data_3OG4 # _model_server_result.job_id 7Gc-DfknejHFmmrliksXpA _model_server_result.datetime_utc '2024-10-12 15:32:08' _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 3og4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":300}' # _entry.id 3OG4 # _exptl.entry_id 3OG4 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 4 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _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 3OG4 _cell.length_a 130.19 _cell.length_b 65.44 _cell.length_c 73.15 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3OG4 _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 2' # _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,F _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 4 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 3 _pdbx_entity_branch.type oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 3 3 2 BMA NAG C1 O1 . O3 HO3 . 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 3 n C NAG 1 C 1 NAG B 301 NAG 3 n C NAG 2 C 2 NAG B 302 NAG 3 n C BMA 3 C 3 BMA B 303 BMA # 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 disulf ? disulf1 A SG CYS 46 A CYS 49 1_555 A SG CYS 142 A CYS 145 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf2 B SG CYS 56 B CYS 56 1_555 B SG CYS 64 B CYS 64 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? disulf ? disulf3 B SG CYS 68 B CYS 68 1_555 B SG CYS 132 B CYS 132 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf4 B SG CYS 177 B CYS 177 1_555 B SG CYS 199 B CYS 199 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? covale ? covale1 B ND2 ASN 11 B ASN 11 1_555 D C1 NAG . B NAG 300 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.466 ? covale ? covale2 B ND2 ASN 124 B ASN 124 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale3 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale4 C O3 NAG . C NAG 2 1_555 C C1 BMA . C BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.319 ? # _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_ _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 NAG sing 261 n n C1 O1 NAG sing 262 n n C1 O5 NAG sing 263 n n C1 H1 NAG sing 264 n n C2 C3 NAG sing 265 n n C2 N2 NAG sing 266 n n C2 H2 NAG sing 267 n n C3 C4 NAG sing 268 n n C3 O3 NAG sing 269 n n C3 H3 NAG sing 270 n n C4 C5 NAG sing 271 n n C4 O4 NAG sing 272 n n C4 H4 NAG sing 273 n n C5 C6 NAG sing 274 n n C5 O5 NAG sing 275 n n C5 H5 NAG sing 276 n n C6 O6 NAG sing 277 n n C6 H61 NAG sing 278 n n C6 H62 NAG sing 279 n n C7 C8 NAG sing 280 n n C7 N2 NAG sing 281 n n C7 O7 NAG doub 282 n n C8 H81 NAG sing 283 n n C8 H82 NAG sing 284 n n C8 H83 NAG sing 285 n n N2 HN2 NAG sing 286 n n O1 HO1 NAG sing 287 n n O3 HO3 NAG sing 288 n n O4 HO4 NAG sing 289 n n O6 HO6 NAG sing 290 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 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 3OG4 _atom_sites.fract_transf_matrix[1][1] 0.007681 _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] 0.015281 _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] 0.013671 _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 D 4 NAG B 1 300 300 NAG NAG . E 5 HOH A 1 2 2 HOH HOH . E 5 HOH A 2 3 3 HOH HOH . E 5 HOH A 3 182 182 HOH HOH . E 5 HOH A 4 183 183 HOH HOH . E 5 HOH A 5 184 184 HOH HOH . E 5 HOH A 6 185 185 HOH HOH . E 5 HOH A 7 186 186 HOH HOH . E 5 HOH A 8 187 187 HOH HOH . E 5 HOH A 9 188 188 HOH HOH . E 5 HOH A 10 189 189 HOH HOH . E 5 HOH A 11 190 190 HOH HOH . E 5 HOH A 12 191 191 HOH HOH . E 5 HOH A 13 192 192 HOH HOH . E 5 HOH A 14 193 193 HOH HOH . E 5 HOH A 15 194 194 HOH HOH . E 5 HOH A 16 195 195 HOH HOH . E 5 HOH A 17 196 196 HOH HOH . E 5 HOH A 18 197 197 HOH HOH . E 5 HOH A 19 198 198 HOH HOH . E 5 HOH A 20 199 199 HOH HOH . E 5 HOH A 21 200 200 HOH HOH . E 5 HOH A 22 201 201 HOH HOH . E 5 HOH A 23 202 202 HOH HOH . E 5 HOH A 24 203 203 HOH HOH . E 5 HOH A 25 204 204 HOH HOH . E 5 HOH A 26 205 205 HOH HOH . E 5 HOH A 27 206 206 HOH HOH . E 5 HOH A 28 207 207 HOH HOH . E 5 HOH A 29 208 208 HOH HOH . E 5 HOH A 30 209 209 HOH HOH . E 5 HOH A 31 210 210 HOH HOH . E 5 HOH A 32 211 211 HOH HOH . E 5 HOH A 33 212 212 HOH HOH . E 5 HOH A 34 213 213 HOH HOH . E 5 HOH A 35 214 214 HOH HOH . E 5 HOH A 36 215 215 HOH HOH . E 5 HOH A 37 216 216 HOH HOH . E 5 HOH A 38 217 217 HOH HOH . E 5 HOH A 39 218 218 HOH HOH . E 5 HOH A 40 219 219 HOH HOH . E 5 HOH A 41 220 220 HOH HOH . E 5 HOH A 42 221 221 HOH HOH . E 5 HOH A 43 222 222 HOH HOH . E 5 HOH A 44 223 223 HOH HOH . E 5 HOH A 45 224 224 HOH HOH . E 5 HOH A 46 225 225 HOH HOH . E 5 HOH A 47 226 226 HOH HOH . E 5 HOH A 48 227 227 HOH HOH . E 5 HOH A 49 228 228 HOH HOH . E 5 HOH A 50 229 229 HOH HOH . E 5 HOH A 51 230 230 HOH HOH . E 5 HOH A 52 231 231 HOH HOH . E 5 HOH A 53 232 232 HOH HOH . E 5 HOH A 54 233 233 HOH HOH . E 5 HOH A 55 234 234 HOH HOH . E 5 HOH A 56 235 235 HOH HOH . E 5 HOH A 57 236 236 HOH HOH . E 5 HOH A 58 237 237 HOH HOH . E 5 HOH A 59 238 238 HOH HOH . E 5 HOH A 60 239 239 HOH HOH . E 5 HOH A 61 240 240 HOH HOH . E 5 HOH A 62 241 241 HOH HOH . E 5 HOH A 63 242 242 HOH HOH . F 5 HOH B 1 227 227 HOH HOH . F 5 HOH B 2 228 228 HOH HOH . F 5 HOH B 3 229 229 HOH HOH . F 5 HOH B 4 230 230 HOH HOH . F 5 HOH B 5 231 231 HOH HOH . F 5 HOH B 6 232 232 HOH HOH . F 5 HOH B 7 233 233 HOH HOH . F 5 HOH B 8 234 234 HOH HOH . F 5 HOH B 9 235 235 HOH HOH . F 5 HOH B 10 236 236 HOH HOH . F 5 HOH B 11 237 237 HOH HOH . F 5 HOH B 12 238 238 HOH HOH . F 5 HOH B 13 239 239 HOH HOH . F 5 HOH B 14 240 240 HOH HOH . F 5 HOH B 15 241 241 HOH HOH . F 5 HOH B 16 242 242 HOH HOH . F 5 HOH B 17 243 243 HOH HOH . F 5 HOH B 18 244 244 HOH HOH . F 5 HOH B 19 245 245 HOH HOH . F 5 HOH B 20 246 246 HOH HOH . F 5 HOH B 21 247 247 HOH HOH . F 5 HOH B 22 248 248 HOH HOH . F 5 HOH B 23 249 249 HOH HOH . F 5 HOH B 24 250 250 HOH HOH . F 5 HOH B 25 251 251 HOH HOH . F 5 HOH B 26 252 252 HOH HOH . F 5 HOH B 27 253 253 HOH HOH . F 5 HOH B 28 254 254 HOH HOH . F 5 HOH B 29 255 255 HOH HOH . F 5 HOH B 30 256 256 HOH HOH . F 5 HOH B 31 257 257 HOH HOH . F 5 HOH B 32 258 258 HOH HOH . F 5 HOH B 33 259 259 HOH HOH . F 5 HOH B 34 260 260 HOH HOH . F 5 HOH B 35 261 261 HOH HOH . F 5 HOH B 36 262 262 HOH HOH . F 5 HOH B 37 263 263 HOH HOH . F 5 HOH B 38 264 264 HOH HOH . F 5 HOH B 39 265 265 HOH HOH . F 5 HOH B 40 266 266 HOH HOH . F 5 HOH B 41 267 267 HOH HOH . F 5 HOH B 42 268 268 HOH HOH . F 5 HOH B 43 269 269 HOH HOH . F 5 HOH B 44 270 270 HOH HOH . F 5 HOH B 45 271 271 HOH HOH . F 5 HOH B 46 272 272 HOH HOH . F 5 HOH B 47 273 273 HOH HOH . F 5 HOH B 48 274 274 HOH HOH . F 5 HOH B 49 275 275 HOH HOH . F 5 HOH B 50 276 276 HOH HOH . F 5 HOH B 51 277 277 HOH HOH . F 5 HOH B 52 278 278 HOH HOH . F 5 HOH B 53 279 279 HOH HOH . F 5 HOH B 54 280 280 HOH HOH . F 5 HOH B 55 281 281 HOH HOH . F 5 HOH B 56 282 282 HOH HOH . F 5 HOH B 57 283 283 HOH HOH . F 5 HOH B 58 284 284 HOH HOH . F 5 HOH B 59 285 285 HOH HOH . F 5 HOH B 60 286 286 HOH HOH . F 5 HOH B 61 287 287 HOH HOH . F 5 HOH B 62 288 288 HOH HOH . F 5 HOH B 63 289 289 HOH HOH . F 5 HOH B 64 290 290 HOH HOH . F 5 HOH B 65 291 291 HOH HOH . F 5 HOH B 66 292 292 HOH HOH . F 5 HOH B 67 293 293 HOH HOH . F 5 HOH B 68 294 294 HOH HOH . F 5 HOH B 69 295 295 HOH HOH . F 5 HOH B 70 296 296 HOH HOH . F 5 HOH B 71 297 297 HOH HOH . F 5 HOH B 72 298 298 HOH HOH . F 5 HOH B 73 299 299 HOH HOH . F 5 HOH B 74 304 304 HOH HOH . F 5 HOH B 75 305 305 HOH HOH . F 5 HOH B 76 306 306 HOH HOH . F 5 HOH B 77 307 307 HOH HOH . F 5 HOH B 78 308 308 HOH HOH . F 5 HOH B 79 309 309 HOH HOH . F 5 HOH B 80 310 310 HOH HOH . F 5 HOH B 81 311 311 HOH HOH . F 5 HOH B 82 312 312 HOH HOH . F 5 HOH B 83 313 313 HOH HOH . F 5 HOH B 84 314 314 HOH HOH . F 5 HOH B 85 315 315 HOH HOH . F 5 HOH B 86 316 316 HOH HOH . F 5 HOH B 87 317 317 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 . . . D 4 42.89 35.53 33.144 1 116.25 ? C1 NAG 300 B 1 HETATM 2 C C2 NAG . . . D 4 44.313 35.207 33.583 1 122.42 ? C2 NAG 300 B 1 HETATM 3 C C3 NAG . . . D 4 44.315 34.343 34.838 1 127.27 ? C3 NAG 300 B 1 HETATM 4 C C4 NAG . . . D 4 43.378 34.915 35.896 1 126.08 ? C4 NAG 300 B 1 HETATM 5 C C5 NAG . . . D 4 42.02 35.259 35.294 1 126.23 ? C5 NAG 300 B 1 HETATM 6 C C6 NAG . . . D 4 41.111 35.905 36.332 1 126.62 ? C6 NAG 300 B 1 HETATM 7 C C7 NAG . . . D 4 46.342 34.606 32.397 1 118.64 ? C7 NAG 300 B 1 HETATM 8 C C8 NAG . . . D 4 46.957 33.861 31.249 1 113.47 ? C8 NAG 300 B 1 HETATM 9 N N2 NAG . . . D 4 45.019 34.529 32.514 1 120.79 ? N2 NAG 300 B 1 HETATM 10 O O3 NAG . . . D 4 45.623 34.273 35.359 1 131.4 ? O3 NAG 300 B 1 HETATM 11 O O4 NAG . . . D 4 43.208 33.974 36.932 1 122.91 ? O4 NAG 300 B 1 HETATM 12 O O5 NAG . . . D 4 42.197 36.142 34.209 1 122.77 ? O5 NAG 300 B 1 HETATM 13 O O6 NAG . . . D 4 41.002 37.286 36.068 1 126.57 ? O6 NAG 300 B 1 HETATM 14 O O7 NAG . . . D 4 47.047 35.246 33.174 1 118.26 ? O7 NAG 300 B 1 # _model_server_stats.io_time_ms 0 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 302 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #