data_5NXD
#
_model_server_result.job_id            a3Irk_R0RFbI2wGqPw5aAA 
_model_server_result.datetime_utc      '2025-02-05 04:47:31' 
_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          5nxd 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":702}' 
#
_entry.id    5NXD 
#
_exptl.entry_id    5NXD 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              62.068 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            1,2-ETHANEDIOL 
_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          97.43 
_cell.angle_gamma         90 
_cell.entry_id            5NXD 
_cell.length_a            63.275 
_cell.length_b            66.605 
_cell.length_c            82.124 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5NXD 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? monomeric 1 author_defined_assembly 1 
? monomeric 1 author_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,C,D,G 1 1 
B,E,F,H 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 D N N 
? 3 F N N 
#
_chem_comp.formula           'C2 H6 O2' 
_chem_comp.formula_weight    62.068 
_chem_comp.id                EDO 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              1,2-ETHANEDIOL 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     'ETHYLENE GLYCOL' 
#
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 O1 EDO sing 138 n n 
C1 C2 EDO sing 139 n n 
C1 H11 EDO sing 140 n n 
C1 H12 EDO sing 141 n n 
O1 HO1 EDO sing 142 n n 
C2 O2 EDO sing 143 n n 
C2 H21 EDO sing 144 n n 
C2 H22 EDO sing 145 n n 
O2 HO2 EDO sing 146 n n 
#
_atom_sites.entry_id                     5NXD 
_atom_sites.fract_transf_matrix[1][1]    0.015804 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.002062 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.015014 
_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]    0.01228 
_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
C 2 9D8 A 1 701 1 9D8 TH3 . 
D 3 EDO A 1 702 2 EDO EDO . 
E 2 9D8 B 1 701 2 9D8 TH3 . 
F 3 EDO B 1 702 1 EDO EDO . 
G 4 HOH A 1 801 48 HOH HOH . 
G 4 HOH A 2 802 37 HOH HOH . 
G 4 HOH A 3 803 39 HOH HOH . 
G 4 HOH A 4 804 92 HOH HOH . 
G 4 HOH A 5 805 1 HOH HOH . 
G 4 HOH A 6 806 81 HOH HOH . 
G 4 HOH A 7 807 67 HOH HOH . 
G 4 HOH A 8 808 125 HOH HOH . 
G 4 HOH A 9 809 96 HOH HOH . 
G 4 HOH A 10 810 6 HOH HOH . 
G 4 HOH A 11 811 24 HOH HOH . 
G 4 HOH A 12 812 126 HOH HOH . 
G 4 HOH A 13 813 21 HOH HOH . 
G 4 HOH A 14 814 53 HOH HOH . 
G 4 HOH A 15 815 8 HOH HOH . 
G 4 HOH A 16 816 30 HOH HOH . 
G 4 HOH A 17 817 123 HOH HOH . 
G 4 HOH A 18 818 9 HOH HOH . 
G 4 HOH A 19 819 129 HOH HOH . 
G 4 HOH A 20 820 119 HOH HOH . 
G 4 HOH A 21 821 68 HOH HOH . 
G 4 HOH A 22 822 20 HOH HOH . 
G 4 HOH A 23 823 85 HOH HOH . 
G 4 HOH A 24 824 106 HOH HOH . 
G 4 HOH A 25 825 109 HOH HOH . 
G 4 HOH A 26 826 91 HOH HOH . 
G 4 HOH A 27 827 41 HOH HOH . 
G 4 HOH A 28 828 84 HOH HOH . 
G 4 HOH A 29 829 22 HOH HOH . 
G 4 HOH A 30 830 104 HOH HOH . 
G 4 HOH A 31 831 74 HOH HOH . 
G 4 HOH A 32 832 43 HOH HOH . 
G 4 HOH A 33 833 95 HOH HOH . 
G 4 HOH A 34 834 94 HOH HOH . 
G 4 HOH A 35 835 13 HOH HOH . 
G 4 HOH A 36 836 10 HOH HOH . 
G 4 HOH A 37 837 18 HOH HOH . 
G 4 HOH A 38 838 99 HOH HOH . 
G 4 HOH A 39 839 65 HOH HOH . 
G 4 HOH A 40 840 11 HOH HOH . 
G 4 HOH A 41 841 59 HOH HOH . 
G 4 HOH A 42 842 2 HOH HOH . 
G 4 HOH A 43 843 38 HOH HOH . 
G 4 HOH A 44 844 69 HOH HOH . 
G 4 HOH A 45 845 15 HOH HOH . 
G 4 HOH A 46 846 52 HOH HOH . 
G 4 HOH A 47 847 61 HOH HOH . 
G 4 HOH A 48 848 98 HOH HOH . 
G 4 HOH A 49 849 82 HOH HOH . 
G 4 HOH A 50 850 32 HOH HOH . 
G 4 HOH A 51 851 131 HOH HOH . 
G 4 HOH A 52 852 3 HOH HOH . 
G 4 HOH A 53 853 115 HOH HOH . 
G 4 HOH A 54 854 36 HOH HOH . 
G 4 HOH A 55 855 105 HOH HOH . 
G 4 HOH A 56 856 107 HOH HOH . 
G 4 HOH A 57 857 102 HOH HOH . 
G 4 HOH A 58 858 12 HOH HOH . 
G 4 HOH A 59 859 50 HOH HOH . 
G 4 HOH A 60 860 19 HOH HOH . 
G 4 HOH A 61 861 83 HOH HOH . 
G 4 HOH A 62 862 87 HOH HOH . 
G 4 HOH A 63 863 108 HOH HOH . 
G 4 HOH A 64 864 17 HOH HOH . 
G 4 HOH A 65 865 90 HOH HOH . 
G 4 HOH A 66 866 73 HOH HOH . 
G 4 HOH A 67 867 66 HOH HOH . 
G 4 HOH A 68 868 114 HOH HOH . 
G 4 HOH A 69 869 71 HOH HOH . 
G 4 HOH A 70 870 33 HOH HOH . 
G 4 HOH A 71 871 28 HOH HOH . 
G 4 HOH A 72 872 78 HOH HOH . 
G 4 HOH A 73 873 16 HOH HOH . 
G 4 HOH A 74 874 76 HOH HOH . 
G 4 HOH A 75 875 111 HOH HOH . 
G 4 HOH A 76 876 93 HOH HOH . 
G 4 HOH A 77 877 86 HOH HOH . 
G 4 HOH A 78 878 112 HOH HOH . 
G 4 HOH A 79 879 60 HOH HOH . 
G 4 HOH A 80 880 57 HOH HOH . 
G 4 HOH A 81 881 44 HOH HOH . 
G 4 HOH A 82 882 127 HOH HOH . 
G 4 HOH A 83 883 97 HOH HOH . 
H 4 HOH B 1 801 49 HOH HOH . 
H 4 HOH B 2 802 130 HOH HOH . 
H 4 HOH B 3 803 64 HOH HOH . 
H 4 HOH B 4 804 124 HOH HOH . 
H 4 HOH B 5 805 27 HOH HOH . 
H 4 HOH B 6 806 14 HOH HOH . 
H 4 HOH B 7 807 122 HOH HOH . 
H 4 HOH B 8 808 116 HOH HOH . 
H 4 HOH B 9 809 121 HOH HOH . 
H 4 HOH B 10 810 23 HOH HOH . 
H 4 HOH B 11 811 80 HOH HOH . 
H 4 HOH B 12 812 56 HOH HOH . 
H 4 HOH B 13 813 25 HOH HOH . 
H 4 HOH B 14 814 89 HOH HOH . 
H 4 HOH B 15 815 110 HOH HOH . 
H 4 HOH B 16 816 35 HOH HOH . 
H 4 HOH B 17 817 45 HOH HOH . 
H 4 HOH B 18 818 29 HOH HOH . 
H 4 HOH B 19 819 5 HOH HOH . 
H 4 HOH B 20 820 103 HOH HOH . 
H 4 HOH B 21 821 42 HOH HOH . 
H 4 HOH B 22 822 132 HOH HOH . 
H 4 HOH B 23 823 7 HOH HOH . 
H 4 HOH B 24 824 26 HOH HOH . 
H 4 HOH B 25 825 77 HOH HOH . 
H 4 HOH B 26 826 120 HOH HOH . 
H 4 HOH B 27 827 58 HOH HOH . 
H 4 HOH B 28 828 88 HOH HOH . 
H 4 HOH B 29 829 133 HOH HOH . 
H 4 HOH B 30 830 51 HOH HOH . 
H 4 HOH B 31 831 101 HOH HOH . 
H 4 HOH B 32 832 34 HOH HOH . 
H 4 HOH B 33 833 54 HOH HOH . 
H 4 HOH B 34 834 117 HOH HOH . 
H 4 HOH B 35 835 128 HOH HOH . 
H 4 HOH B 36 836 31 HOH HOH . 
H 4 HOH B 37 837 46 HOH HOH . 
H 4 HOH B 38 838 4 HOH HOH . 
H 4 HOH B 39 839 62 HOH HOH . 
H 4 HOH B 40 840 40 HOH HOH . 
H 4 HOH B 41 841 47 HOH HOH . 
H 4 HOH B 42 842 113 HOH HOH . 
H 4 HOH B 43 843 100 HOH HOH . 
H 4 HOH B 44 844 70 HOH HOH . 
H 4 HOH B 45 845 55 HOH HOH . 
H 4 HOH B 46 846 79 HOH HOH . 
H 4 HOH B 47 847 72 HOH HOH . 
H 4 HOH B 48 848 118 HOH HOH . 
H 4 HOH B 49 849 75 HOH HOH . 
H 4 HOH B 50 850 63 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 EDO . . . D 3 21.747 -5.354 19.69 1 23.16 ? C1 EDO 702 A 1 
HETATM 2 O O1 EDO . . . D 3 20.454 -4.753 19.998 1 22.6 ? O1 EDO 702 A 1 
HETATM 3 C C2 EDO . . . D 3 21.466 -6.837 19.566 1 24.58 ? C2 EDO 702 A 1 
HETATM 4 O O2 EDO . . . D 3 20.886 -7.208 18.277 1 26.48 ? O2 EDO 702 A 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           305 
_model_server_stats.encode_time_ms          13 
_model_server_stats.element_count           4 
#