data_7F56 # _model_server_result.job_id XDV55hYD82geEIYrI9hKFw _model_server_result.datetime_utc '2025-08-31 00:55:22' _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 7f56 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"X","auth_seq_id":1003}' # _entry.id 7F56 # _exptl.entry_id 7F56 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 221.208 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 16 _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 7F56 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7F56 _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 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,P,Q,R,S,T,U,V,W,X,Y _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 ? 4 J N N ? 4 K N N ? 4 L N N ? 4 M N N ? 4 N N N ? 4 O N N ? 4 P N N ? 4 Q N N ? 4 R N N ? 4 S N N ? 4 T N N ? 4 U N N ? 4 V N N ? 4 W N N ? 4 X N N ? 4 Y N 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 . O4 HO4 . 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 F NAG 1 H 1 NAG H 1 NAG 3 n F NAG 2 H 2 NAG H 2 NAG 3 n F BMA 3 H 3 BMA H 3 BMA 3 n G NAG 1 F 1 NAG F 1 NAG 3 n G NAG 2 F 2 NAG F 2 NAG 3 n G BMA 3 F 3 BMA F 3 BMA 3 n H NAG 1 G 1 NAG G 1 NAG 3 n H NAG 2 G 2 NAG G 2 NAG 3 n H BMA 3 G 3 BMA G 3 BMA 3 n I NAG 1 I 1 NAG I 1 NAG 3 n I NAG 2 I 2 NAG I 2 NAG 3 n I BMA 3 I 3 BMA I 3 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 96 A CYS 96 1_555 A SG CYS 347 A CYS 347 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.4 ? disulf ? disulf2 B SG CYS 96 B CYS 96 1_555 B SG CYS 347 B CYS 347 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.213 ? disulf ? disulf3 C SG CYS 96 C CYS 96 1_555 C SG CYS 347 C CYS 347 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.393 ? disulf ? disulf4 D SG CYS 96 D CYS 96 1_555 D SG CYS 347 D CYS 347 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.307 ? disulf ? disulf5 E SG CYS 45 E CYS 45 1_555 E SG CYS 72 E CYS 72 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? covale ? covale1 A ND2 ASN 275 A ASN 275 1_555 G C1 NAG . F NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale2 A ND2 ASN 378 A ASN 378 1_555 H C1 NAG . G NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale3 A ND2 ASN 430 A ASN 430 1_555 J C1 NAG . A NAG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale4 A ND2 ASN 546 A ASN 546 1_555 K C1 NAG . A NAG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.473 ? covale ? covale5 B ND2 ASN 275 B ASN 275 1_555 O C1 NAG . B NAG 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale6 B ND2 ASN 378 B ASN 378 1_555 F C1 NAG . H NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.457 ? covale ? covale7 B ND2 ASN 412 B ASN 412 1_555 P C1 NAG . B NAG 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale8 B ND2 ASN 546 B ASN 546 1_555 N C1 NAG . B NAG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.431 ? covale ? covale9 B ND2 ASN 751 B ASN 751 1_555 M C1 NAG . B NAG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale10 C ND2 ASN 275 C ASN 275 1_555 S C1 NAG . C NAG 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale11 C ND2 ASN 378 C ASN 378 1_555 T C1 NAG . C NAG 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale12 C ND2 ASN 412 C ASN 412 1_555 U C1 NAG . C NAG 1005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale13 C ND2 ASN 546 C ASN 546 1_555 R C1 NAG . C NAG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.482 ? covale ? covale14 C ND2 ASN 751 C ASN 751 1_555 Q C1 NAG . C NAG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale15 D ND2 ASN 378 D ASN 378 1_555 I C1 NAG . I NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? covale ? covale16 D ND2 ASN 412 D ASN 412 