data_9DM0 # _model_server_result.job_id 42Eqxq9c_LlqDxBrQ42CHA _model_server_result.datetime_utc '2025-03-05 20:20:09' _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 9dm0 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"U","auth_seq_id":201}' # _entry.id 9DM0 # _exptl.entry_id 9DM0 _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 15 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details octameric _pdbx_struct_assembly.oligomeric_count 8 _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,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z _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 ? 6 L N N ? 6 M N N ? 6 N N N ? 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 ? 6 V N N ? 6 W N N ? 6 X N N ? 6 Y N N ? 6 Z 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 I NAG 1 S 1 NAG S 1 NAG 5 n I NAG 2 S 2 NAG S 2 NAG 5 n J NAG 1 T 1 NAG T 1 NAG 5 n J NAG 2 T 2 NAG T 2 NAG 5 n K NAG 1 U 1 NAG U 1 NAG 5 n K NAG 2 U 2 NAG U 2 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 A SG CYS 23 D CYS 23 1_555 A SG CYS 88 D CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf2 B SG CYS 22 C CYS 22 1_555 B SG CYS 96 C CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf3 C SG CYS 5 A CYS 14 1_555 D SG CYS 141 B CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf4 C SG CYS 43 A CYS 52 1_555 C SG CYS 276 A CYS 277 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf5 C SG CYS 56 A CYS 64 1_555 C SG CYS 68 A CYS 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? disulf ? disulf6 C SG CYS 91 A CYS 97 1_555 C SG CYS 137 A CYS 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf7 C SG CYS 280 A CYS 281 1_555 C SG CYS 304 A CYS 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf8 D SG CYS 148 B CYS 144 1_555 D SG CYS 152 B CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf9 E SG CYS 5 E CYS 14 1_555 F SG CYS 141 G CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf10 E SG CYS 43 E CYS 52 1_555 E SG CYS 276 E CYS 277 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf11 E SG CYS 56 E CYS 64 1_555 E SG CYS 68 E CYS 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf12 E SG CYS 91 E CYS 97 1_555 E SG CYS 137 E CYS 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf13 E SG CYS 280 E CYS 281 1_555 E SG CYS 304 E CYS 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf14 F SG CYS 148 G CYS 144 1_555 F SG CYS 152 G CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf15 G SG CYS 5 F CYS 14 1_555 H SG CYS 141 I CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? disulf ? disulf16 G SG CYS 43 F CYS 52 1_555 G SG CYS 276 F CYS 277 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf17 G SG CYS 56 F CYS 64 1_555 G SG CYS 68 F CYS 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf18 G SG CYS 91 F CYS 97 1_555 G SG CYS 137 F CYS 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf19 G SG CYS 280 F CYS 281 1_555 G SG CYS 304 F CYS 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf20 H SG CYS 148 I CYS 144 1_555 H SG CYS 152 I CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? covale ? covale1 C ND2 ASN 12 A ASN 21 1_555 L C1 NAG . A NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale2 C ND2 ASN 24 A ASN 33 1_555 M C1 NAG . A NAG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale3 C ND2 ASN 88 A ASN 94 1_555 I C1 NAG . S NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? covale ? covale4 C ND2 ASN 277 A ASN 278 1_555 N C1 NAG . A NAG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale5 C ND2 ASN 288 A ASN 289 1_555 O C1 NAG . A NAG 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale6 D ND2 ASN 158 B ASN 154 1_555 P C1 NAG . B NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.468 ? covale ? covale7 E ND2 ASN 12 E ASN 21 1_555 Q C1 NAG . E NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale8 E ND2 ASN 24 E ASN 33 1_555 R C1 NAG . E NAG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale9 E ND2 ASN 88 E ASN 94 1_555 J C1 NAG . T NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? covale ? covale10 E ND2 ASN 277 E ASN 278 1_555 S C1 NAG . E NAG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale11 E ND2 ASN 288 E ASN 289 1_555 T C1 NAG . E NAG 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale12 F ND2 ASN 158 G ASN 154 1_555 U C1 NAG . G NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.464 ? covale ? covale13 G ND2 ASN 12 F ASN 21 1_555 V C1 NAG . F NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale14 G ND2 ASN 24 F ASN 33 1_555 W C1 NAG . F NAG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale15 G ND2 ASN 88 F ASN 94 1_555 K C1 NAG . U NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale16 G ND2 ASN 277 F ASN 278 1_555 X C1 NAG . F NAG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale17 G ND2 ASN 288 F ASN 289 1_555 Y C1 NAG . F NAG 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale18 H ND2 ASN 158 I ASN 154 1_555 Z C1 NAG . I NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale19 I O4 NAG . S NAG 1 1_555 I C1 NAG . S NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale20 J O4 NAG . T NAG 1 1_555 J C1 NAG . T NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale21 K O4 NAG . U NAG 1 1_555 K C1 NAG . U NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? # _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 9DM0 _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 L 6 NAG A 1 401 401 NAG NAG . M 6 NAG A 1 402 402 NAG NAG . N 6 NAG A 1 403 403 NAG NAG . O 6 NAG A 1 404 404 NAG NAG . P 6 NAG B 1 201 201 NAG NAG . Q 6 NAG E 1 401 401 NAG NAG . R 6 NAG E 1 402 402 NAG NAG . S 6 NAG E 1 403 403 NAG NAG . T 6 NAG E 1 404 404 NAG NAG . U 6 NAG G 1 201 201 NAG NAG . V 6 NAG F 1 401 401 NAG NAG . W 6 NAG F 1 402 402 NAG NAG . X 6 NAG F 1 403 403 NAG NAG . Y 6 NAG F 1 404 404 NAG NAG . Z 6 NAG I 1 201 201 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 6 173.579 179.557 150.322 1 31.55 ? C1 NAG 201 G 1 HETATM 2 C C2 NAG . . . U 6 174.072 179.389 148.857 1 31.55 ? C2 NAG 201 G 1 HETATM 3 C C3 NAG . . . U 6 173.43 178.144 148.21 1 31.55 ? C3 NAG 201 G 1 HETATM 4 C C4 NAG . . . U 6 173.566 176.907 149.088 1 31.55 ? C4 NAG 201 G 1 HETATM 5 C C5 NAG . . . U 6 172.986 177.188 150.462 1 31.55 ? C5 NAG 201 G 1 HETATM 6 C C6 NAG . . . U 6 173.133 176.027 151.417 1 31.55 ? C6 NAG 201 G 1 HETATM 7 C C7 NAG . . . U 6 174.361 180.905 146.934 1 31.55 ? C7 NAG 201 G 1 HETATM 8 C C8 NAG . . . U 6 173.853 182.138 146.25 1 31.55 ? C8 NAG 201 G 1 HETATM 9 N N2 NAG . . . U 6 173.745 180.572 148.075 1 31.55 ? N2 NAG 201 G 1 HETATM 10 O O3 NAG . . . U 6 174.024 177.876 146.945 1 31.55 ? O3 NAG 201 G 1 HETATM 11 O O4 NAG . . . U 6 172.861 175.818 148.502 1 31.55 ? O4 NAG 201 G 1 HETATM 12 O O5 NAG . . . U 6 173.702 178.285 151.038 1 31.55 ? O5 NAG 201 G 1 HETATM 13 O O6 NAG . . . U 6 173.631 176.452 152.678 1 31.55 ? O6 NAG 201 G 1 HETATM 14 O O7 NAG . . . U 6 175.283 180.24 146.471 1 31.55 ? O7 NAG 201 G 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 265 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #