data_3DN8 # _model_server_result.job_id olnPe5ijeQB3fmlZvuofMA _model_server_result.datetime_utc '2024-11-17 17:21:35' _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 3dn8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":906}' # _entry.id 3DN8 # _exptl.entry_id 3DN8 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 154.251 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '2-HYDROXYETHYL DISULFIDE' _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 120 _cell.entry_id 3DN8 _cell.length_a 60.031 _cell.length_b 60.031 _cell.length_c 95.956 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3DN8 _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 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,H,I _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 ? 4 D N N ? 4 E N N ? 4 G 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 covale ? covale1 A C MSE 1 A MSE 1 1_555 A N ASN 2 A ASN 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale2 A C GLU 5 A GLU 5 1_555 A N MSE 6 A MSE 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale3 A C MSE 6 A MSE 6 1_555 A N LEU 7 A LEU 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale4 A C ASN 101 A ASN 101 1_555 A N MSE 102 A MSE 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale5 A C MSE 102 A MSE 102 1_555 A N VAL 103 A VAL 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale6 A C GLN 105 A GLN 105 1_555 A N MSE 106 A MSE 106 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale7 A C MSE 106 A MSE 106 1_555 A N GLY 107 A GLY 107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale8 A C ARG 119 A ARG 119 1_555 A N MSE 120 A MSE 120 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale9 A C MSE 120 A MSE 120 1_555 A N LEU 121 A LEU 121 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? # _chem_comp.formula 'C4 H10 O2 S2' _chem_comp.formula_weight 154.251 _chem_comp.id HED _chem_comp.mon_nstd_flag . _chem_comp.name '2-HYDROXYETHYL DISULFIDE' _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 C1 O1 HED sing 138 n n C1 C2 HED sing 139 n n C1 H11 HED sing 140 n n C1 H12 HED sing 141 n n O1 HO1 HED sing 142 n n C2 S3 HED sing 143 n n C2 H21 HED sing 144 n n C2 H22 HED sing 145 n n S3 S4 HED sing 146 n n S4 C5 HED sing 147 n n C5 C6 HED sing 148 n n C5 H51 HED sing 149 n n C5 H52 HED sing 150 n n C6 O6 HED sing 151 n n C6 H61 HED sing 152 n n C6 H62 HED sing 153 n n O6 HO6 HED sing 154 n n # _atom_sites.entry_id 3DN8 _atom_sites.fract_transf_matrix[1][1] 0.016658 _atom_sites.fract_transf_matrix[1][2] 0.009618 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.019235 _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] 0.010421 _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 PO4 A 1 901 901 PO4 PO4 . C 3 CL A 1 902 902 CL CL . D 4 HED A 1 903 903 HED HED . E 4 HED A 1 904 904 HED HED . F 5 BME A 1 905 905 BME BME . G 4 HED A 1 906 906 HED HED . H 6 IBF A 1 900 900 IBF IFB . I 7 HOH A 1 907 1 HOH HOH . I 7 HOH A 2 908 2 HOH HOH . I 7 HOH A 3 909 3 HOH HOH . I 7 HOH A 4 910 4 HOH HOH . I 7 HOH A 5 911 5 HOH HOH . I 7 HOH A 6 912 6 HOH HOH . I 7 HOH A 7 913 7 HOH HOH . I 7 HOH A 8 914 8 HOH HOH . I 7 HOH A 9 915 9 HOH HOH . I 7 HOH A 10 916 10 HOH HOH . I 7 HOH A 11 917 11 HOH HOH . I 7 HOH A 12 918 12 HOH HOH . I 7 HOH A 13 919 13 HOH HOH . I 7 HOH A 14 920 14 HOH HOH . I 7 HOH A 15 921 15 HOH HOH . I 7 HOH A 16 922 16 HOH HOH . I 7 HOH A 17 923 17 HOH HOH . I 7 HOH A 18 924 18 HOH HOH . I 7 HOH A 19 925 19 HOH HOH . I 7 HOH A 20 926 20 HOH HOH . I 7 HOH A 21 927 21 HOH HOH . I 7 HOH A 22 928 22 HOH HOH . I 7 HOH A 23 929 23 HOH HOH . I 7 HOH A 24 930 24 HOH HOH . I 7 HOH A 25 931 25 HOH HOH . I 7 HOH A 26 932 26 HOH HOH . I 7 HOH A 27 933 27 HOH HOH . I 7 HOH A 28 934 28 HOH HOH . I 7 HOH A 29 935 29 HOH HOH . I 7 HOH A 30 936 30 HOH HOH . I 7 HOH A 31 937 31 HOH HOH . I 7 HOH A 32 938 32 HOH HOH . I 7 HOH A 33 939 33 HOH HOH . I 7 HOH A 34 940 34 HOH HOH . I 7 HOH A 35 941 35 HOH HOH . I 7 HOH A 36 942 36 HOH HOH . I 7 HOH A 37 943 37 HOH HOH . I 7 HOH A 38 944 38 HOH HOH . I 7 HOH A 39 945 39 HOH HOH . I 7 HOH A 40 946 40 HOH HOH . I 7 HOH A 41 947 41 HOH HOH . I 7 HOH A 42 948 42 HOH HOH . I 7 HOH A 43 949 43 HOH HOH . I 7 HOH A 44 950 44 HOH HOH . I 7 HOH A 45 951 45 HOH HOH . I 7 HOH A 46 952 46 HOH HOH . I 7 HOH A 47 953 47 HOH HOH . I 7 HOH A 48 954 48 HOH HOH . I 7 HOH A 49 955 49 HOH HOH . I 7 HOH A 50 956 50 HOH HOH . I 7 HOH A 51 957 51 HOH HOH . I 7 HOH A 52 958 52 HOH HOH . I 7 HOH A 53 959 53 HOH HOH . I 7 HOH A 54 960 54 HOH HOH . I 7 HOH A 55 961 55 HOH HOH . I 7 HOH A 56 962 56 HOH HOH . I 7 HOH A 57 963 57 HOH HOH . I 7 HOH A 58 964 58 HOH HOH . I 7 HOH A 59 965 59 HOH HOH . I 7 HOH A 60 966 60 HOH HOH . I 7 HOH A 61 967 61 HOH HOH . I 7 HOH A 62 968 62 HOH HOH . I 7 HOH A 63 969 63 HOH HOH . I 7 HOH A 64 970 64 HOH HOH . I 7 HOH A 65 971 65 HOH HOH . I 7 HOH A 66 972 66 HOH HOH . I 7 HOH A 67 973 67 HOH HOH . I 7 HOH A 68 974 68 HOH HOH . I 7 HOH A 69 975 69 HOH HOH . I 7 HOH A 70 976 70 HOH HOH . I 7 HOH A 71 977 71 HOH HOH . I 7 HOH A 72 978 72 HOH HOH . I 7 HOH A 73 979 73 HOH HOH . I 7 HOH A 74 980 74 HOH HOH . I 7 HOH A 75 981 75 HOH HOH . I 7 HOH A 76 