6 HOH A 211 1030 1030 HOH HOH . G 6 HOH A 212 1031 1031 HOH HOH . G 6 HOH A 213 1032 1032 HOH HOH . G 6 HOH A 214 1033 1033 HOH HOH . G 6 HOH A 215 1034 1034 HOH HOH . G 6 HOH A 216 1035 1035 HOH HOH . G 6 HOH A 217 1036 1036 HOH HOH . G 6 HOH A 218 1037 1037 HOH HOH . G 6 HOH A 219 1038 1038 HOH HOH . G 6 HOH A 220 1039 1039 HOH HOH . G 6 HOH A 221 1040 1040 HOH HOH . G 6 HOH A 222 1041 1041 HOH HOH . G 6 HOH A 223 1042 1042 HOH HOH . G 6 HOH A 224 1043 1043 HOH HOH . G 6 HOH A 225 1044 1044 HOH HOH . G 6 HOH A 226 1045 1045 HOH HOH . G 6 HOH A 227 1046 1046 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 O O5' 5ID . . . D 3 13.164 7.896 9.672 1 16.44 ? O5' 5ID 805 A 1 HETATM 2 C C5' 5ID . . . D 3 14.393 7.369 10.182 1 16.3 ? C5' 5ID 805 A 1 HETATM 3 C C4' 5ID . . . D 3 14.637 7.724 11.629 1 15.55 ? C4' 5ID 805 A 1 HETATM 4 O O4' 5ID . . . D 3 14.865 9.139 11.771 1 14.89 ? O4' 5ID 805 A 1 HETATM 5 C C1' 5ID . . . D 3 14.273 9.626 12.957 1 14.5 ? C1' 5ID 805 A 1 HETATM 6 N N9 5ID . . . D 3 13.207 10.561 12.608 1 13.24 ? N9 5ID 805 A 1 HETATM 7 C C8 5ID . . . D 3 12.528 10.634 11.422 1 13.07 ? C8 5ID 805 A 1 HETATM 8 C C7 5ID . . . D 3 11.646 11.67 11.467 1 11.55 ? C7 5ID 805 A 1 HETATM 9 C C5 5ID . . . D 3 11.762 12.295 12.74 1 12.45 ? C5 5ID 805 A 1 HETATM 10 C C6 5ID . . . D 3 11.146 13.336 13.482 1 12.61 ? C6 5ID 805 A 1 HETATM 11 N N1 5ID . . . D 3 11.551 13.583 14.744 1 12.87 ? N1 5ID 805 A 1 HETATM 12 C C2 5ID . . . D 3 12.514 12.813 15.256 1 13.71 ? C2 5ID 805 A 1 HETATM 13 N N3 5ID . . . D 3 13.15 11.799 14.681 1 12.85 ? N3 5ID 805 A 1 HETATM 14 C C4 5ID . . . D 3 12.752 11.564 13.424 1 12.81 ? C4 5ID 805 A 1 HETATM 15 N N6 5ID . . . D 3 10.152 14.08 13.001 1 12.81 ? N6 5ID 805 A 1 HETATM 16 C C2' 5ID . . . D 3 13.79 8.406 13.729 1 15.02 ? C2' 5ID 805 A 1 HETATM 17 O O2' 5ID . . . D 3 14.841 7.987 14.605 1 16.91 ? O2' 5ID 805 A 1 HETATM 18 C C3' 5ID . . . D 3 13.495 7.44 12.595 1 15.02 ? C3' 5ID 805 A 1 HETATM 19 O O3' 5ID . . . D 3 13.526 6.064 12.991 1 15.83 ? O3' 5ID 805 A 1 HETATM 20 I IAE 5ID . . . D 3 10.383 12.189 9.903 0.3 7.48 ? IAE 5ID 805 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 318 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 20 #