data_8AFO # _model_server_result.job_id cv1KQw5QYszUEYjEH6qqNg _model_server_result.datetime_utc '2024-10-19 22:40:24' _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 8afo # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":1004}' # _entry.id 8AFO # _exptl.entry_id 8AFO _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 4 _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 8AFO _cell.length_a 56.083 _cell.length_b 96.749 _cell.length_c 105.853 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8AFO _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall 'C 2c 2' _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 ? 3 C N N ? 3 D N N ? 3 E N N ? 3 F N N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 2 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 NAG _pdbx_entity_branch_link.comp_id_2 NAG _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n B NAG 1 B 1 NAG A 956 NAG 2 n B NAG 2 B 2 NAG A 957 NAG # 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 ND2 ASN 17 A ASN 726 1_555 C C1 NAG . A NAG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale2 A ND2 ASN 68 A ASN 777 1_555 D C1 NAG . A NAG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.421 ? covale ? covale3 A ND2 ASN 116 A ASN 825 1_555 E C1 NAG . A NAG 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.418 ? covale ? covale4 A ND2 ASN 140 A ASN 849 1_555 B C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.422 ? covale ? covale5 A ND2 ASN 167 A ASN 876 1_555 F C1 NAG . A NAG 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.425 ? covale ? covale6 B O4 NAG . B NAG 1 1_555 B C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? # _chem_comp.formula 'C8 H15 N O6' _chem_comp.formula_weight 221.208 _chem_comp.id NAG _chem_comp.mon_nstd_flag . _chem_comp.name 2-acetamido-2-deoxy-beta-D-glucopyranose _chem_comp.type 'd-saccharide, beta linking' _chem_comp.pdbx_synonyms N-acetyl-beta-D-glucosamine;2-acetamido-2-deoxy-beta-D-glucose;2-acetamido-2-deoxy-D-glucose;2-acetamido-2-deoxy-glucose;N-ACETYL-D-GLUCOSAMINE # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.identifier _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version NAG DGlcpNAcb 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 NAG N-acetyl-b-D-glucopyranosamine 'COMMON NAME' GMML 1 NAG b-D-GlcpNAc 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 NAG GlcNAc 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 8AFO _atom_sites.fract_transf_matrix[1][1] 0.017831 _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] 0.010336 _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] 0.009447 _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 NAG A 1 1001 950 NAG NAG . D 3 NAG A 1 1002 953 NAG NAG . E 3 NAG A 1 1003 955 NAG NAG . F 3 NAG A 1 1004 960 NAG NAG . G 4 HOH A 1 1101 1080 HOH HOH . G 4 HOH A 2 1102 1168 HOH HOH . G 4 HOH A 3 1103 1114 HOH HOH . G 4 HOH A 4 1104 1074 HOH HOH . G 4 HOH A 5 1105 1031 HOH HOH . G 4 HOH A 6 1106 1167 HOH HOH . G 4 HOH A 7 1107 1051 HOH HOH . G 4 HOH A 8 1108 1071 HOH HOH . G 4 HOH A 9 1109 1052 HOH HOH . G 4 HOH A 10 1110 1066 HOH HOH . G 4 HOH A 11 1111 1134 HOH HOH . G 4 HOH A 12 1112 1033 HOH HOH . G 4 HOH A 13 1113 