data_4J8O # _model_server_result.job_id qZs2VRwP1U4cM6MkJZjCuQ _model_server_result.datetime_utc '2024-11-30 10:29:37' _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 4j8o # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":800}' # _entry.id 4J8O # _exptl.entry_id 4J8O _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 384.411 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description S-ADENOSYL-L-HOMOCYSTEINE _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 120 _cell.entry_id 4J8O _cell.length_a 87.23 _cell.length_b 87.23 _cell.length_c 94.164 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4J8O _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 # _chem_comp.formula 'C14 H20 N6 O5 S' _chem_comp.formula_weight 384.411 _chem_comp.id SAH _chem_comp.mon_nstd_flag . _chem_comp.name S-ADENOSYL-L-HOMOCYSTEINE _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 N CA SAH sing 283 n n N HN1 SAH sing 284 n n N HN2 SAH sing 285 n n CA CB SAH sing 286 n n CA C SAH sing 287 n n CA HA SAH sing 288 n n CB CG SAH sing 289 n n CB HB1 SAH sing 290 n n CB HB2 SAH sing 291 n n CG SD SAH sing 292 n n CG HG1 SAH sing 293 n n CG HG2 SAH sing 294 n n SD C5' SAH sing 295 n n C O SAH doub 296 n n C OXT SAH sing 297 n n OXT HXT SAH sing 298 n n C5' C4' SAH sing 299 n n C5' "H5'1" SAH sing 300 n n C5' "H5'2" SAH sing 301 n n C4' O4' SAH sing 302 n n C4' C3' SAH sing 303 n n C4' H4' SAH sing 304 n n O4' C1' SAH sing 305 n n C3' O3' SAH sing 306 n n C3' C2' SAH sing 307 n n C3' H3' SAH sing 308 n n O3' HO3' SAH sing 309 n n C2' O2' SAH sing 310 n n C2' C1' SAH sing 311 n n C2' H2' SAH sing 312 n n O2' HO2' SAH sing 313 n n C1' N9 SAH sing 314 n n C1' H1' SAH sing 315 n n N9 C8 SAH sing 316 n y N9 C4 SAH sing 317 n y C8 N7 SAH doub 318 n y C8 H8 SAH sing 319 n n N7 C5 SAH sing 320 n y C5 C6 SAH sing 321 n y C5 C4 SAH doub 322 n y C6 N6 SAH sing 323 n n C6 N1 SAH doub 324 n y N6 HN61 SAH sing 325 n n N6 HN62 SAH sing 326 n n N1 C2 SAH sing 327 n y C2 N3 SAH doub 328 n y C2 H2 SAH sing 329 n n N3 C4 SAH sing 330 n y # _atom_sites.entry_id 4J8O _atom_sites.fract_transf_matrix[1][1] 0.011464 _atom_sites.fract_transf_matrix[1][2] 0.006619 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013237 _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] 0.01062 _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 C 3 SAH A 1 800 800 SAH SAH . D 4 HOH A 1 901 1 HOH HOH . D 4 HOH A 2 902 2 HOH HOH . D 4 HOH A 3 903 3 HOH HOH . D 4 HOH A 4 904 4 HOH HOH . D 4 HOH A 5 905 5 HOH HOH . D 4 HOH A 6 906 6 HOH HOH . D 4 HOH A 7 907 7 HOH HOH . D 4 HOH A 8 908 8 HOH HOH . D 4 HOH A 9 909 9 HOH HOH . D 4 HOH A 10 910 10 HOH HOH . D 4 HOH A 11 911 11 HOH HOH . D 4 HOH A 12 912 12 HOH HOH . D 4 HOH A 13 913 13 HOH HOH . D 4 HOH A 14 914 14 HOH HOH . D 4 HOH A 15 915 15 HOH HOH . D 4 HOH A 16 916 16 HOH HOH . D 4 HOH A 17 917 17 HOH HOH . D 4 HOH A 18 918 18 HOH HOH . D 4 HOH A 19 919 19 HOH HOH . D 4 HOH A 20 920 21 HOH HOH . D 4 HOH A 21 921 22 HOH HOH . D 4 HOH A 22 922 23 HOH HOH . D 4 HOH A 23 923 24 HOH HOH . D 4 HOH A 24 924 25 HOH HOH . D 4 HOH A 25 925 26 HOH HOH . D 4 HOH A 26 926 27 HOH HOH . D 4 HOH A 27 927 28 HOH HOH . D 4 HOH A 28 928 29 HOH HOH . D 4 HOH A 29 929 30 HOH HOH . D 4 HOH A 30 930 31 HOH HOH . D 4 HOH A 31 931 32 HOH HOH . D 4 HOH A 32 932 33 HOH HOH . D 4 HOH A 33 933 34 HOH HOH . D 4 HOH A 34 934 35 HOH HOH . D 4 HOH A 35 935 36 HOH HOH . D 4 HOH A 36 936 37 HOH HOH . D 4 HOH A 37 937 38 HOH HOH . D 4 HOH A 38 938 39 HOH HOH . D 4 HOH A 39 939 40 HOH HOH . D 4 HOH A 40 940 41 HOH HOH . D 4 HOH A 41 941 42 HOH HOH . D 4 HOH A 42 942 43 HOH HOH . D 4 HOH A 43 943 44 HOH HOH . D 4 HOH A 44 944 45 HOH HOH . D 4 HOH A 45 945 46 HOH HOH . D 4 HOH A 46 946 47 HOH HOH . D 4 HOH A 47 947 48 HOH HOH . D 4 HOH A 48 948 49 HOH HOH . D 4 HOH A 49 949 50 HOH HOH . D 4 HOH A 50 950 51 HOH HOH . D 4 HOH A 51 951 52 HOH HOH . D 4 HOH A 52 952 53 HOH HOH . D 4 HOH A 53 953 54 HOH HOH . D 4 HOH A 54 954 56 HOH HOH . D 4 HOH A 55 955 57 HOH HOH . D 4 HOH A 56 956 58 HOH HOH . D 4 HOH A 57 957 59 HOH HOH . D 4 HOH A 58 958 60 HOH HOH . D 4 HOH A 59 959 61 HOH HOH . D 4 HOH A 60 960 62 HOH HOH . D 4 HOH A 61 961 63 HOH HOH . D 4 HOH A 62 962 64 HOH HOH . D 4 HOH A 63 963 65 HOH HOH . D 4 HOH A 64 964 66 HOH HOH . D 4 HOH A 65 965 67 HOH HOH . D 4 HOH A 66 966 68 HOH HOH . D 4 HOH A 67 967 69 HOH HOH . D 4 HOH A 68 968 70 HOH HOH . D 4 HOH A 69 969 72 HOH HOH . D 4 HOH A 70 970 73 HOH HOH . D 4 HOH A 71 971 75 HOH HOH . D 4 HOH A 72 972 76 HOH HOH . D 4 HOH A 73 973 77 HOH HOH . D 4 HOH A 74 974 78 HOH HOH . D 4 HOH A 75 975 79 HOH HOH . D 4 HOH A 76 976 80 HOH HOH . D 4 HOH A 77 977 81 HOH HOH . D 4 HOH A 78 978 82 HOH HOH . D 4 HOH A 79 979 83 HOH HOH . D 4 HOH A 80 980 84 HOH HOH . D 4 HOH A 81 981 86 HOH HOH . D 4 HOH A 82 982 87 HOH HOH . D 4 HOH A 83 983 88 HOH HOH . D 4 HOH A 84 984 89 HOH HOH . D 4 HOH A 85 985 90 HOH HOH . D 4 HOH A 86 986 91 HOH HOH . D 4 HOH A 87 987 92 HOH HOH . D 4 HOH A 88 988 93 HOH HOH . D 4 HOH A 89 989 94 HOH HOH . D 4 HOH A 90 990 95 HOH HOH . D 4 HOH A 91 991 96 HOH HOH . D 4 HOH A 92 992 97 HOH HOH . D 4 HOH A 93 993 98 HOH HOH . D 4 HOH A 94 994 99 HOH HOH . D 4 HOH A 95 995 100 HOH HOH . D 4 HOH A 96 996 101 HOH HOH . D 4 HOH A 97 997 102 HOH HOH . D 4 HOH A 98 998 103 HOH HOH . D 4 HOH A 99 999 104 HOH HOH . D 4 HOH A 100 1000 105 HOH HOH . D 4 HOH A 101 1001 106 HOH HOH . D 4 HOH A 102 1002 107 HOH HOH . D 4 HOH A 103 1003 108 HOH HOH . D 4 HOH A 104 1004 109 HOH HOH . D 4 HOH A 105 1005 110 HOH HOH . D 4 HOH A 106 1006 111 HOH HOH . D 4 HOH A 107 1007 112 HOH HOH . D 4 HOH A 108 1008 113 HOH HOH . D 4 HOH A 109 1009 114 HOH HOH . D 4 HOH A 110 1010 115 HOH HOH . D 4 HOH A 111 1011 116 HOH HOH . D 4 HOH A 112 1012 117 HOH HOH . D 4 HOH A 113 1013 118 HOH HOH . D 4 HOH A 114 1014 119 HOH HOH . D 4 HOH A 115 1015 120 HOH HOH . D 4 HOH A 116 1016 121 HOH HOH . D 4 HOH A 117 1017 122 HOH HOH . D 4 HOH A 118 1018 123 HOH HOH . D 4 HOH A 119 1019 124 HOH HOH . D 4 HOH A 120 1020 126 HOH HOH . D 4 HOH A 121 1021 128 HOH HOH . D 4 HOH A 122 1022 129 HOH HOH . D 4 HOH A 123 1023 130 HOH HOH . D 4 HOH A 124 1024 131 HOH HOH . D 4 HOH A 125 1025 132 HOH HOH . D 4 HOH A 126 1026 133 HOH HOH . D 4 HOH A 127 1027 134 HOH HOH . D 4 HOH A 128 1028 135 HOH HOH . D 4 HOH A 129 1029 137 HOH HOH . D 4 HOH A 130 1030 139 HOH HOH . D 4 HOH A 131 1031 142 HOH HOH . D 4 HOH A 132 1032 143 HOH HOH . D 4 HOH A 133 1033 144 HOH HOH . D 4 HOH A 134 1034 145 HOH HOH . D 4 HOH A 135 1035 146 HOH HOH . D 4 HOH A 136 1036 148 HOH HOH . D 4 HOH A 137 1037 149 HOH HOH . D 4 HOH A 138 1038 150 HOH HOH . D 4 HOH A 139 1039 152 HOH HOH . D 4 HOH A 140 1040 153 HOH HOH . D 4 HOH A 141 1041 157 HOH HOH . D 4 HOH A 142 1042 158 HOH HOH . D 4 HOH A 143 1043 159 HOH HOH . D 4 HOH A 144 1044 160 HOH HOH . D 4 HOH A 145 1045 161 HOH HOH . D 4 HOH A 146 1046 162 HOH HOH . D 4 HOH A 147 1047 163 HOH HOH . D 4 HOH A 148 1048 164 HOH HOH . D 4 HOH A 149 1049 165 HOH HOH . D 4 HOH A 150 1050 167 HOH HOH . D 4 HOH A 151 1051 168 HOH HOH . D 4 HOH A 152 1052 169 HOH HOH . D 4 HOH A 153 1053 171 HOH HOH . D 4 HOH A 154 1054 172 HOH HOH . D 4 HOH A 155 1055 173 HOH HOH . D 4 HOH A 156 1056 174 HOH HOH . D 4 HOH A 157 1057 175 HOH HOH . D 4 HOH A 158 1058 176 HOH HOH . D 4 HOH A 159 1059 177 HOH HOH . D 4 HOH A 160 1060 179 HOH HOH . D 4 HOH A 161 1061 180 HOH HOH . D 4 HOH A 162 1062 181 HOH HOH . D 4 HOH A 163 1063 182 HOH HOH . D 4 HOH A 164 1064 183 HOH HOH . D 4 HOH A 165 1065 184 HOH HOH . D 4 HOH A 166 1066 185 HOH HOH . D 4 HOH A 167 1067 186 HOH HOH . D 4 HOH A 168 1068 187 HOH HOH . D 4 HOH A 169 1069 188 HOH HOH . D 4 HOH A 170 1070 189 HOH HOH . D 4 HOH A 171 1071 190 HOH HOH . D 4 HOH A 172 1072 191 HOH HOH . D 4 HOH A 173 1073 192 HOH HOH . D 4 HOH A 174 1074 193 HOH HOH . D 4 HOH A 175 1075 194 HOH HOH . D 4 HOH A 176 1076 196 HOH HOH . D 4 HOH A 177 1077 197 HOH HOH . D 4 HOH A 178 1078 198 HOH HOH . D 4 HOH A 179 1079 199 HOH HOH . D 4 HOH A 180 1080 200 HOH HOH . D 4 HOH A 181 1081 201 HOH HOH . D 4 HOH A 182 1082 202 HOH HOH . D 4 HOH A 183 1083 204 HOH HOH . D 4 HOH A 184 1084 205 HOH HOH . D 4 HOH A 185 1085 206 HOH HOH . D 4 HOH A 186 1086 207 HOH HOH . D 4 HOH A 187 1087 210 HOH HOH . D 4 HOH A 188 1088 211 HOH HOH . D 4 HOH A 189 1089 212 HOH HOH . D 4 HOH A 190 1090 213 HOH HOH . D 4 HOH A 191 1091 214 HOH HOH . D 4 HOH A 192 1092 215 HOH HOH . D 4 HOH A 193 1093 216 HOH HOH . D 4 HOH A 194 1094 218 HOH HOH . D 4 HOH A 195 1095 219 HOH HOH . D 4 HOH A 196 1096 220 HOH HOH . D 4 HOH A 197 1097 221 HOH HOH . D 4 HOH A 198 1098 222 HOH HOH . D 4 HOH A 199 1099 227 HOH HOH . D 4 HOH A 200 1100 229 HOH HOH . D 4 HOH A 201 1101 230 HOH HOH . D 4 HOH A 202 1102 231 HOH HOH . D 4 HOH A 203 1103 232 HOH HOH . D 4 HOH A 204 1104 233 HOH HOH . D 4 HOH A 205 1105 236 HOH HOH . D 4 HOH A 206 1106 237 HOH HOH . D 4 HOH A 207 1107 238 HOH HOH . D 4 HOH A 208 1108 239 HOH HOH . D 4 HOH A 209 1109 240 HOH HOH . D 4 HOH A 210 1110 241 HOH HOH . D 4 HOH A 211 1111 242 HOH HOH . D 4 HOH A 212 1112 243 HOH HOH . D 4 HOH A 213 1113 244 HOH HOH . D 4 HOH A 214 1114 245 HOH HOH . D 4 HOH A 215 1115 246 HOH HOH . D 4 HOH A 216 1116 248 HOH HOH . D 4 HOH A 217 1117 250 HOH HOH . D 4 HOH A 218 1118 2 HOH HOH . D 4 HOH A 219 1119 4 HOH HOH . D 4 HOH A 220 1120 6 HOH HOH . D 4 HOH A 221 1121 7 HOH HOH . E 4 HOH B 1 201 20 HOH HOH . E 4 HOH B 2 202 71 HOH HOH . E 4 HOH B 3 203 74 HOH HOH . E 4 HOH B 4 204 125 HOH HOH . E 4 HOH B 5 205 136 HOH HOH . E 4 HOH B 6 206 147 HOH HOH . E 4 HOH B 7 207 154 HOH HOH . E 4 HOH B 8 208 155 HOH HOH . E 4 HOH B 9 209 156 HOH HOH . E 4 HOH B 10 210 208 HOH HOH . E 4 HOH B 11 211 9 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 N N SAH . . . C 3 32.341 -20.005 -9.788 1 20.39 ? N SAH 800 A 1 HETATM 2 C CA SAH . . . C 3 33.529 -19.307 -10.248 1 20.38 ? CA SAH 800 A 1 HETATM 3 C CB SAH . . . C 3 34.776 -19.973 -9.614 1 19.75 ? CB SAH 800 A 1 HETATM 4 C CG SAH . . . C 3 35.059 -19.391 -8.201 1 20.85 ? CG SAH 800 A 1 HETATM 5 S SD SAH . . . C 3 35.614 -17.713 -8.355 1 21.65 ? SD SAH 800 A 1 HETATM 6 C C SAH . . . C 3 33.595 -19.336 -11.769 1 21.68 ? C SAH 800 A 1 HETATM 7 O O SAH . . . C 3 34.603 -18.942 -12.381 1 22.92 ? O SAH 800 A 1 HETATM 8 O OXT SAH . . . C 3 32.693 -19.895 -12.42 1 22.63 ? OXT SAH 800 A 1 HETATM 9 C C5' SAH . . . C 3 34.579 -16.787 -7.219 1 20.69 ? C5' SAH 800 A 1 HETATM 10 C C4' SAH . . . C 3 33.15 -16.597 -7.798 1 23.74 ? C4' SAH 800 A 1 HETATM 11 O O4' SAH . . . C 3 32.391 -17.814 -7.734 1 22 ? O4' SAH 800 A 1 HETATM 12 C C3' SAH . . . C 3 32.309 -15.599 -6.987 1 24.81 ? C3' SAH 800 A 1 HETATM 13 O O3' SAH . . . C 3 32.423 -14.314 -7.603 1 28.99 ? O3' SAH 800 A 1 HETATM 14 C C2' SAH . . . C 3 30.893 -16.074 -7.115 1 26.73 ? C2' SAH 800 A 1 HETATM 15 O O2' SAH . . . C 3 30.4 -15.539 -8.363 1 30.56 ? O2' SAH 800 A 1 HETATM 16 C C1' SAH . . . C 3 31.057 -17.568 -7.239 1 23.29 ? C1' SAH 800 A 1 HETATM 17 N N9 SAH . . . C 3 30.971 -18.228 -5.932 1 26.11 ? N9 SAH 800 A 1 HETATM 18 C C8 SAH . . . C 3 31.978 -18.891 -5.274 1 22.16 ? C8 SAH 800 A 1 HETATM 19 N N7 SAH . . . C 3 31.467 -19.579 -4.232 1 24.05 ? N7 SAH 800 A 1 HETATM 20 C C5 SAH . . . C 3 30.124 -19.387 -4.227 1 25.48 ? C5 SAH 800 A 1 HETATM 21 C C6 SAH . . . C 3 29.023 -19.81 -3.343 1 25.58 ? C6 SAH 800 A 1 HETATM 22 N N6 SAH . . . C 3 29.233 -20.602 -2.272 1 25.67 ? N6 SAH 800 A 1 HETATM 23 N N1 SAH . . . C 3 27.766 -19.37 -3.679 1 29.5 ? N1 SAH 800 A 1 HETATM 24 C C2 SAH . . . C 3 27.567 -18.643 -4.779 1 25.87 ? C2 SAH 800 A 1 HETATM 25 N N3 SAH . . . C 3 28.528 -18.133 -5.575 1 29.32 ? N3 SAH 800 A 1 HETATM 26 C C4 SAH . . . C 3 29.813 -18.542 -5.362 1 26.9 ? C4 SAH 800 A 1 # _model_server_stats.io_time_ms 68 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 521 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 26 #