data_1EHK
#
_model_server_result.job_id            h6GaKkFOQjnVF8tOEIGhuQ 
_model_server_result.datetime_utc      '2024-12-27 00:52:30' 
_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          1ehk 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":902}' 
#
_entry.id    1EHK 
#
_exptl.entry_id    1EHK 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              306.395 
_entity.id                          4 
_entity.src_method                  man 
_entity.type                        non-polymer 
_entity.pdbx_description            'nonyl beta-D-glucopyranoside' 
_entity.pdbx_number_of_molecules    3 
_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            1EHK 
_cell.length_a            112.11 
_cell.length_b            112.11 
_cell.length_c            161.41 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1EHK 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        96 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 43 21 2' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    trimeric 
_pdbx_struct_assembly.oligomeric_count      3 
_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,H,I,J,K,L,M 
_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 
? 4 F 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
covale ? covale1 A NE2 HIS 233 A HIS 233 1_555 A CE2 TYR 237 A TYR 237 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? 
metalc ? metalc1 A NE2 HIS 72 A HIS 72 1_555 H FE HEM . A HEM 800 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.244 ? 
metalc ? metalc2 A ND1 HIS 233 A HIS 233 1_555 G CU CU . A CU 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.099 ? 
metalc ? metalc3 A NE2 HIS 282 A HIS 282 1_555 G CU CU . A CU 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.214 ? 
metalc ? metalc4 A NE2 HIS 283 A HIS 283 1_555 G CU CU . A CU 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.129 ? 
metalc ? metalc5 A NE2 HIS 384 A HIS 384 1_555 I FE HAS . A HAS 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.312 ? 
metalc ? metalc6 A NE2 HIS 386 A HIS 386 1_555 H FE HEM . A HEM 800 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.241 ? 
metalc ? metalc7 I FE HAS . A HAS 801 1_555 K O HOH . A HOH 991 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.264 ? 
metalc ? metalc8 G CU CU . A CU 803 1_555 K O HOH . A HOH 991 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.307 ? 
metalc ? metalc9 B ND1 HIS 114 B HIS 114 1_555 J CU2 CUA . B CUA 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.125 ? 
metalc ? metalc10 B SG CYS 149 B CYS 149 1_555 J CU1 CUA . B CUA 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.316 ? 
metalc ? metalc11 B SG CYS 149 B CYS 149 1_555 J CU2 CUA . B CUA 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.396 ? 
metalc ? metalc12 B O GLN 151 B GLN 151 1_555 J CU1 CUA . B CUA 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.755 ? 
metalc ? metalc13 B SG CYS 153 B CYS 153 1_555 J CU1 CUA . B CUA 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.477 ? 
metalc ? metalc14 B SG CYS 153 B CYS 153 1_555 J CU2 CUA . B CUA 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.372 ? 
metalc ? metalc15 B ND1 HIS 157 B HIS 157 1_555 J CU1 CUA . B CUA 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.078 ? 
metalc ? metalc16 B SD MET 160 B MET 160 1_555 J CU2 CUA . B CUA 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.502 ? 
#
_chem_comp.formula           'C15 H30 O6' 
_chem_comp.formula_weight    306.395 
_chem_comp.id                BNG 
_chem_comp.mon_nstd_flag     n 
_chem_comp.name              'nonyl beta-D-glucopyranoside' 
_chem_comp.type              d-saccharide 