1043 HOH HOH . G 4 HOH A 14 1114 1003 HOH HOH . G 4 HOH A 15 1115 1058 HOH HOH . G 4 HOH A 16 1116 1094 HOH HOH . G 4 HOH A 17 1117 1088 HOH HOH . G 4 HOH A 18 1118 1024 HOH HOH . G 4 HOH A 19 1119 1042 HOH HOH . G 4 HOH A 20 1120 1012 HOH HOH . G 4 HOH A 21 1121 1020 HOH HOH . G 4 HOH A 22 1122 1076 HOH HOH . G 4 HOH A 23 1123 1049 HOH HOH . G 4 HOH A 24 1124 1028 HOH HOH . G 4 HOH A 25 1125 1023 HOH HOH . G 4 HOH A 26 1126 1160 HOH HOH . G 4 HOH A 27 1127 1021 HOH HOH . G 4 HOH A 28 1128 1087 HOH HOH . G 4 HOH A 29 1129 1119 HOH HOH . G 4 HOH A 30 1130 1045 HOH HOH . G 4 HOH A 31 1131 1027 HOH HOH . G 4 HOH A 32 1132 1156 HOH HOH . G 4 HOH A 33 1133 1132 HOH HOH . G 4 HOH A 34 1134 1067 HOH HOH . G 4 HOH A 35 1135 1136 HOH HOH . G 4 HOH A 36 1136 1073 HOH HOH . G 4 HOH A 37 1137 1105 HOH HOH . G 4 HOH A 38 1138 1047 HOH HOH . G 4 HOH A 39 1139 1085 HOH HOH . G 4 HOH A 40 1140 1061 HOH HOH . G 4 HOH A 41 1141 1090 HOH HOH . G 4 HOH A 42 1142 1001 HOH HOH . G 4 HOH A 43 1143 1069 HOH HOH . G 4 HOH A 44 1144 1018 HOH HOH . G 4 HOH A 45 1145 1017 HOH HOH . G 4 HOH A 46 1146 1148 HOH HOH . G 4 HOH A 47 1147 1064 HOH HOH . G 4 HOH A 48 1148 1056 HOH HOH . G 4 HOH A 49 1149 1117 HOH HOH . G 4 HOH A 50 1150 1026 HOH HOH . G 4 HOH A 51 1151 1098 HOH HOH . G 4 HOH A 52 1152 1082 HOH HOH . G 4 HOH A 53 1153 1152 HOH HOH . G 4 HOH A 54 1154 1002 HOH HOH . G 4 HOH A 55 1155 1010 HOH HOH . G 4 HOH A 56 1156 1036 HOH HOH . G 4 HOH A 57 1157 1014 HOH HOH . G 4 HOH A 58 1158 1107 HOH HOH . G 4 HOH A 59 1159 1135 HOH HOH . G 4 HOH A 60 1160 1065 HOH HOH . G 4 HOH A 61 1161 1084 HOH HOH . G 4 HOH A 62 1162 1095 HOH HOH . G 4 HOH A 63 1163 1157 HOH HOH . G 4 HOH A 64 1164 1015 HOH HOH . G 4 HOH A 65 1165 1081 HOH HOH . G 4 HOH A 66 1166 1011 HOH HOH . G 4 HOH A 67 1167 1041 HOH HOH . G 4 HOH A 68 1168 1110 HOH HOH . G 4 HOH A 69 1169 1089 HOH HOH . G 4 HOH A 70 1170 1099 HOH HOH . G 4 HOH A 71 1171 1129 HOH HOH . G 4 HOH A 72 1172 1155 HOH HOH . G 4 HOH A 73 1173 1111 HOH HOH . G 4 HOH A 74 1174 1146 HOH HOH . G 4 HOH A 75 1175 1140 HOH HOH . G 4 HOH A 76 1176 1016 HOH HOH . G 4 HOH A 77 1177 1154 HOH HOH . G 4 HOH A 78 1178 1123 HOH HOH . G 4 HOH A 79 1179 1169 HOH HOH . G 4 HOH A 80 1180 1037 HOH HOH . G 4 HOH A 81 1181 1057 HOH HOH . G 4 HOH A 82 1182 1096 HOH HOH . G 4 HOH A 83 1183 1034 HOH HOH . G 4 HOH A 84 1184 1091 HOH HOH . G 4 HOH A 85 1185 1053 HOH HOH . G 4 HOH A 86 1186 1141 HOH HOH . G 4 HOH A 87 1187 1139 HOH HOH . G 4 HOH A 88 1188 1077 HOH HOH . G 4 HOH A 89 1189 1046 HOH HOH . G 4 HOH A 90 1190 1013 HOH HOH . G 4 HOH A 91 1191 1019 HOH HOH . G 4 HOH A 92 1192 1048 HOH HOH . G 4 HOH A 93 1193 1144 HOH HOH . G 4 HOH A 94 1194 1007 HOH HOH . G 4 HOH A 95 1195 1159 HOH HOH . G 4 HOH A 96 1196 1100 HOH HOH . G 4 HOH A 97 1197 1079 HOH HOH . G 4 HOH A 98 1198 1143 HOH HOH . G 4 HOH A 99 1199 1078 HOH HOH . G 4 HOH A 100 1200 1008 HOH HOH . G 4 HOH A 101 1201 1063 HOH HOH . G 4 HOH A 102 1202 1035 HOH HOH . G 4 HOH A 103 1203 1009 HOH HOH . G 4 HOH A 104 1204 1153 HOH HOH . G 4 HOH A 105 1205 1030 HOH HOH . G 4 HOH A 106 1206 1158 HOH HOH . G 4 HOH A 107 1207 1039 HOH HOH . G 4 HOH A 108 1208 1022 HOH HOH . G 4 HOH A 109 1209 1083 HOH HOH . G 4 HOH A 110 