data_3VXJ # _model_server_result.job_id dVW_NlgSfxxYddNWhN8DJA _model_server_result.datetime_utc '2024-11-22 18:45:29' _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 3vxj # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":502}' # _entry.id 3VXJ # _exptl.entry_id 3VXJ _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 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 106.71 _cell.angle_gamma 90 _cell.entry_id 3VXJ _cell.length_a 45.167 _cell.length_b 96.344 _cell.length_c 49.778 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3VXJ _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id ND2 _struct_conn.ptnr1_label_comp_id ASN _struct_conn.ptnr1_label_seq_id 246 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id ASN _struct_conn.ptnr1_auth_seq_id 246 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id C _struct_conn.ptnr2_label_atom_id C1 _struct_conn.ptnr2_label_comp_id NAG _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id NAG _struct_conn.ptnr2_auth_seq_id 502 _struct_conn.ptnr2_symmetry 1_555 _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 1.435 _struct_conn.pdbx_value_order ? # _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 349 n n C1 O1 NAG sing 350 n n C1 O5 NAG sing 351 n n C1 H1 NAG sing 352 n n C2 C3 NAG sing 353 n n C2 N2 NAG sing 354 n n C2 H2 NAG sing 355 n n C3 C4 NAG sing 356 n n C3 O3 NAG sing 357 n n C3 H3 NAG sing 358 n n C4 C5 NAG sing 359 n n C4 O4 NAG sing 360 n n C4 H4 NAG sing 361 n n C5 C6 NAG sing 362 n n C5 O5 NAG sing 363 n n C5 H5 NAG sing 364 n n C6 O6 NAG sing 365 n n C6 H61 NAG sing 366 n n C6 H62 NAG sing 367 n n C7 C8 NAG sing 368 n n C7 N2 NAG sing 369 n n C7 O7 NAG doub 370 n n C8 H81 NAG sing 371 n n C8 H82 NAG sing 372 n n C8 H83 NAG sing 373 n n N2 HN2 NAG sing 374 n n O1 HO1 NAG sing 375 n n O3 HO3 NAG sing 376 n n O4 HO4 NAG sing 377 n n O6 HO6 NAG sing 378 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 3VXJ _atom_sites.fract_transf_matrix[1][1] 0.02214 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.006644 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010379 _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] 0.020974 _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 B 2 HEM A 1 501 446 HEM HEM . C 3 NAG A 1 502 501 NAG NAG . D 4 3DM A 1 503 601 3DM 3DM . E 4 3DM A 1 504 901 3DM 3DM . F 5 DMS A 1 505 1001 DMS DMS . G 6 HOH A 1 701 701 HOH HOH . G 6 HOH A 2 702 702 HOH HOH . G 6 HOH A 3 703 703 HOH HOH . G 6 HOH A 4 704 704 HOH HOH . G 6 HOH A 5 705 705 HOH HOH . G 6 HOH A 6 706 706 HOH HOH . G 6 HOH A 7 707 707 HOH HOH . G 6 HOH A 8 708 708 HOH HOH . G 6 HOH A 9 709 709 HOH HOH . G 6 HOH A 10 710 710 HOH HOH . G 6 HOH A 11 711 711 HOH HOH . G 6 HOH A 12 712 712 HOH HOH . G 6 HOH A 13 713 713 HOH HOH . G 6 HOH A 14 714 714 HOH HOH . G 6 HOH A 15 715 715 HOH HOH . G 6 HOH A 16 716 716 HOH HOH . G 6 HOH A 17 717 717 HOH HOH . G 6 HOH A 18 718 718 HOH HOH . G 6 HOH A 19 719 719 HOH HOH . G 6 HOH A 20 720 720 HOH HOH . G 6 HOH A 21 721 721 HOH HOH . G 6 HOH A 22 722 722 HOH HOH . G 6 HOH A 23 723 723 HOH HOH . G 6 HOH A 24 724 724 HOH HOH . G 6 HOH A 25 725 725 HOH HOH . G 6 HOH A 26 726 726 HOH HOH . G 6 HOH A 27 727 727 HOH HOH . G 6 HOH A 28 728 728 HOH HOH . G 6 HOH A 29 729 729 HOH HOH . G 6 HOH A 30 730 730 HOH HOH . G 6 HOH A 31 731 731 HOH HOH . G 6 HOH A 32 732 732 HOH HOH . G 6 HOH A 33 733 733 HOH HOH . G 6 HOH A 34 734 734 HOH HOH . G 6 HOH A 35 735 735 HOH HOH . G 6 HOH A 36 736 736 HOH HOH . G 6 HOH A 37 737 737 HOH HOH . G 6 HOH A 38 738 738 HOH HOH . G 6 HOH A 39 739 739 HOH HOH . G 6 HOH A 40 740 740 HOH HOH . G 6 HOH A 41 741 741 HOH HOH . G 6 HOH A 42 742 742 HOH HOH . G 6 HOH A 43 743 743 HOH HOH . G 6 HOH A 44 744 744 HOH HOH . G 6 HOH A 45 745 745 HOH HOH . G 6 HOH A 46 746 746 HOH HOH . G 6 HOH A 47 747 747 HOH HOH . G 6 HOH A 48 748 748 HOH HOH . G 6 HOH A 49 749 749 HOH HOH . G 6 HOH A 50 750 750 HOH HOH . G 6 HOH A 51 751 751 HOH HOH . G 6 HOH A 52 752 752 HOH HOH . G 6 HOH A 53 753 753 HOH HOH . G 6 HOH A 54 754 754 HOH HOH . G 6 HOH A 55 755 755 HOH HOH . G 6 HOH A 56 756 756 HOH HOH . G 6 HOH A 57 757 757 HOH HOH . G 6 HOH A 58 758 758 HOH HOH . G 6 HOH A 59 759 759 HOH HOH . G 6 HOH A 60 760 760 HOH HOH . G 6 HOH A 61 761 761 HOH HOH . G 6 HOH A 62 762 762 HOH HOH . G 6 HOH A 63 763 763 HOH HOH . G 6 HOH A 64 764 764 HOH HOH . G 6 HOH A 65 765 765 HOH HOH . G 6 HOH A 66 766 766 HOH HOH . G 6 HOH A 67 767 767 HOH HOH . G 6 HOH A 68 768 768 HOH HOH . G 6 HOH A 69 769 769 HOH HOH . G 6 HOH A 70 770 770 HOH HOH . G 6 HOH A 71 771 771 HOH HOH . G 6 HOH A 72 772 772 HOH HOH . G 6 HOH A 73 773 773 HOH HOH . G 6 HOH A 74 774 774 HOH HOH . G 6 HOH A 75 775 775 HOH HOH . G 6 HOH A 76 776 776 HOH HOH . G 6 HOH A 77 777 777 HOH HOH . G 6 HOH A 78 778 778 HOH HOH . G 6 HOH A 79 779 779 HOH HOH . G 6 HOH A 80 780 780 HOH HOH . G 6 HOH A 81 781 781 HOH HOH . G 6 HOH A 82 782 782 HOH HOH . G 6 HOH A 83 783 783 HOH HOH . G 6 HOH A 84 784 784 HOH HOH . G 6 HOH A 85 785 785 HOH HOH . G 6 HOH A 86 786 786 HOH HOH . G 6 HOH A 87 787 787 HOH HOH . G 6 HOH A 88 788 788 HOH HOH . G 6 HOH A 89 789 789 HOH HOH . G 6 HOH A 90 790 790 HOH HOH . G 6 HOH A 91 791 791 HOH HOH . G 6 HOH A 92 792 792 HOH HOH . G 6 HOH A 93 793 793 HOH HOH . G 6 HOH A 94 794 794 HOH HOH . G 6 HOH A 95 795 795 HOH HOH . G 6 HOH A 96 796 796 HOH HOH . G 6 HOH A 97 797 797 HOH HOH . G 6 HOH A 98 798 798 HOH HOH . G 6 HOH A 99 799 799 HOH HOH . G 6 HOH A 100 800 800 HOH HOH . G 6 HOH A 101 801 801 HOH HOH . G 6 HOH A 102 802 802 HOH HOH . G 6 HOH A 103 803 803 HOH HOH . G 6 HOH A 104 804 804 HOH HOH . G 6 HOH A 105 805 805 HOH HOH . G 6 HOH A 106 806 806 HOH HOH . G 6 HOH A 107 807 807 HOH HOH . G 6 HOH A 108 808 808 HOH HOH . G 6 HOH A 109 809 809 HOH HOH . G 6 HOH A 110 810 810 HOH HOH . G 6 HOH A 111 811 