982 76 HOH HOH . I 7 HOH A 77 983 77 HOH HOH . I 7 HOH A 78 984 78 HOH HOH . I 7 HOH A 79 985 79 HOH HOH . I 7 HOH A 80 986 80 HOH HOH . I 7 HOH A 81 987 81 HOH HOH . I 7 HOH A 82 988 82 HOH HOH . I 7 HOH A 83 989 83 HOH HOH . I 7 HOH A 84 990 84 HOH HOH . I 7 HOH A 85 991 85 HOH HOH . I 7 HOH A 86 992 86 HOH HOH . I 7 HOH A 87 993 87 HOH HOH . I 7 HOH A 88 994 88 HOH HOH . I 7 HOH A 89 995 89 HOH HOH . I 7 HOH A 90 996 90 HOH HOH . I 7 HOH A 91 997 91 HOH HOH . I 7 HOH A 92 998 92 HOH HOH . I 7 HOH A 93 999 93 HOH HOH . I 7 HOH A 94 1000 94 HOH HOH . I 7 HOH A 95 1001 95 HOH HOH . I 7 HOH A 96 1002 96 HOH HOH . I 7 HOH A 97 1003 97 HOH HOH . I 7 HOH A 98 1004 98 HOH HOH . I 7 HOH A 99 1005 99 HOH HOH . I 7 HOH A 100 1006 100 HOH HOH . I 7 HOH A 101 1007 101 HOH HOH . I 7 HOH A 102 1008 102 HOH HOH . I 7 HOH A 103 1009 103 HOH HOH . I 7 HOH A 104 1010 104 HOH HOH . I 7 HOH A 105 1011 105 HOH HOH . I 7 HOH A 106 1012 106 HOH HOH . I 7 HOH A 107 1013 107 HOH HOH . I 7 HOH A 108 1014 108 HOH HOH . I 7 HOH A 109 1015 109 HOH HOH . I 7 HOH A 110 1016 110 HOH HOH . I 7 HOH A 111 1017 111 HOH HOH . I 7 HOH A 112 1018 112 HOH HOH . I 7 HOH A 113 1019 113 HOH HOH . I 7 HOH A 114 1020 114 HOH HOH . I 7 HOH A 115 1021 115 HOH HOH . I 7 HOH A 116 1022 116 HOH HOH . I 7 HOH A 117 1023 117 HOH HOH . I 7 HOH A 118 1024 118 HOH HOH . I 7 HOH A 119 1025 119 HOH HOH . I 7 HOH A 120 1026 120 HOH HOH . I 7 HOH A 121 1027 121 HOH HOH . I 7 HOH A 122 1028 122 HOH HOH . I 7 HOH A 123 1029 123 HOH HOH . I 7 HOH A 124 1030 124 HOH HOH . I 7 HOH A 125 1031 125 HOH HOH . I 7 HOH A 126 1032 126 HOH HOH . I 7 HOH A 127 1033 127 HOH HOH . I 7 HOH A 128 1034 128 HOH HOH . I 7 HOH A 129 1035 129 HOH HOH . I 7 HOH A 130 1036 130 HOH HOH . I 7 HOH A 131 1037 131 HOH HOH . I 7 HOH A 132 1038 132 HOH HOH . I 7 HOH A 133 1039 133 HOH HOH . I 7 HOH A 134 1040 134 HOH HOH . I 7 HOH A 135 1041 135 HOH HOH . I 7 HOH A 136 1042 201 HOH HOH . I 7 HOH A 137 1043 202 HOH HOH . I 7 HOH A 138 1044 203 HOH HOH . I 7 HOH A 139 1045 204 HOH HOH . I 7 HOH A 140 1046 205 HOH HOH . I 7 HOH A 141 1047 206 HOH HOH . I 7 HOH A 142 1048 207 HOH HOH . I 7 HOH A 143 1049 208 HOH HOH . I 7 HOH A 144 1050 209 HOH HOH . I 7 HOH A 145 1051 210 HOH HOH . I 7 HOH A 146 1052 211 HOH HOH . I 7 HOH A 147 1053 212 HOH HOH . I 7 HOH A 148 1054 213 HOH HOH . I 7 HOH A 149 1055 214 HOH HOH . I 7 HOH A 150 1056 215 HOH HOH . I 7 HOH A 151 1057 216 HOH HOH . I 7 HOH A 152 1058 217 HOH HOH . I 7 HOH A 153 1059 218 HOH HOH . I 7 HOH A 154 1060 219 HOH HOH . I 7 HOH A 155 1061 220 HOH HOH . I 7 HOH A 156 1062 221 HOH HOH . I 7 HOH A 157 1063 222 HOH HOH . I 7 HOH A 158 1064 223 HOH HOH . I 7 HOH A 159 1065 224 HOH HOH . I 7 HOH A 160 1066 225 HOH HOH . I 7 HOH A 161 1067 226 HOH HOH . I 7 HOH A 162 1068 227 HOH HOH . I 7 HOH A 163 1069 228 HOH HOH . I 7 HOH A 164 1070 229 HOH HOH . I 7 HOH A 165 1071 230 HOH HOH . I 7 HOH A 166 1072 231 HOH HOH . I 7 HOH A 167 1073 232 HOH HOH . I 7 HOH A 168 1074 233 HOH HOH . I 7 HOH A 169 1075 234 HOH HOH . I 7 HOH A 170 1076 235 HOH HOH . I 7 HOH A 171 1077 236 HOH HOH . I 7 HOH A 172 1078 237 HOH HOH . I 7 HOH A 173 1079 238 HOH HOH . I 7 HOH A 174 1080 239 HOH HOH . I 7 HOH A 175 1081 240 HOH HOH . I 7 HOH A 176 1082 241 HOH HOH . I 7 HOH A 177 1083 242 HOH HOH . I 7 HOH A 178 1084 243 HOH HOH . I 7 HOH A 179 1085 244 HOH HOH . I 7 HOH A 180 1086 245 HOH HOH . I 7 HOH A 181 1087 246 HOH HOH . I 7 HOH A 182 1088 247 HOH HOH . I 7 HOH A 183 1089 248 HOH HOH . I 7 HOH A 184 1090 249 HOH HOH . I 7 HOH A 185 1091 250 HOH HOH . I 7 HOH A 186 1092 251 HOH HOH . I 7 HOH A 187 1093 252 HOH HOH . I 7 HOH A 188 1094 253 HOH HOH . I 7 HOH A 189 1095 254 HOH HOH . I 7 HOH A 190 1096 255 HOH HOH . I 7 HOH A 191 1097 256 HOH HOH . I 7 HOH A 192 1098 257 HOH HOH . I 7 HOH A 193 1099 258 HOH HOH . I 7 HOH A 194 1100 259 HOH HOH . I 7 HOH A 195 1101 260 HOH HOH . I 7 HOH A 196 1102 261 HOH HOH . I 7 HOH A 197 1103 262 HOH HOH . I 7 HOH A 198 1104 263 HOH HOH . I 7 HOH A 199 1105 264 HOH HOH . I 7 HOH A 200 1106 265 HOH HOH . I 7 HOH A 201 1107 266 HOH HOH . I 7 HOH A 202 1108 267 HOH HOH . I 7 HOH A 203 1109 268 HOH HOH . I 7 HOH A 204 1110 269 HOH HOH . I 7 HOH A 205 1111 270 HOH HOH . I 7 HOH A 206 1112 271 HOH HOH . I 7 HOH A 207 1113 272 HOH HOH . I 7 HOH A 208 1114 273 HOH HOH . I 7 HOH A 209 1115 274 HOH HOH . I 7 HOH A 210 1116 275 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 C1 HED . . . G 4 32.295 16.135 17.923 1 31.35 ? C1 HED 906 A 1 HETATM 2 O O1 HED . . . G 4 32.341 17.539 17.876 1 32.46 ? O1 HED 906 A 1 HETATM 3 C C2 HED . . . G 4 33.584 15.584 17.34 1 31.73 ? C2 HED 906 A 1 HETATM 4 S S3 HED . . . G 4 33.664 15.754 15.545 1 29.65 ? S3 HED 906 A 1 HETATM 5 S S4 HED . . . G 4 33.131 13.901 14.858 1 33.01 ? S4 HED 906 A 1 HETATM 6 C C5 HED . . . G 4 31.694 13.412 15.852 1 30.28 ? C5 HED 906 A 1 HETATM 7 C C6 HED . . . G 4 30.923 12.245 15.246 1 30.43 ? C6 HED 906 A 1 HETATM 8 O O6 HED . . . G 4 30.079 12.726 14.227 1 30.07 ? O6 HED 906 A 1 # _model_server_stats.io_time_ms 53 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 25 _model_server_stats.query_time_ms 322 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 8 #