_chem_comp.pdbx_synonyms     'Beta-NONYLGLUCOSIDE;nonyl beta-D-glucoside;nonyl D-glucoside;nonyl glucoside' 
#
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 BNG sing 70 n n 
C1 O1 BNG sing 71 n n 
C1 O5 BNG sing 72 n n 
C1 H1 BNG sing 73 n n 
C2 C3 BNG sing 74 n n 
C2 O2 BNG sing 75 n n 
C2 H2 BNG sing 76 n n 
C3 C4 BNG sing 77 n n 
C3 O3 BNG sing 78 n n 
C3 H3 BNG sing 79 n n 
C4 C5 BNG sing 80 n n 
C4 O4 BNG sing 81 n n 
C4 H4 BNG sing 82 n n 
C5 C6 BNG sing 83 n n 
C5 O5 BNG sing 84 n n 
C5 H5 BNG sing 85 n n 
C6 O6 BNG sing 86 n n 
C6 H61 BNG sing 87 n n 
C6 H62 BNG sing 88 n n 
C1' C2' BNG sing 89 n n 
C1' O1 BNG sing 90 n n 
C1' "H1'1" BNG sing 91 n n 
C1' "H1'2" BNG sing 92 n n 
C2' C3' BNG sing 93 n n 
C2' "H2'1" BNG sing 94 n n 
C2' "H2'2" BNG sing 95 n n 
C3' C4' BNG sing 96 n n 
C3' "H3'1" BNG sing 97 n n 
C3' "H3'2" BNG sing 98 n n 
C4' C5' BNG sing 99 n n 
C4' "H4'1" BNG sing 100 n n 
C4' "H4'2" BNG sing 101 n n 
C5' C6' BNG sing 102 n n 
C5' "H5'1" BNG sing 103 n n 
C5' "H5'2" BNG sing 104 n n 
C6' C7' BNG sing 105 n n 
C6' "H6'1" BNG sing 106 n n 
C6' "H6'2" BNG sing 107 n n 
C7' C8' BNG sing 108 n n 
C7' "H7'1" BNG sing 109 n n 
C7' "H7'2" BNG sing 110 n n 
C8' C9' BNG sing 111 n n 
C8' "H8'1" BNG sing 112 n n 
C8' "H8'2" BNG sing 113 n n 
C9' "H9'1" BNG sing 114 n n 
C9' "H9'2" BNG sing 115 n n 
C9' "H9'3" BNG sing 116 n n 
O2 HO2 BNG sing 117 n n 
O3 HO3 BNG sing 118 n n 
O4 HO4 BNG sing 119 n n 
O6 HO6 BNG sing 120 n n 
#
_pdbx_chem_comp_identifier.comp_id            BNG 
_pdbx_chem_comp_identifier.identifier         b-nonylglucoside 
_pdbx_chem_comp_identifier.type               'IUPAC CARBOHYDRATE SYMBOL' 
_pdbx_chem_comp_identifier.program            PDB-CARE 
_pdbx_chem_comp_identifier.program_version    1 
#
_atom_sites.entry_id                     1EHK 
_atom_sites.fract_transf_matrix[1][1]    0.00892 
_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]    0.00892 
_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]    0.006195 
_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 BNG A 1 901 901 BNG NGC . 
E 4 BNG A 1 902 902 BNG NGC . 
F 4 BNG A 1 903 903 BNG NGC . 
G 5 CU A 1 803 803 CU CUB . 
H 6 HEM A 1 800 800 HEM HEM . 
I 7 HAS A 1 801 801 HAS HEA . 
J 8 CUA B 1 802 802 CUA CUA . 
K 9 HOH A 1 904 1 HOH H2O . 
K 9 HOH A 2 905 3 HOH H2O . 
K 9 HOH A 3 906 4 HOH H2O . 
K 9 HOH A 4 907 6 HOH H2O . 
K 9 HOH A 5 908 7 HOH H2O . 
K 9 HOH A 6 909 8 HOH H2O . 
K 9 HOH A 7 910 9 HOH H2O . 
K 9 HOH A 8 911 10 HOH H2O . 
K 9 HOH A 9 912 11 HOH H2O . 
K 9 HOH A 10 913 12 HOH H2O . 
K 9 HOH A 11 914 13 HOH H2O . 
K 9 HOH A 12 915 14 HOH H2O . 
K 9 HOH A 13 916 16 HOH H2O . 
K 9 HOH A 14 917 17 HOH H2O . 
K 9 HOH A 15 918 18 HOH H2O . 
K 9 HOH A 16 919 19 HOH H2O . 
K 9 HOH A 17 920 21 HOH H2O . 
K 9 HOH A 18 921 23 HOH H2O . 
K 9 HOH A 19 922 24 HOH H2O . 
K 9 HOH A 20 923 25 HOH H2O . 
K 9 HOH A 21 924 26 HOH H2O . 
K 9 HOH A 22 925 28 HOH H2O . 
K 9 HOH A 23 926 29 HOH H2O . 
K 9 HOH A 24 927 30 HOH H2O . 
K 9 HOH A 25 928 31 HOH H2O . 
K 9 HOH A 26 929 32 HOH H2O . 
K 9 HOH A 27 930 38 HOH H2O . 
K 9 HOH A 28 931 39 HOH H2O . 
K 9 HOH A 29 932 41 HOH H2O . 
K 9 HOH A 30 933 42 HOH H2O . 
K 9 HOH A 31 934 43 HOH H2O . 
K 9 HOH A 32 935 44 HOH H2O . 
K 9 HOH A 33 936 45 HOH H2O . 
K 9 HOH A 34 937 46 HOH H2O . 
K 9 HOH A 35 938 47 HOH H2O . 
K 9 HOH A 36 939 49 HOH H2O . 
K 9 HOH A 37 940 50 HOH H2O . 
K 9 HOH A 38 941 51 HOH H2O . 
K 9 HOH A 39 942 52 HOH H2O . 
K 9 HOH A 40 943 54 HOH H2O . 
K 9 HOH A 41 944 55 HOH H2O . 
K 9 HOH A 42 945 57 HOH H2O . 
K 9 HOH A 43 946 58 HOH H2O . 
K 9 HOH A 44 947 59 HOH H2O . 
K 9 HOH A 45 948 62 HOH H2O . 
