data_8DUN # _model_server_result.job_id EuiOTmxzT-V2H6cztkU7Ig _model_server_result.datetime_utc '2025-02-05 18:56:37' _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 8dun # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"U","auth_seq_id":1002}' # _entry.id 8DUN # _exptl.entry_id 8DUN _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 221.208 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 7 _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 8DUN _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8DUN _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dodecameric _pdbx_struct_assembly.oligomeric_count 12 _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,P,Q,R,S,T,U _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 ? _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 ? 6 O N N ? 6 P N N ? 6 Q N N ? 6 R N N ? 6 S N N ? 6 T N N ? 6 U N N # _pdbx_entity_branch.entity_id 5 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 5 _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 5 n M NAG 1 C 1 NAG B 1002 NAG 5 n M NAG 2 C 2 NAG B 1003 NAG 5 n N NAG 1 D 1 NAG G 1001 NAG 5 n N NAG 2 D 2 NAG G 1002 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 disulf ? disulf1 C SG CYS 109 A CYS 49 1_555 C SG CYS 174 A CYS 114 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf2 C SG CYS 122 A CYS 62 1_555 C SG CYS 154 A CYS 94 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf3 C SG CYS 123 A CYS 63 1_555 C SG CYS 156 A CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf4 C SG CYS 319 A CYS 259 1_555 C SG CYS 331 A CYS 271 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf5 C SG CYS 361 A CYS 301 1_555 C SG CYS 436 A CYS 376 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf6 C SG CYS 366 A CYS 306 1_555 C SG CYS 440 A CYS 380 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf7 C SG CYS 388 A CYS 328 1_555 C SG CYS 430 A CYS 370 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf8 D SG CYS 6 B CYS 19 1_555 D SG CYS 114 B CYS 127 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf9 D SG CYS 9 B CYS 22 1_555 D SG CYS 15 B CYS 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf10 D SG CYS 81 B CYS 94 1_555 D SG CYS 95 B CYS 108 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf11 D SG CYS 142 B CYS 155 1_555 D SG CYS 256 B CYS 269 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf12 D SG CYS 191 B CYS 204 1_555 D SG CYS 216 B CYS 229 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf13 D SG CYS 193 B CYS 206 1_555 D SG CYS 210 B CYS 223 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf14 E SG CYS 109 F CYS 49 1_555 E SG CYS 174 F CYS 114 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf15 E SG CYS 122 F CYS 62 1_555 E SG CYS 154 F CYS 94 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf16 E SG CYS 123 F CYS 63 1_555 E SG CYS 156 F CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf17 E SG CYS 319 F CYS 259 1_555 E SG CYS 331 F CYS 271 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf18 E SG CYS 361 F CYS 301 1_555 E SG CYS 436 F CYS 376 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf19 E SG CYS 366 F CYS 306 1_555 E SG CYS 440 F CYS 380 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf20 E SG CYS 388 F CYS 328 1_555 E SG CYS 430 F CYS 370 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf21 F SG CYS 6 G CYS 19 1_555 F SG CYS 114 G CYS 127 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf22 F SG CYS 9 G CYS 22 1_555 F SG CYS 15 G CYS 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf23 F SG CYS 81 G CYS 94 1_555 F SG CYS 95 G CYS 108 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf24 F SG CYS 142 G CYS 155 1_555 F SG CYS 256 G CYS 269 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf25 F SG CYS 191 G CYS 204 1_555 F SG CYS 216 G CYS 229 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf26 F SG CYS 193 G CYS 206 1_555 F SG CYS 210 G CYS 223 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf27 G SG CYS 109 J CYS 49 1_555 G SG CYS 174 J CYS 114 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf28 G SG CYS 123 J CYS 63 1_555 G SG CYS 156 J CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf29 G SG CYS 319 J CYS 259 1_555 G SG CYS 331 J CYS 271 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf30 G SG CYS 361 J CYS 301 1_555 G SG CYS 436 J CYS 376 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf31 G SG CYS 366 J CYS 306 1_555 G SG CYS 440 J CYS 380 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf32 G SG CYS 388 J CYS 328 1_555 G SG CYS 430 J CYS 370 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf33 H SG CYS 6 K CYS 19 1_555 H SG CYS 114 K CYS 127 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf34 H SG CYS 9 K CYS 22 1_555 H SG CYS 15 K CYS 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf35 H SG CYS 81 K CYS 94 1_555 H SG CYS 95 K CYS 108 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf36 H SG CYS 142 K CYS 155 1_555 H SG CYS 256 K CYS 269 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf37 H SG CYS 191 K CYS 204 1_555 H SG CYS 216 K CYS 229 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf38 H SG CYS 193 K CYS 206 1_555 H SG CYS 210 K CYS 223 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? covale ? covale1 C ND2 ASN 305 A ASN 245 1_555 O C1 NAG . A NAG 1000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale2 D ND2 ASN 186 B ASN 199 1_555 M C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale3 D ND2 ASN 308 B ASN 321 1_555 P C1 NAG . B NAG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? covale ? covale4 E ND2 ASN 305 F ASN 245 1_555 Q C1 NAG . F NAG 1000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale5 F ND2 ASN 186 G ASN 199 1_555 N C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.457 ? covale ? covale6 F ND2 ASN 308 G ASN 321 1_555 R C1 NAG . G NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? covale ? covale7 G ND2 ASN 305 J ASN 245 1_555 S C1 NAG . J NAG 1000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale8 H ND2 ASN 186 K ASN 199 1_555 T C1 NAG . K NAG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale9 H ND2 ASN 308 K ASN 321 1_555 U C1 NAG . K NAG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? covale ? covale10 M O4 NAG . C NAG 1 1_555 M C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale11 N O4 NAG . D NAG 1 1_555 N C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? # _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 235 n n C1 O1 NAG sing 236 n n C1 O5 NAG sing 237 n n C1 H1 NAG sing 238 n n C2 C3 NAG sing 239 n n C2 N2 NAG sing 240 n n C2 H2 NAG sing 241 n n C3 C4 NAG sing 242 n n C3 O3 NAG sing 243 n n C3 H3 NAG sing 244 n n C4 C5 NAG sing 245 n n C4 O4 NAG sing 246 n n C4 H4 NAG sing 247 n n C5 C6 NAG sing 248 n n C5 O5 NAG sing 249 n n C5 H5 NAG sing 250 n n C6 O6 NAG sing 251 n n C6 H61 NAG sing 252 n n C6 H62 NAG sing 253 n n C7 C8 NAG sing 254 n n C7 N2 NAG sing 255 n n C7 O7 NAG doub 256 n n C8 H81 NAG sing 257 n n C8 H82 NAG sing 258 n n C8 H83 NAG sing 259 n n N2 HN2 NAG sing 260 n n O1 HO1 NAG sing 261 n n O3 HO3 NAG sing 262 n n O4 HO4 NAG sing 263 n n O6 HO6 NAG sing 264 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 8DUN _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 O 6 NAG A 1 1000 1000 NAG NAG . P 6 NAG B 1 1001 1001 NAG NAG . Q 6 NAG F 1 1000 1000 NAG NAG . R 6 NAG G 1 501 1003 NAG NAG . S 6 NAG J 1 1000 1000 NAG NAG . T 6 NAG K 1 1001 1001 NAG NAG . U 6 NAG K 1 1002 1002 NAG NAG . # 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 . . . U 6 712.048 692.992 388.423 1 30 ? C1 NAG 1002 K 1 HETATM 2 C C2 NAG . . . U 6 712.758 693.485 389.681 1 30 ? C2 NAG 1002 K 1 HETATM 3 C C3 NAG . . . U 6 713.887 692.529 390.026 1 30 ? C3 NAG 1002 K 1 HETATM 4 C C4 NAG . . . U 6 713.329 691.123 390.172 1 30 ? C4 NAG 1002 K 1 HETATM 5 C C5 NAG . . . U 6 712.6 690.718 388.897 1 30 ? C5 NAG 1002 K 1 HETATM 6 C C6 NAG . . . U 6 711.989 689.331 389.042 1 30 ? C6 NAG 1002 K 1 HETATM 7 C C7 NAG . . . U 6 712.64 695.912 389.823 1 30 ? C7 NAG 1002 K 1 HETATM 8 C C8 NAG . . . U 6 713.022 697.158 389.08 1 30 ? C8 NAG 1002 K 1 HETATM 9 N N2 NAG . . . U 6 713.306 694.812 389.482 1 30 ? N2 NAG 1002 K 1 HETATM 10 O O3 NAG . . . U 6 714.499 692.935 391.255 1 30 ? O3 NAG 1002 K 1 HETATM 11 O O4 NAG . . . U 6 714.398 690.205 390.424 1 30 ? O4 NAG 1002 K 1 HETATM 12 O O5 NAG . . . U 6 711.569 691.66 388.601 1 30 ? O5 NAG 1002 K 1 HETATM 13 O O6 NAG . . . U 6 710.962 689.37 390.038 1 30 ? O6 NAG 1002 K 1 HETATM 14 O O7 NAG . . . U 6 711.774 695.906 390.682 1 30 ? O7 NAG 1002 K 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 26 _model_server_stats.query_time_ms 306 _model_server_stats.encode_time_ms 17 _model_server_stats.element_count 14 #