data_5JFI # _model_server_result.job_id k_vMF_TbucgmS_XaaBP5_A _model_server_result.datetime_utc '2024-11-22 08:08:51' _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 5jfi # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"M","auth_seq_id":704}' # _entry.id 5JFI # _exptl.entry_id 5JFI _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 3 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 10 _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 5JFI _cell.length_a 92.445 _cell.length_b 92.445 _cell.length_c 252.615 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5JFI _symmetry.cell_setting ? _symmetry.Int_Tables_number 76 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 41' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,E,F,G,H,I,O,P 1 1 C,D,J,K,L,M,N,Q,R 2 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 ? 3 E N N ? 3 F N N ? 3 G N N ? 3 H N N ? 3 I N N ? 3 J N N ? 3 K N N ? 3 L N N ? 3 M N N ? 3 N 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 361 A CYS 390 1_555 A SG CYS 387 A CYS 416 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf2 A SG CYS 482 A CYS 511 1_555 A SG CYS 506 A CYS 535 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf3 C SG CYS 361 B CYS 390 1_555 C SG CYS 387 B CYS 416 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf4 C SG CYS 482 B CYS 511 1_555 C SG CYS 506 B CYS 535 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? covale ? covale1 A ND2 ASN 82 A ASN 111 1_555 E C1 NAG . A NAG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.483 ? covale ? covale2 A ND2 ASN 327 A ASN 356 1_555 F C1 NAG . A NAG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale3 A ND2 ASN 349 A ASN 378 1_555 I C1 NAG . A NAG 705 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale4 A ND2 ASN 442 A ASN 471 1_555 G C1 NAG . A NAG 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale5 A ND2 ASN 496 A ASN 525 1_555 H C1 NAG . A NAG 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.474 ? covale ? covale6 B C VAL 3 C VAL 653 1_555 B N HYP 4 C HYP 654 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale7 B C HYP 4 C HYP 654 1_555 B N SER 5 C SER 655 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale8 B C GLY 6 C GLY 656 1_555 B N HYP 7 C HYP 657 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.321 ? covale ? covale9 B C HYP 7 C HYP 657 1_555 B N ASN 8 C ASN 658 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.32 ? covale ? covale10 C ND2 ASN 82 B ASN 111 1_555 J C1 NAG . B NAG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.472 ? covale ? covale11 C ND2 ASN 327 B ASN 356 1_555 K C1 NAG . B NAG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.475 ? covale ? covale12 C ND2 ASN 349 B ASN 378 1_555 N C1 NAG . B NAG 705 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale13 C ND2 ASN 442 B ASN 471 1_555 L C1 NAG . B NAG 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale14 C ND2 ASN 496 B ASN 525 1_555 M C1 NAG . B NAG 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.476 ? covale ? covale15 D C VAL 3 D VAL 653 1_555 D N HYP 4 D HYP 654 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale16 D C HYP 4 D HYP 654 1_555 D N SER 5 D SER 655 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale17 D C GLY 6 D GLY 656 1_555 D N HYP 7 D HYP 657 