data_8DG9 # _model_server_result.job_id jExgJQvghIz1IvZH1QliCg _model_server_result.datetime_utc '2024-10-19 11:47:38' _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 8dg9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":5001}' # _entry.id 8DG9 # _exptl.entry_id 8DG9 _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 6 _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 8DG9 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8DG9 _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 nonameric _pdbx_struct_assembly.oligomeric_count 9 _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 ? _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 # 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 37 A CYS 37 1_555 A SG CYS 439 A CYS 439 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf2 A SG CYS 313 A CYS 313 1_555 A SG CYS 343 A CYS 343 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf3 A SG CYS 322 A CYS 322 1_555 A SG CYS 333 A CYS 333 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf4 A SG CYS 358 A CYS 358 1_555 A SG CYS 367 A CYS 367 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf5 A SG CYS 382 A CYS 382 1_555 A SG CYS 393 A CYS 393 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf6 A SG CYS 416 A CYS 416 1_555 A SG CYS 422 A CYS 422 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf7 B SG CYS 22 H CYS 22 1_555 B SG CYS 96 H CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf8 C SG CYS 22 L CYS 23 1_555 C SG CYS 90 L CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf9 D SG CYS 37 B CYS 37 1_555 D SG CYS 439 B CYS 439 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf10 D SG CYS 313 B CYS 313 1_555 D SG CYS 343 B CYS 343 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf11 D SG CYS 322 B CYS 322 1_555 D SG CYS 333 B CYS 333 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf12 D SG CYS 358 B CYS 358 1_555 D SG CYS 367 B CYS 367 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf13 D SG CYS 382 B CYS 382 1_555 D SG CYS 393 B CYS 393 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf14 D SG CYS 416 B CYS 416 1_555 D SG CYS 422 B CYS 422 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf15 E SG CYS 22 F CYS 22 1_555 E SG CYS 96 F CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf16 F SG CYS 22 G CYS 23 1_555 F SG CYS 90 G CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf17 G SG CYS 37 C CYS 37 1_555 G SG CYS 439 C CYS 439 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf18 G SG CYS 313 C CYS 313 1_555 G SG CYS 343 C CYS 343 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.066 ? disulf ? disulf19 G SG CYS 322 C CYS 322 1_555 G SG CYS 333 C CYS 333 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf20 G SG CYS 358 C CYS 358 1_555 G SG CYS 367 C CYS 367 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf21 G SG CYS 382 C CYS 382 1_555 G SG CYS 393 C CYS 393 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf22 G SG CYS 416 C CYS 416 1_555 G SG CYS 422 C CYS 422 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf23 H SG CYS 22 D CYS 22 1_555 H SG CYS 96 D CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf24 I SG CYS 22 E CYS 23 1_555 I SG CYS 90 E CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? covale ? covale1 A ND2 ASN 27 A ASN 27 1_555 K C1 NAG . A NAG 5002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale2 A ND2 ASN 500 A ASN 500 1_555 J C1 NAG . A NAG 5001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.465 ? covale ? covale3 D ND2 ASN 27 B ASN 27 1_555 M C1 NAG . B NAG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale4 D ND2 ASN 500 B ASN 500 1_555 L C1 NAG . B NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.462 ? covale ? covale5 G ND2 ASN 27 C ASN 27 1_555 O C1 NAG . C NAG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale6 G ND2 ASN 500 C ASN 500 1_555 N C1 NAG . C NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? # _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_ _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 8DG9 _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 5001 5001 NAG NAG . K 4 NAG A 1 5002 9271 NAG NAG . L 4 NAG B 1 601 5000 NAG NAG . M 4 NAG B 1 602 9271 NAG NAG . N 4 NAG C 1 601 5000 NAG NAG . O 4 NAG C 1 602 9271 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 . . . J 4 188.325 209.831 163.518 1 55.47 ? C1 NAG 5001 A 1 HETATM 2 C C2 NAG . . . J 4 187.024 210.067 162.728 1 55.47 ? C2 NAG 5001 A 1 HETATM 3 C C3 NAG . . . J 4 186.415 211.421 163.111 1 55.47 ? C3 NAG 5001 A 1 HETATM 4 C C4 NAG . . . J 4 186.25 211.525 164.621 1 55.47 ? C4 NAG 5001 A 1 HETATM 5 C C5 NAG . . . J 4 187.612 211.285 165.263 1 55.47 ? C5 NAG 5001 A 1 HETATM 6 C C6 NAG . . . J 4 187.63 211.384 166.768 1 55.47 ? C6 NAG 5001 A 1 HETATM 7 C C7 NAG . . . J 4 186.34 209.602 160.42 1 55.47 ? C7 NAG 5001 A 1 HETATM 8 C C8 NAG . . . J 4 186.745 209.626 158.981 1 55.47 ? C8 NAG 5001 A 1 HETATM 9 N N2 NAG . . . J 4 187.262 210.014 161.296 1 55.47 ? N2 NAG 5001 A 1 HETATM 10 O O3 NAG . . . J 4 185.172 211.625 162.449 1 55.47 ? O3 NAG 5001 A 1 HETATM 11 O O4 NAG . . . J 4 185.771 212.819 164.971 1 55.47 ? O4 NAG 5001 A 1 HETATM 12 O O5 NAG . . . J 4 188.068 209.967 164.928 1 55.47 ? O5 NAG 5001 A 1 HETATM 13 O O6 NAG . . . J 4 188.89 210.944 167.257 1 55.47 ? O6 NAG 5001 A 1 HETATM 14 O O7 NAG . . . J 4 185.233 209.222 160.773 1 55.47 ? O7 NAG 5001 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 31 _model_server_stats.query_time_ms 323 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 14 #