1210 1050 HOH HOH . G 4 HOH A 111 1211 1145 HOH HOH . G 4 HOH A 112 1212 1116 HOH HOH . G 4 HOH A 113 1213 1122 HOH HOH . G 4 HOH A 114 1214 1137 HOH HOH . G 4 HOH A 115 1215 1005 HOH HOH . G 4 HOH A 116 1216 1093 HOH HOH . G 4 HOH A 117 1217 1032 HOH HOH . G 4 HOH A 118 1218 1044 HOH HOH . G 4 HOH A 119 1219 1054 HOH HOH . G 4 HOH A 120 1220 1151 HOH HOH . G 4 HOH A 121 1221 1025 HOH HOH . G 4 HOH A 122 1222 1070 HOH HOH . G 4 HOH A 123 1223 1029 HOH HOH . G 4 HOH A 124 1224 1062 HOH HOH . G 4 HOH A 125 1225 1106 HOH HOH . G 4 HOH A 126 1226 1115 HOH HOH . G 4 HOH A 127 1227 1038 HOH HOH . G 4 HOH A 128 1228 1125 HOH HOH . G 4 HOH A 129 1229 1131 HOH HOH . G 4 HOH A 130 1230 1128 HOH HOH . G 4 HOH A 131 1231 1138 HOH HOH . G 4 HOH A 132 1232 1108 HOH HOH . G 4 HOH A 133 1233 1004 HOH HOH . G 4 HOH A 134 1234 1150 HOH HOH . G 4 HOH A 135 1235 1113 HOH HOH . G 4 HOH A 136 1236 1162 HOH HOH . G 4 HOH A 137 1237 1104 HOH HOH . G 4 HOH A 138 1238 1133 HOH HOH . G 4 HOH A 139 1239 1163 HOH HOH . G 4 HOH A 140 1240 1101 HOH HOH . G 4 HOH A 141 1241 1120 HOH HOH . G 4 HOH A 142 1242 1059 HOH HOH . G 4 HOH A 143 1243 1130 HOH HOH . G 4 HOH A 144 1244 1055 HOH HOH . G 4 HOH A 145 1245 1166 HOH HOH . G 4 HOH A 146 1246 1109 HOH HOH . G 4 HOH A 147 1247 1149 HOH HOH . G 4 HOH A 148 1248 1068 HOH HOH . G 4 HOH A 149 1249 1097 HOH HOH . G 4 HOH A 150 1250 1092 HOH HOH . G 4 HOH A 151 1251 1161 HOH HOH . G 4 HOH A 152 1252 1060 HOH HOH . G 4 HOH A 153 1253 1000 HOH HOH . G 4 HOH A 154 1254 1127 HOH HOH . G 4 HOH A 155 1255 1072 HOH HOH . G 4 HOH A 156 1256 1126 HOH HOH . G 4 HOH A 157 1257 1165 HOH HOH . G 4 HOH A 158 1258 1112 HOH HOH . G 4 HOH A 159 1259 1142 HOH HOH . G 4 HOH A 160 1260 1075 HOH HOH . G 4 HOH A 161 1261 1164 HOH HOH . G 4 HOH A 162 1262 1102 HOH HOH . G 4 HOH A 163 1263 1086 HOH HOH . G 4 HOH A 164 1264 1124 HOH HOH . G 4 HOH A 165 1265 1118 HOH HOH . G 4 HOH A 166 1266 1121 HOH HOH . G 4 HOH A 167 1267 1040 HOH HOH . G 4 HOH A 168 1268 1103 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 NAG . . . F 3 -27.334 -23.248 23.473 1 91.63 ? C1 NAG 1004 A 1 HETATM 2 C C2 NAG . . . F 3 -28.237 -23.79 22.388 1 92.99 ? C2 NAG 1004 A 1 HETATM 3 C C3 NAG . . . F 3 -29.584 -23.119 22.445 1 97.26 ? C3 NAG 1004 A 1 HETATM 4 C C4 NAG . . . F 3 -30.295 -23.636 23.679 1 94.04 ? C4 NAG 1004 A 1 HETATM 5 C C5 NAG . . . F 3 -29.528 -23.267 24.947 1 90.59 ? C5 NAG 1004 A 1 HETATM 6 C C6 NAG . . . F 3 -29.756 -24.285 26.038 1 88.48 ? C6 NAG 1004 A 1 HETATM 7 C C7 NAG . . . F 3 -27.808 -24.618 20.126 1 94.86 ? C7 NAG 1004 A 1 HETATM 8 C C8 NAG . . . F 3 -27.138 -24.36 18.809 1 92.87 ? C8 NAG 1004 A 1 HETATM 9 N N2 NAG . . . F 3 -27.647 -23.677 21.063 1 95.35 ? N2 NAG 1004 A 1 HETATM 10 O O3 NAG . . . F 3 -30.33 -23.45 21.279 1 97.01 ? O3 NAG 1004 A 1 HETATM 11 O O4 NAG . . . F 3 -31.622 -23.128 23.76 1 95.01 ? O4 NAG 1004 A 1 HETATM 12 O O5 NAG . . . F 3 -28.091 -23.166 24.79 1 94.12 ? O5 NAG 1004 A 1 HETATM 13 O O6 NAG . . . F 3 -29.1 -25.511 25.741 1 82.5 ? O6 NAG 1004 A 1 HETATM 14 O O7 NAG . . . F 3 -28.475 -25.633 20.332 1 92.19 ? O7 NAG 1004 A 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 263 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #