data_8R3D # _model_server_result.job_id eKmwGykF43Y4DpA2WSGWxA _model_server_result.datetime_utc '2024-11-13 04:33:27' _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 8r3d # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":101}' # _entry.id 8R3D # _exptl.entry_id 8R3D _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-alpha-D-glucopyranose _entity.pdbx_number_of_molecules 5 _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 8R3D _cell.length_a 52.74 _cell.length_b 59.131 _cell.length_c 72.464 _cell.Z_PDB 20 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8R3D _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall 'P 2ac 2ab' _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details pentameric _pdbx_struct_assembly.oligomeric_count 5 _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,H,I,J,K,L,M,N,O _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 ? 2 F N N ? 2 G N N ? 2 H N N ? 2 I N N ? 2 J N N # _chem_comp.formula 'C8 H15 N O6' _chem_comp.formula_weight 221.208 _chem_comp.id NDG _chem_comp.mon_nstd_flag . _chem_comp.name 2-acetamido-2-deoxy-alpha-D-glucopyranose _chem_comp.type 'd-saccharide, alpha linking' _chem_comp.pdbx_synonyms N-acetyl-alpha-D-glucosamine;2-acetamido-2-deoxy-alpha-D-glucose;2-acetamido-2-deoxy-D-glucose;2-acetamido-2-deoxy-glucose;2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE # 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 C2 NDG sing 187 n n C1 O5 NDG sing 188 n n C1 O1 NDG sing 189 n n C1 H1 NDG sing 190 n n C2 C3 NDG sing 191 n n C2 N2 NDG sing 192 n n C2 H2 NDG sing 193 n n C3 C4 NDG sing 194 n n C3 O3 NDG sing 195 n n C3 H3 NDG sing 196 n n C4 C5 NDG sing 197 n n C4 O4 NDG sing 198 n n C4 H4 NDG sing 199 n n C5 C6 NDG sing 200 n n C5 O5 NDG sing 201 n n C5 H5 NDG sing 202 n n C6 O6 NDG sing 203 n n C6 H61 NDG sing 204 n n C6 H62 NDG sing 205 n n C7 C8 NDG sing 206 n n C7 O7 NDG doub 207 n n C7 N2 NDG sing 208 n n C8 H81 NDG sing 209 n n C8 H82 NDG sing 210 n n C8 H83 NDG sing 211 n n O3 HO3 NDG sing 212 n n O4 HO4 NDG sing 213 n n O6 HO6 NDG sing 214 n n N2 HN2 NDG sing 215 n n O1 HO1 NDG sing 216 n n # 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 NDG DGlcpNAca 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 NDG N-acetyl-a-D-glucopyranosamine 'COMMON NAME' GMML 1 NDG a-D-GlcpNAc 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 NDG GlcNAc 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 8R3D _atom_sites.fract_transf_matrix[1][1] 0.018961 _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] 0.016912 _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] 0.0138 _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 F 2 NDG A 1 101 101 NDG NDG . G 2 NDG B 1 101 101 NDG NDG . H 2 NDG C 1 101 101 NDG NDG . I 2 NDG D 1 101 101 NDG NDG . J 2 NDG E 1 101 101 NDG NDG . K 3 HOH A 1 201 112 HOH HOH . K 3 HOH A 2 202 252 HOH HOH . K 3 HOH A 3 203 225 HOH HOH . K 3 HOH A 4 204 141 HOH HOH . K 3 HOH A 5 205 149 HOH HOH . K 3 HOH A 6 206 171 HOH HOH . K 3 HOH A 7 207 179 HOH HOH . K 3 HOH A 8 208 160 HOH HOH . K 3 HOH A 9 209 79 HOH HOH . K 3 HOH A 10 210 28 HOH HOH . K 3 HOH A 11 211 58 HOH HOH . K 3 HOH A 12 212 153 HOH HOH . K 3 HOH A 13 213 173 HOH HOH . K 3 HOH A 14 214 4 HOH HOH . K 3 HOH A 15 215 226 HOH HOH . K 3 HOH A 16 216 118 HOH HOH . K 3 HOH A 17 217 55 HOH HOH . K 3 HOH A 18 218 51 HOH HOH . K 3 HOH A 19 219 198 HOH HOH . K 3 HOH A 20 220 86 HOH HOH . K 3 HOH A 21 221 170 HOH HOH . K 3 HOH A 22 222 178 HOH HOH . K 3 HOH A 23 223 46 HOH HOH . K 3 HOH A 24 224 200 HOH HOH . K 3 HOH A 25 225 120 HOH HOH . K 3 HOH A 26 226 95 HOH HOH . K 3 HOH A 27 227 54 HOH HOH . K 3 HOH A 28 228 158 HOH HOH . K 3 HOH A 29 229 119 HOH HOH . K 3 HOH A 30 230 44 HOH HOH . K 3 HOH A 31 231 168 HOH HOH . K 3 HOH A 32 232 27 HOH HOH . K 3 HOH A 33 233 76 HOH HOH . K 3 HOH A 34 234 68 HOH HOH . K 3 HOH A 35 235 144 HOH HOH . K 3 HOH A 36 236 12 HOH HOH . K 3 HOH A 37 237 84 HOH HOH . K 3 HOH A 38 238 103 HOH HOH . K 3 HOH A 39 239 251 HOH HOH . K 3 HOH A 40 240 247 HOH HOH . K 3 HOH A 41 241 223 HOH HOH . K 3 HOH A 42 242 96 HOH HOH . K 3 HOH A 43 243 245 HOH HOH . K 3 HOH A 44 244 93 HOH HOH . K 3 HOH A 45 245 214 HOH HOH . K 3 HOH A 46 246 172 HOH HOH . K 3 HOH A 47 247 229 HOH HOH . K 3 HOH A 48 248 205 HOH HOH . K 3 HOH A 49 249 249 HOH HOH . K 3 HOH A 50 250 243 HOH HOH . K 3 HOH A 51 251 126 HOH HOH . K 3 HOH A 52 252 2 HOH HOH . K 3 HOH A 53 253 17 HOH HOH . K 3 HOH A 54 254 193 HOH HOH . K 3 HOH A 55 255 255 HOH HOH . K 3 HOH A 56 256 175 HOH HOH . K 3 HOH A 57 257 213 HOH HOH . L 3 HOH B 1 201 164 HOH HOH . L 3 HOH B 2 202 135 HOH HOH . L 3 HOH B 3 203 107 HOH HOH . L 3 HOH B 4 204 100 HOH HOH . L 3 HOH B 5 205 80 HOH HOH . L 3 HOH B 6 206 151 HOH HOH . L 3 HOH B 7 207 13 HOH HOH . L 3 HOH B 8 208 157 HOH HOH . L 3 HOH B 9 209 174 HOH HOH . L 3 HOH B 10 210 73 HOH HOH . L 3 HOH B 11 211 109 HOH HOH . L 3 HOH B 12 212 191 HOH HOH . L 3 HOH B 13 213 78 HOH HOH . L 3 HOH B 14 214 232 HOH HOH . L 3 HOH B 15 215 29 HOH HOH . L 3 HOH B 16 216 239 HOH HOH . L 3 HOH B 17 217 177 HOH HOH . L 3 HOH B 18 218 125 HOH HOH . L 3 HOH B 19 219 185 HOH HOH . L 3 HOH B 20 220 49 HOH HOH . L 3 HOH B 21 221 97 HOH HOH . L 3 HOH B 22 222 197 HOH HOH . L 3 HOH B 23 223 196 HOH HOH . L 3 HOH B 24 224 176 HOH HOH . L 3 HOH B 25 225 66 HOH HOH . L 3 HOH B 26 226 113 HOH HOH . L 3 HOH B 27 227 59 HOH HOH . L 3 HOH B 28 228 92 HOH HOH . L 3 HOH B 29 229 87 HOH HOH . L 3 HOH B 30 230 104 HOH HOH . L 3 HOH B 31 231 122 HOH HOH . L 3 HOH B 32 232 41 HOH HOH . L 3 HOH B 33 233 72 HOH HOH . L 3 HOH B 34 234 192 HOH HOH . L 3 HOH B 35 235 81 HOH HOH . L 3 HOH B 36 236 224 HOH HOH . L 3 HOH B 37 237 127 HOH HOH . L 3 HOH B 38 238 19 HOH HOH . L 3 HOH B 39 239 10 HOH HOH . L 3 HOH B 40 240 210 HOH HOH . L 3 HOH B 41 241 124 HOH HOH . L 3 HOH B 42 242 146 HOH HOH . L 3 HOH B 43 243 227 HOH HOH . L 3 HOH B 44 244 74 HOH HOH . L 3 HOH B 45 245 211 HOH HOH . L 3 HOH B 46 246 257 HOH HOH . L 3 HOH B 47 247 130 HOH HOH . L 3 HOH B 48 248 184 HOH HOH . L 3 HOH B 49 249 230 HOH HOH . L 3 HOH B 50 250 235 HOH HOH . L 3 HOH B 51 251 3 HOH HOH . L 3 HOH B 52 252 21 HOH HOH . L 3 HOH B 53 253 71 HOH HOH . L 3 HOH B 54 254 181 HOH HOH . L 3 HOH B 55 255 238 HOH HOH . M 3 HOH C 1 201 154 HOH HOH . M 3 HOH C 2 202 189 HOH HOH . M 3 HOH C 3 203 101 HOH HOH . M 3 HOH C 4 204 61 HOH HOH . M 3 HOH C 5 205 240 HOH HOH . M 3 HOH C 6 206 188 HOH HOH . M 3 HOH C 7 207 161 HOH HOH . M 3 HOH C 8 208 187 HOH HOH . M 3 HOH C 9 209 98 HOH HOH . M 3 HOH C 10 210 88 HOH HOH . M 3 HOH C 11 211 31 HOH HOH . M 3 HOH C 12 212 8 HOH HOH . M 3 HOH C 13 213 167 HOH HOH . M 3 HOH C 14 214 89 HOH HOH . M 3 HOH C 15 215 111 HOH HOH . M 3 HOH C 16 216 26 HOH HOH . M 3 HOH C 17 217 40 HOH HOH . M 3 HOH C 18 218 136 HOH HOH . M 3 HOH C 19 219 182 HOH HOH . M 3 HOH C 20 220 250 HOH HOH . M 3 HOH C 21 221 110 HOH HOH . M 3 HOH C 22 222 159 HOH HOH . M 3 HOH C 23 223 48 HOH HOH . M 3 HOH C 24 224 56 HOH HOH . M 3 HOH C 25 225 256 HOH HOH . M 3 HOH C 26 226 166 HOH HOH . M 3 HOH C 27 227 215 HOH HOH . M 3 HOH C 28 228 23 HOH HOH . M 3 HOH C 29 229 11 HOH HOH . M 3 HOH C 30 230 75 HOH HOH . M 3 HOH C 31 231 69 HOH HOH . M 3 HOH C 32 232 203 HOH HOH . M 3 HOH C 33 233 52 HOH HOH . M 3 HOH C 34 234 199 HOH HOH . M 3 HOH C 35 235 106 HOH HOH . M 3 HOH C 36 236 165 HOH HOH . M 3 HOH C 37 237 208 HOH HOH . M 3 HOH C 38 238 218 HOH HOH . M 3 HOH C 39 239 253 HOH HOH . M 3 HOH C 40 240 5 HOH HOH . M 3 HOH C 41 241 16 HOH HOH . M 3 HOH C 42 242 228 HOH HOH . M 3 HOH C 43 243 140 HOH HOH . M 3 HOH C 44 244 220 HOH HOH . N 3 HOH D 1 201 147 HOH HOH . N 3 HOH D 2 202 201 HOH HOH . N 3 HOH D 3 203 105 HOH HOH . N 3 HOH D 4 204 67 HOH HOH . N 3 HOH D 5 205 43 HOH HOH . N 3 HOH D 6 206 47 HOH HOH . N 3 HOH D 7 207 206 HOH HOH . N 3 HOH D 8 208 143 HOH HOH . N 3 HOH D 9 209 30 HOH HOH . N 3 HOH D 10 210 145 HOH HOH . N 3 HOH D 11 211 219 HOH HOH . N 3 HOH D 12 212 150 HOH HOH . N 3 HOH D 13 213 25 HOH HOH . N 3 HOH D 14 214 204 HOH HOH . N 3 HOH D 15 215 209 HOH HOH . N 3 HOH D 16 216 37 HOH HOH . N 3 HOH D 17 217 6 HOH HOH . N 3 HOH D 18 218 114 HOH HOH . N 3 HOH D 19 219 132 HOH HOH . N 3 HOH D 20 220 133 HOH HOH . N 3 HOH D 21 221 33 HOH HOH . N 3 HOH D 22 222 32 HOH HOH . N 3 HOH D 23 223 85 HOH HOH . N 3 HOH D 24 224 94 HOH HOH . N 3 HOH D 25 225 236 HOH HOH . N 3 HOH D 26 226 190 HOH HOH . N 3 HOH D 27 227 60 HOH HOH . N 3 HOH D 28 228 137 HOH HOH . N 3 HOH D 29 229 50 HOH HOH . N 3 HOH D 30 230 163 HOH HOH . N 3 HOH D 31 231 83 HOH HOH . N 3 HOH D 32 232 183 HOH HOH . N 3 HOH D 33 233 180 HOH HOH . N 3 HOH D 34 234 24 HOH HOH . N 3 HOH D 35 235 1 HOH HOH . N 3 HOH D 36 236 36 HOH HOH . N 3 HOH D 37 237 195 HOH HOH . N 3 HOH D 38 238 91 HOH HOH . N 3 HOH D 39 239 237 HOH HOH . N 3 HOH D 40 240 77 HOH HOH . N 3 HOH D 41 241 242 HOH HOH . N 3 HOH D 42 242 258 HOH HOH . N 3 HOH D 43 243 7 HOH HOH . N 3 HOH D 44 244 9 HOH HOH . N 3 HOH D 45 245 202 HOH HOH . N 3 HOH D 46 246 169 HOH HOH . N 3 HOH D 47 247 138 HOH HOH . O 3 HOH E 1 201 129 HOH HOH . O 3 HOH E 2 202 38 HOH HOH . O 3 HOH E 3 203 121 HOH HOH . O 3 HOH E 4 204 18 HOH HOH . O 3 HOH E 5 205 212 HOH HOH . O 3 HOH E 6 206 64 HOH HOH . O 3 HOH E 7 207 115 HOH HOH . O 3 HOH E 8 208 155 HOH HOH . O 3 HOH E 9 209 217 HOH HOH . O 3 HOH E 10 210 108 HOH HOH . O 3 HOH E 11 211 246 HOH HOH . O 3 HOH E 12 212 234 HOH HOH . O 3 HOH E 13 213 42 HOH HOH . O 3 HOH E 14 214 221 HOH HOH . O 3 HOH E 15 215 22 HOH HOH . O 3 HOH E 16 216 53 HOH HOH . O 3 HOH E 17 217 45 HOH HOH . O 3 HOH E 18 218 148 HOH HOH . O 3 HOH E 19 219 116 HOH HOH . O 3 HOH E 20 220 194 HOH HOH . O 3 HOH E 21 221 139 HOH HOH . O 3 HOH E 22 222 222 HOH HOH . O 3 HOH E 23 223 57 HOH HOH . O 3 HOH E 24 224 82 HOH HOH . O 3 HOH E 25 225 70 HOH HOH . O 3 HOH E 26 226 152 HOH HOH . O 3 HOH E 27 227 254 HOH HOH . O 3 HOH E 28 228 35 HOH HOH . O 3 HOH E 29 229 99 HOH HOH . O 3 HOH E 30 230 131 HOH HOH . O 3 HOH E 31 231 233 HOH HOH . O 3 HOH E 32 232 117 HOH HOH . O 3 HOH E 33 233 39 HOH HOH . O 3 HOH E 34 234 34 HOH HOH . O 3 HOH E 35 235 62 HOH HOH . O 3 HOH E 36 236 128 HOH HOH . O 3 HOH E 37 237 134 HOH HOH . O 3 HOH E 38 238 241 HOH HOH . O 3 HOH E 39 239 90 HOH HOH . O 3 HOH E 40 240 186 HOH HOH . O 3 HOH E 41 241 142 HOH HOH . O 3 HOH E 42 242 65 HOH HOH . O 3 HOH E 43 243 15 HOH HOH . O 3 HOH E 44 244 216 HOH HOH . O 3 HOH E 45 245 156 HOH HOH . O 3 HOH E 46 246 244 HOH HOH . O 3 HOH E 47 247 123 HOH HOH . O 3 HOH E 48 248 248 HOH HOH . O 3 HOH E 49 249 207 HOH HOH . O 3 HOH E 50 250 231 HOH HOH . O 3 HOH E 51 251 14 HOH HOH . O 3 HOH E 52 252 20 HOH HOH . O 3 HOH E 53 253 102 HOH HOH . O 3 HOH E 54 254 162 HOH HOH . O 3 HOH E 55 255 63 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 NDG . . . F 2 -37.677 10.538 -0.243 1 26.51 ? C1 NDG 101 A 1 HETATM 2 C C2 NDG . . . F 2 -36.374 9.719 -0.408 1 21.97 ? C2 NDG 101 A 1 HETATM 3 C C3 NDG . . . F 2 -35.312 10.587 -1.08 1 23.99 ? C3 NDG 101 A 1 HETATM 4 C C4 NDG . . . F 2 -35.814 11.135 -2.414 1 18.32 ? C4 NDG 101 A 1 HETATM 5 C C5 NDG . . . F 2 -37.11 11.901 -2.164 1 21.29 ? C5 NDG 101 A 1 HETATM 6 C C6 NDG . . . F 2 -37.749 12.305 -3.492 1 28.62 ? C6 NDG 101 A 1 HETATM 7 C C7 NDG . . . F 2 -36.15 7.942 1.262 1 20.49 ? C7 NDG 101 A 1 HETATM 8 C C8 NDG . . . F 2 -35.539 7.478 2.582 1 16.71 ? C8 NDG 101 A 1 HETATM 9 O O5 NDG . . . F 2 -38.072 11.077 -1.511 1 23.95 ? O5 NDG 101 A 1 HETATM 10 O O3 NDG . . . F 2 -34.155 9.761 -1.259 1 17.91 ? O3 NDG 101 A 1 HETATM 11 O O4 NDG . . . F 2 -34.829 12.002 -2.972 1 22.54 ? O4 NDG 101 A 1 HETATM 12 O O6 NDG . . . F 2 -39.01 12.954 -3.267 1 34.25 ? O6 NDG 101 A 1 HETATM 13 O O7 NDG . . . F 2 -36.896 7.239 0.599 1 20.24 ? O7 NDG 101 A 1 HETATM 14 N N2 NDG . . . F 2 -35.834 9.202 0.848 1 20.41 ? N2 NDG 101 A 1 HETATM 15 O O1 NDG . . . F 2 -37.412 11.535 0.718 1 25.97 ? O1 NDG 101 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 266 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 15 #