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale18 D C HYP 7 D HYP 657 1_555 D N ASN 8 D ASN 658 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? # _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 5JFI _atom_sites.fract_transf_matrix[1][1] 0.010817 _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] 0.010817 _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] 0.003959 _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 E 3 NAG A 1 701 701 NAG NAG . F 3 NAG A 1 702 801 NAG NAG . G 3 NAG A 1 703 901 NAG NAG . H 3 NAG A 1 704 1001 NAG NAG . I 3 NAG A 1 705 1301 NAG NAG . J 3 NAG B 1 701 701 NAG NAG . K 3 NAG B 1 702 801 NAG NAG . L 3 NAG B 1 703 901 NAG NAG . M 3 NAG B 1 704 1001 NAG NAG . N 3 NAG B 1 705 1301 NAG NAG . O 4 HOH A 1 801 36 HOH HOH . O 4 HOH A 2 802 85 HOH HOH . O 4 HOH A 3 803 60 HOH HOH . O 4 HOH A 4 804 131 HOH HOH . O 4 HOH A 5 805 138 HOH HOH . O 4 HOH A 6 806 113 HOH HOH . O 4 HOH A 7 807 4 HOH HOH . O 4 HOH A 8 808 71 HOH HOH . O 4 HOH A 9 809 65 HOH HOH . O 4 HOH A 10 810 58 HOH HOH . O 4 HOH A 11 811 20 HOH HOH . O 4 HOH A 12 812 28 HOH HOH . O 4 HOH A 13 813 133 HOH HOH . O 4 HOH A 14 814 82 HOH HOH . O 4 HOH A 15 815 42 HOH HOH . O 4 HOH A 16 816 123 HOH HOH . O 4 HOH A 17 817 45 HOH HOH . O 4 HOH A 18 818 119 HOH HOH . O 4 HOH A 19 819 66 HOH HOH . O 4 HOH A 20 820 17 HOH HOH . O 4 HOH A 21 821 70 HOH HOH . O 4 HOH A 22 822 125 HOH HOH . O 4 HOH A 23 823 104 HOH HOH . O 4 HOH A 24 824 49 HOH HOH . O 4 HOH A 25 825 16 HOH HOH . O 4 HOH A 26 826 140 HOH HOH . O 4 HOH A 27 827 106 HOH HOH . O 4 HOH A 28 828 44 HOH HOH . O 4 HOH A 29 829 62 HOH HOH . O 4 HOH A 30 830 47 HOH HOH . O 4 HOH A 31 831 115 HOH HOH . O 4 HOH A 32 832 41 HOH HOH . O 4 HOH A 33 833 6 HOH HOH . O 4 HOH A 34 834 25 HOH HOH . O 4 HOH A 35 835 127 HOH HOH . O 4 HOH A 36 836 3 HOH HOH . O 4 HOH A 37 837 14 HOH HOH . O 4 HOH A 38 838 67 HOH HOH . O 4 HOH A 39 839 69 HOH HOH . O 4 HOH A 40 840 11 HOH HOH . O 4 HOH A 41 841 37 HOH HOH . O 4 HOH A 42 842 79 HOH HOH . O 4 HOH A 43 843 13 HOH HOH . O 4 HOH A 44 844 19 HOH HOH . O 4 HOH A 45 845 12 HOH HOH . O 4 HOH A 46 846 99 HOH HOH . O 4 HOH A 47 847 128 HOH HOH . O 4 HOH A 48 848 68 HOH HOH . O 4 HOH A 49 849 78 HOH HOH . O 4 HOH A 50 850 51 HOH HOH . O 4 HOH A 51 851 73 HOH HOH . O 4 HOH A 52 852 54 HOH HOH . O 4 HOH A 53 853 149 HOH HOH . O 4 HOH A 54 854 136 HOH HOH . O 4 HOH A 55 855 152 HOH HOH . O 4 HOH A 56 856 34 HOH HOH . O 4 HOH A 57 857 122 HOH HOH . O 4 HOH A 58 858 86 HOH HOH . O 4 HOH A 59 859 88 HOH HOH . O 4 HOH A 60 860 144 HOH HOH . O 4 HOH A 61 861 23 HOH HOH . O 4 HOH A 62 862 80 HOH HOH . O 4 HOH A 63 863 76 HOH HOH . O 4 HOH A 64 864 35 HOH HOH . O 4 HOH A 65 865 120 HOH HOH . O 4 HOH A 66 866 135 HOH HOH . O 4 HOH A 67 867 33 HOH HOH . O 4 HOH A 68 868 39 HOH HOH . O 4 HOH A 69 869 84 HOH HOH . O 4 HOH A 70 870 114 HOH HOH . O 4 HOH A 71 871 87 HOH HOH . O 4 HOH A 72 872 151 HOH HOH . O 4 HOH A 73 873 124 HOH HOH . O 4 HOH A 74 874 95 HOH HOH . O 4 HOH A 75 875 156 HOH HOH . O 4 HOH A 76 876 50 HOH HOH . O 4 HOH A 77 877 53 HOH HOH . P 4 HOH C 1 701 5 HOH HOH . P 4 HOH C 2 702 48 HOH HOH . Q 4 HOH B 1 801 126 HOH HOH . Q 4 HOH B 2 802 110 HOH HOH . Q 4 HOH B 3 803 89 HOH HOH . Q 4 HOH B 4 804 107 HOH HOH . Q 4 HOH B 5 805 29 HOH HOH . Q 4 HOH B 6 806 83 HOH HOH . Q 4 HOH B 7 807 130 HOH HOH . Q 4 HOH B 8 808 103 HOH HOH . Q 4 HOH B 9 809 132 HOH HOH . Q 4 HOH B 10 810 38 HOH HOH . Q 4 HOH B 11 811 98 HOH HOH . Q 4 HOH B 12 812 117 HOH HOH . Q 4 HOH B 13 813 75 HOH HOH . Q 4 HOH B 14 814 97 HOH HOH . Q 4 HOH B 15 815 81 HOH HOH . Q 4 HOH B 16 816 100 HOH HOH . Q 4 HOH B 17 817 46 HOH HOH . Q 4 HOH B 18 818 24 HOH HOH . Q 4 HOH B 19 819 129 HOH HOH . Q 4 HOH B 20 820 142 HOH HOH . Q 4 HOH B 21 821 61 HOH HOH . Q 4 HOH B 22 822 146 HOH HOH . Q 4 HOH B 23 823 27 HOH HOH . Q 4 HOH B 24 824 118 HOH HOH . Q 4 HOH B 25 825 148 HOH HOH . Q 4 HOH B 26 826 9 HOH HOH . Q 4 HOH B 27 827 74 HOH HOH . Q 4 HOH B 28 828 18 HOH HOH . Q 4 HOH B 29 829 72 HOH HOH . Q 4 HOH B 30 830 21 HOH HOH . Q 4 HOH B 31 831 10 HOH HOH . Q 4 HOH B 32 832 102 HOH HOH . Q 4 HOH B 33 833 7 HOH HOH . Q 4 HOH B 34 834 1 HOH HOH . Q 4 HOH B 35 835 143 HOH HOH . Q 4 HOH B 36 836 40 HOH HOH . Q 4 HOH B 37 837 134 HOH HOH . Q 4 HOH B 38 838 121 HOH HOH . Q 4 HOH B 39 839 147 HOH HOH . Q 4 HOH B 40 840 2 HOH HOH . Q 4 HOH B 41 841 64 HOH HOH . Q 4 HOH B 42 842 90 HOH HOH . Q 4 HOH B 43 843 8 HOH HOH . Q 4 HOH B 44 844 43 HOH HOH . Q 4 HOH B 45 845 55 HOH HOH . Q 4 HOH B 46 846 150 HOH HOH . Q 4 HOH B 47 847 52 HOH HOH . Q 4 HOH B 48 848 108 HOH HOH . Q 4 HOH B 49 849 153 HOH HOH . Q 4 HOH B 50 850 137 HOH HOH . Q 4 HOH B 51 851 91 HOH HOH . Q 4 HOH B 52 852 94 HOH HOH . Q 4 HOH B 53 853 59 HOH HOH . Q 4 HOH B 54 854 77 HOH HOH . Q 4 HOH B 55 855 109 HOH HOH . Q 4 HOH B 56 856 154 HOH HOH . Q 4 HOH B 57 857 32 HOH HOH . Q 4 HOH B 58 858 111 HOH HOH . Q 4 HOH B 59 859 141 HOH HOH . Q 4 HOH B 60 860 15 HOH HOH . Q 4 HOH B 61 861 26 HOH HOH . Q 4 HOH B 62 862 155 HOH HOH . Q 4 HOH B 63 863 93 HOH HOH . Q 4 HOH B 64 864 96 HOH HOH . Q 4 HOH B 65 865 101 HOH HOH . Q 4 HOH B 66 866 92 HOH HOH . Q 4 HOH B 67 867 105 HOH HOH . Q 4 HOH B 68 868 63 HOH HOH . Q 4 HOH B 69 869 31 HOH HOH . Q 4 HOH B 70 870 139 HOH HOH . Q 4 HOH B 71 871 22 HOH HOH . Q 4 HOH B 72 872 30 HOH HOH . Q 4 HOH B 73 873 56 HOH HOH . Q 4 HOH B 74 874 57 HOH HOH . Q 4 HOH B 75 875 116 HOH HOH . Q 4 HOH B 76 876 145 HOH HOH . R 4 HOH D 1 701 112 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 . . . M 3 37.734 6.815 -45.092 1 81.06 ? C1 NAG 704 B 1 HETATM 2 C C2 NAG . . . M 3 36.303 6.373 -44.68 1 91.19 ? C2 NAG 704 B 1 HETATM 3 C C3 NAG . . . M 3 35.343 7.554 -44.8 1 92.03 ? C3 NAG 704 B 1 HETATM 4 C C4 NAG . . . M 3 35.753 8.654 -43.833 1 89.22 ? C4 NAG 704 B 1 HETATM 5 C C5 NAG . . . M 3 37.168 9.133 -44.148 1 89.89 ? C5 NAG 704 B 1 HETATM 6 C C6 NAG . . . M 3 38.094 9.195 -42.953 1 80.2 ? C6 NAG 704 B 1 HETATM 7 C C7 NAG . . . M 3 35.003 4.311 -45.16 1 84.25 ? C7 NAG 704 B 1 HETATM 8 C C8 NAG . . . M 3 34.536 4.349 -43.735 1 75.49 ? C8 NAG 704 B 1 HETATM 9 N N2 NAG . . . M 3 35.848 5.284 -45.535 1 95.05 ? N2 NAG 704 B 1 HETATM 10 O O3 NAG . . . M 3 33.997 7.141 -44.58 1 90.26 ? O3 NAG 704 B 1 HETATM 11 O O4 NAG . . . M 3 34.87 9.764 -43.969 1 79.27 ? O4 NAG 704 B 1 HETATM 12 O O5 NAG . . . M 3 37.82 8.316 -45.137 1 89.66 ? O5 NAG 704 B 1 HETATM 13 O O6 NAG . . . M 3 39.309 9.85 -43.307 1 66.44 ? O6 NAG 704 B 1 HETATM 14 O O7 NAG . . . M 3 34.652 3.423 -45.936 1 79.18 ? O7 NAG 704 B 1 # _model_server_stats.io_time_ms 61 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 240 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 14 #