1_555 Y C1 NAG . D NAG 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale17 D ND2 ASN 546 D ASN 546 1_555 W C1 NAG . D NAG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale18 D ND2 ASN 751 D ASN 751 1_555 V C1 NAG . D NAG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.431 ? covale ? covale19 F O4 NAG . H NAG 1 1_555 F C1 NAG . H NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale20 F O4 NAG . H NAG 2 1_555 F C1 BMA . H BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale21 G O4 NAG . F NAG 1 1_555 G C1 NAG . F NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale22 G O4 NAG . F NAG 2 1_555 G C1 BMA . F BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale23 H O4 NAG . G NAG 1 1_555 H C1 NAG . G NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale24 H O4 NAG . G NAG 2 1_555 H C1 BMA . G BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale25 I O4 NAG . I NAG 1 1_555 I C1 NAG . I NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale26 I O4 NAG . I NAG 2 1_555 I C1 BMA . I BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? # _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 259 n n C1 O1 NAG sing 260 n n C1 O5 NAG sing 261 n n C1 H1 NAG sing 262 n n C2 C3 NAG sing 263 n n C2 N2 NAG sing 264 n n C2 H2 NAG sing 265 n n C3 C4 NAG sing 266 n n C3 O3 NAG sing 267 n n C3 H3 NAG sing 268 n n C4 C5 NAG sing 269 n n C4 O4 NAG sing 270 n n C4 H4 NAG sing 271 n n C5 C6 NAG sing 272 n n C5 O5 NAG sing 273 n n C5 H5 NAG sing 274 n n C6 O6 NAG sing 275 n n C6 H61 NAG sing 276 n n C6 H62 NAG sing 277 n n C7 C8 NAG sing 278 n n C7 N2 NAG sing 279 n n C7 O7 NAG doub 280 n n C8 H81 NAG sing 281 n n C8 H82 NAG sing 282 n n C8 H83 NAG sing 283 n n N2 HN2 NAG sing 284 n n O1 HO1 NAG sing 285 n n O3 HO3 NAG sing 286 n n O4 HO4 NAG sing 287 n n O6 HO6 NAG sing 288 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 7F56 _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 J 4 NAG A 1 1001 1001 NAG NAG . K 4 NAG A 1 1002 1002 NAG NAG . L 4 NAG A 1 1003 1003 NAG NAG . M 4 NAG B 1 1001 1001 NAG NAG . N 4 NAG B 1 1002 1002 NAG NAG . O 4 NAG B 1 1003 1003 NAG NAG . P 4 NAG B 1 1004 1004 NAG NAG . Q 4 NAG C 1 1001 1001 NAG NAG . R 4 NAG C 1 1002 1002 NAG NAG . S 4 NAG C 1 1003 1003 NAG NAG . T 4 NAG C 1 1004 1004 NAG NAG . U 4 NAG C 1 1005 1005 NAG NAG . V 4 NAG D 1 1001 1001 NAG NAG . W 4 NAG D 1 1002 1002 NAG NAG . X 4 NAG D 1 1003 1003 NAG NAG . Y 4 NAG D 1 1004 1004 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 . . . X 4 164.069 172.616 223.101 1 30 0 C1 NAG 1003 D 1 HETATM 2 C C2 NAG . . . X 4 164.555 173.996 223.527 1 30 0 C2 NAG 1003 D 1 HETATM 3 C C3 NAG . . . X 4 165.23 174.707 222.363 1 30 0 C3 NAG 1003 D 1 HETATM 4 C C4 NAG . . . X 4 164.38 174.636 221.092 1 30 0 C4 NAG 1003 D 1 HETATM 5 C C5 NAG . . . X 4 163.89 173.22 220.76 1 30 0 C5 NAG 1003 D 1 HETATM 6 C C6 NAG . . . X 4 164.964 172.308 220.166 1 30 0 C6 NAG 1003 D 1 HETATM 7 C C7 NAG . . . X 4 162.999 174.742 225.254 1 30 0 C7 NAG 1003 D 1 HETATM 8 C C8 NAG . . . X 4 161.557 175.1 225.449 1 30 0 C8 NAG 1003 D 1 HETATM 9 N N2 NAG . . . X 4 163.438 174.794 223.999 1 30 0 N2 NAG 1003 D 1 HETATM 10 O O3 NAG . . . X 4 166.536 174.156 222.152 1 30 0 O3 NAG 1003 D 1 HETATM 11 O O4 NAG . . . X 4 163.253 175.516 221.21 1 30 0 O4 NAG 1003 D 1 HETATM 12 O O5 NAG . . . X 4 163.296 172.595 221.902 1 30 0 O5 NAG 1003 D 1 HETATM 13 O O6 NAG . . . X 4 164.36 171.08 219.746 1 30 0 O6 NAG 1003 D 1 HETATM 14 O O7 NAG . . . X 4 163.719 174.421 226.184 1 30 0 O7 NAG 1003 D 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 51 _model_server_stats.query_time_ms 505 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #