data_5HYX # _model_server_result.job_id wj8Xizt3Kgpw-jhvlEPOIw _model_server_result.datetime_utc '2025-03-09 02:07:05' _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 5hyx # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":704}' # _entry.id 5HYX # _exptl.entry_id 5HYX _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 2 _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 120 _cell.entry_id 5HYX _cell.length_a 182.335 _cell.length_b 182.335 _cell.length_c 87.441 _cell.Z_PDB 9 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5HYX _symmetry.cell_setting ? _symmetry.Int_Tables_number 146 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'H 3' # _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,G _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 ? 4 D N N ? 4 E N N # _pdbx_entity_branch.entity_id 3 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 3 _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 3 n C NAG 1 C 1 NAG B 4521 NAG 3 n C NAG 2 C 2 NAG B 4522 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 covale ? covale1 A ND2 ASN 396 B ASN 452 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale2 A ND2 ASN 548 B ASN 604 1_555 D C1 NAG . B NAG 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.463 ? covale ? covale3 A ND2 ASN 595 B ASN 651 1_555 E C1 NAG . B NAG 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? covale ? covale4 B C ASP 1 A ASP 1 1_555 B N PTR 2 A PTR 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale5 B C PTR 2 A PTR 2 1_555 B N SER 3 A SER 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.322 ? covale ? covale6 B C PRO 9 A PRO 9 1_555 B N HZP 10 A HZP 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale7 B C HZP 10 A HZP 10 1_555 B N ARG 11 A ARG 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale8 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.455 ? # _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 ? # 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 5HYX _atom_sites.fract_transf_matrix[1][1] 0.005484 _atom_sites.fract_transf_matrix[1][2] 0.003166 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.006333 _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] 0.011436 _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 1 703 6041 NAG NAG . E 4 NAG B 1 704 6501 NAG NAG . F 5 HOH B 1 801 49 HOH HOH . F 5 HOH B 2 802 63 HOH HOH . F 5 HOH B 3 803 38 HOH HOH . F 5 HOH B 4 804 8 HOH HOH . F 5 HOH B 5 805 61 HOH HOH . F 5 HOH B 6 806 37 HOH HOH . F 5 HOH B 7 807 36 HOH HOH . F 5 HOH B 8 808 13 HOH HOH . F 5 HOH B 9 809 58 HOH HOH . F 5 HOH B 10 810 46 HOH HOH . F 5 HOH B 11 811 66 HOH HOH . F 5 HOH B 12 812 5 HOH HOH . F 5 HOH B 13 813 9 HOH HOH . F 5 HOH B 14 814 2 HOH HOH . F 5 HOH B 15 815 14 HOH HOH . F 5 HOH B 16 816 76 HOH HOH . F 5 HOH B 17 817 25 HOH HOH . F 5 HOH B 18 818 72 HOH HOH . F 5 HOH B 19 819 7 HOH HOH . F 5 HOH B 20 820 44 HOH HOH . F 5 HOH B 21 821 39 HOH HOH . F 5 HOH B 22 822 59 HOH HOH . F 5 HOH B 23 823 18 HOH HOH . F 5 HOH B 24 824 30 HOH HOH . F 5 HOH B 25 825 32 HOH HOH . F 5 HOH B 26 826 35 HOH HOH . F 5 HOH B 27 827 4 HOH HOH . F 5 HOH B 28 828 10 HOH HOH . F 5 HOH B 29 829 21 HOH HOH . F 5 HOH B 30 830 6 HOH HOH . F 5 HOH B 31 831 74 HOH HOH . F 5 HOH B 32 832 62 HOH HOH . F 5 HOH B 33 833 12 HOH HOH . F 5 HOH B 34 834 31 HOH HOH . F 5 HOH B 35 835 11 HOH HOH . F 5 HOH B 36 836 24 HOH HOH . F 5 HOH B 37 837 16 HOH HOH . F 5 HOH B 38 838 60 HOH HOH . F 5 HOH B 39 839 71 HOH HOH . F 5 HOH B 40 840 45 HOH HOH . F 5 HOH B 41 841 64 HOH HOH . F 5 HOH B 42 842 29 HOH HOH . F 5 HOH B 43 843 67 HOH HOH . F 5 HOH B 44 844 68 HOH HOH . F 5 HOH B 45 845 48 HOH HOH . F 5 HOH B 46 846 1 HOH HOH . F 5 HOH B 47 847 26 HOH HOH . F 5 HOH B 48 848 22 HOH HOH . F 5 HOH B 49 849 75 HOH HOH . F 5 HOH B 50 850 73 HOH HOH . F 5 HOH B 51 851 3 HOH HOH . F 5 HOH B 52 852 43 HOH HOH . F 5 HOH B 53 853 47 HOH HOH . F 5 HOH B 54 854 15 HOH HOH . F 5 HOH B 55 855 57 HOH HOH . F 5 HOH B 56 856 69 HOH HOH . F 5 HOH B 57 857 65 HOH HOH . F 5 HOH B 58 858 50 HOH HOH . F 5 HOH B 59 859 23 HOH HOH . F 5 HOH B 60 860 27 HOH HOH . F 5 HOH B 61 861 28 HOH HOH . F 5 HOH B 62 862 42 HOH HOH . F 5 HOH B 63 863 78 HOH HOH . F 5 HOH B 64 864 40 HOH HOH . F 5 HOH B 65 865 56 HOH HOH . F 5 HOH B 66 866 70 HOH HOH . F 5 HOH B 67 867 79 HOH HOH . F 5 HOH B 68 868 17 HOH HOH . F 5 HOH B 69 869 54 HOH HOH . F 5 HOH B 70 870 52 HOH HOH . F 5 HOH B 71 871 34 HOH HOH . F 5 HOH B 72 872 77 HOH HOH . F 5 HOH B 73 873 53 HOH HOH . F 5 HOH B 74 874 33 HOH HOH . F 5 HOH B 75 875 55 HOH HOH . F 5 HOH B 76 876 41 HOH HOH . G 5 HOH A 1 101 51 HOH HOH . G 5 HOH A 2 102 19 HOH HOH . G 5 HOH A 3 103 20 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 . . . E 4 39.045 129.886 -74.353 1 25.6 ? C1 NAG 704 B 1 HETATM 2 C C2 NAG . . . E 4 37.636 129.847 -73.733 1 31.52 ? C2 NAG 704 B 1 HETATM 3 C C3 NAG . . . E 4 37.41 128.639 -72.795 1 36.49 ? C3 NAG 704 B 1 HETATM 4 C C4 NAG . . . E 4 37.858 127.325 -73.43 1 34.98 ? C4 NAG 704 B 1 HETATM 5 C C5 NAG . . . E 4 39.264 127.502 -74.018 1 36.5 ? C5 NAG 704 B 1 HETATM 6 C C6 NAG . . . E 4 39.671 126.277 -74.821 1 37.8 ? C6 NAG 704 B 1 HETATM 7 C C7 NAG . . . E 4 36.249 131.826 -73.236 1 24.16 ? C7 NAG 704 B 1 HETATM 8 C C8 NAG . . . E 4 36.182 133.161 -72.551 1 13.26 ? C8 NAG 704 B 1 HETATM 9 N N2 NAG . . . E 4 37.36 131.108 -73.045 1 29.9 ? N2 NAG 704 B 1 HETATM 10 O O3 NAG . . . E 4 36.043 128.509 -72.477 1 37.25 ? O3 NAG 704 B 1 HETATM 11 O O4 NAG . . . E 4 37.749 126.225 -72.519 1 23.32 ? O4 NAG 704 B 1 HETATM 12 O O5 NAG . . . E 4 39.335 128.615 -74.907 1 29.58 ? O5 NAG 704 B 1 HETATM 13 O O6 NAG . . . E 4 38.995 126.316 -76.061 1 41.24 ? O6 NAG 704 B 1 HETATM 14 O O7 NAG . . . E 4 35.303 131.438 -73.921 1 22.55 ? O7 NAG 704 B 1 # _model_server_stats.io_time_ms 0 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 275 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 14 #