811 HOH HOH . G 6 HOH A 112 812 812 HOH HOH . G 6 HOH A 113 813 813 HOH HOH . G 6 HOH A 114 814 814 HOH HOH . G 6 HOH A 115 815 815 HOH HOH . G 6 HOH A 116 816 816 HOH HOH . G 6 HOH A 117 817 817 HOH HOH . G 6 HOH A 118 818 818 HOH HOH . G 6 HOH A 119 819 819 HOH HOH . G 6 HOH A 120 820 820 HOH HOH . G 6 HOH A 121 821 821 HOH HOH . G 6 HOH A 122 822 822 HOH HOH . G 6 HOH A 123 823 823 HOH HOH . G 6 HOH A 124 824 824 HOH HOH . G 6 HOH A 125 825 825 HOH HOH . G 6 HOH A 126 826 826 HOH HOH . G 6 HOH A 127 827 827 HOH HOH . G 6 HOH A 128 828 828 HOH HOH . G 6 HOH A 129 829 829 HOH HOH . G 6 HOH A 130 830 830 HOH HOH . G 6 HOH A 131 831 831 HOH HOH . G 6 HOH A 132 832 832 HOH HOH . G 6 HOH A 133 833 833 HOH HOH . G 6 HOH A 134 834 834 HOH HOH . G 6 HOH A 135 835 835 HOH HOH . G 6 HOH A 136 836 836 HOH HOH . G 6 HOH A 137 837 837 HOH HOH . G 6 HOH A 138 838 838 HOH HOH . G 6 HOH A 139 839 839 HOH HOH . G 6 HOH A 140 840 840 HOH HOH . G 6 HOH A 141 841 841 HOH HOH . G 6 HOH A 142 842 842 HOH HOH . G 6 HOH A 143 843 843 HOH HOH . G 6 HOH A 144 844 844 HOH HOH . G 6 HOH A 145 845 845 HOH HOH . G 6 HOH A 146 846 846 HOH HOH . G 6 HOH A 147 847 847 HOH HOH . G 6 HOH A 148 848 848 HOH HOH . G 6 HOH A 149 849 849 HOH HOH . G 6 HOH A 150 850 850 HOH HOH . G 6 HOH A 151 851 851 HOH HOH . G 6 HOH A 152 852 852 HOH HOH . G 6 HOH A 153 853 853 HOH HOH . G 6 HOH A 154 854 854 HOH HOH . G 6 HOH A 155 855 855 HOH HOH . G 6 HOH A 156 856 856 HOH HOH . G 6 HOH A 157 857 857 HOH HOH . G 6 HOH A 158 858 858 HOH HOH . G 6 HOH A 159 859 859 HOH HOH . G 6 HOH A 160 860 860 HOH HOH . G 6 HOH A 161 861 861 HOH HOH . G 6 HOH A 162 862 864 HOH HOH . G 6 HOH A 163 863 865 HOH HOH . G 6 HOH A 164 864 866 HOH HOH . G 6 HOH A 165 865 867 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 . . . C 3 -7.904 37.394 6.127 1 25.12 ? C1 NAG 502 A 1 HETATM 2 C C2 NAG . . . C 3 -7.62 38.848 5.741 1 28.89 ? C2 NAG 502 A 1 HETATM 3 C C3 NAG . . . C 3 -8.867 39.474 5.104 1 29.22 ? C3 NAG 502 A 1 HETATM 4 C C4 NAG . . . C 3 -9.363 38.609 3.942 1 29.22 ? C4 NAG 502 A 1 HETATM 5 C C5 NAG . . . C 3 -9.533 37.15 4.375 1 28.53 ? C5 NAG 502 A 1 HETATM 6 C C6 NAG . . . C 3 -9.848 36.249 3.186 1 29.13 ? C6 NAG 502 A 1 HETATM 7 C C7 NAG . . . C 3 -7.689 39.983 7.988 1 33.41 ? C7 NAG 502 A 1 HETATM 8 C C8 NAG . . . C 3 -6.852 40.79 8.938 1 33.77 ? C8 NAG 502 A 1 HETATM 9 N N2 NAG . . . C 3 -7.075 39.629 6.853 1 31.44 ? N2 NAG 502 A 1 HETATM 10 O O3 NAG . . . C 3 -8.588 40.783 4.655 1 30.49 ? O3 NAG 502 A 1 HETATM 11 O O4 NAG . . . C 3 -10.598 39.108 3.473 1 30.57 ? O4 NAG 502 A 1 HETATM 12 O O5 NAG . . . C 3 -8.347 36.675 4.984 1 27.09 ? O5 NAG 502 A 1 HETATM 13 O O6 NAG . . . C 3 -10.075 34.932 3.639 1 30.8 ? O6 NAG 502 A 1 HETATM 14 O O7 NAG . . . C 3 -8.853 39.701 8.287 1 34.81 ? O7 NAG 502 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 337 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 14 #