K 9 HOH A 46 949 63 HOH H2O . 
K 9 HOH A 47 950 64 HOH H2O . 
K 9 HOH A 48 951 66 HOH H2O . 
K 9 HOH A 49 952 69 HOH H2O . 
K 9 HOH A 50 953 72 HOH H2O . 
K 9 HOH A 51 954 73 HOH H2O . 
K 9 HOH A 52 955 74 HOH H2O . 
K 9 HOH A 53 956 75 HOH H2O . 
K 9 HOH A 54 957 76 HOH H2O . 
K 9 HOH A 55 958 77 HOH H2O . 
K 9 HOH A 56 959 78 HOH H2O . 
K 9 HOH A 57 960 79 HOH H2O . 
K 9 HOH A 58 961 80 HOH H2O . 
K 9 HOH A 59 962 84 HOH H2O . 
K 9 HOH A 60 963 85 HOH H2O . 
K 9 HOH A 61 964 86 HOH H2O . 
K 9 HOH A 62 965 87 HOH H2O . 
K 9 HOH A 63 966 88 HOH H2O . 
K 9 HOH A 64 967 89 HOH H2O . 
K 9 HOH A 65 968 91 HOH H2O . 
K 9 HOH A 66 969 92 HOH H2O . 
K 9 HOH A 67 970 95 HOH H2O . 
K 9 HOH A 68 971 96 HOH H2O . 
K 9 HOH A 69 972 97 HOH H2O . 
K 9 HOH A 70 973 98 HOH H2O . 
K 9 HOH A 71 974 99 HOH H2O . 
K 9 HOH A 72 975 100 HOH H2O . 
K 9 HOH A 73 976 102 HOH H2O . 
K 9 HOH A 74 977 103 HOH H2O . 
K 9 HOH A 75 978 104 HOH H2O . 
K 9 HOH A 76 979 105 HOH H2O . 
K 9 HOH A 77 980 106 HOH H2O . 
K 9 HOH A 78 981 107 HOH H2O . 
K 9 HOH A 79 982 108 HOH H2O . 
K 9 HOH A 80 983 110 HOH H2O . 
K 9 HOH A 81 984 111 HOH H2O . 
K 9 HOH A 82 985 112 HOH H2O . 
K 9 HOH A 83 986 113 HOH H2O . 
K 9 HOH A 84 987 114 HOH H2O . 
K 9 HOH A 85 988 115 HOH H2O . 
K 9 HOH A 86 989 116 HOH H2O . 
K 9 HOH A 87 990 117 HOH H2O . 
K 9 HOH A 88 991 70 HOH H2O . 
L 9 HOH B 1 803 2 HOH H2O . 
L 9 HOH B 2 804 5 HOH H2O . 
L 9 HOH B 3 805 15 HOH H2O . 
L 9 HOH B 4 806 20 HOH H2O . 
L 9 HOH B 5 807 22 HOH H2O . 
L 9 HOH B 6 808 27 HOH H2O . 
L 9 HOH B 7 809 33 HOH H2O . 
L 9 HOH B 8 810 34 HOH H2O . 
L 9 HOH B 9 811 35 HOH H2O . 
L 9 HOH B 10 812 36 HOH H2O . 
L 9 HOH B 11 813 37 HOH H2O . 
L 9 HOH B 12 814 40 HOH H2O . 
L 9 HOH B 13 815 48 HOH H2O . 
L 9 HOH B 14 816 53 HOH H2O . 
L 9 HOH B 15 817 56 HOH H2O . 
L 9 HOH B 16 818 60 HOH H2O . 
L 9 HOH B 17 819 61 HOH H2O . 
L 9 HOH B 18 820 67 HOH H2O . 
L 9 HOH B 19 821 68 HOH H2O . 
L 9 HOH B 20 822 71 HOH H2O . 
L 9 HOH B 21 823 81 HOH H2O . 
L 9 HOH B 22 824 82 HOH H2O . 
L 9 HOH B 23 825 83 HOH H2O . 
L 9 HOH B 24 826 90 HOH H2O . 
L 9 HOH B 25 827 93 HOH H2O . 
L 9 HOH B 26 828 94 HOH H2O . 
L 9 HOH B 27 829 101 HOH H2O . 
L 9 HOH B 28 830 109 HOH H2O . 
L 9 HOH B 29 831 118 HOH H2O . 
L 9 HOH B 30 832 119 HOH H2O . 
M 9 HOH C 1 65 65 HOH H2O . 
#
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 BNG . . . E 4 70.399 30.207 -12.663 1 86.89 ? C1 BNG 902 A 1 
HETATM 2 C C2 BNG . . . E 4 70.345 31.646 -13.255 1 85.16 ? C2 BNG 902 A 1 
HETATM 3 C C3 BNG . . . E 4 69.787 32.611 -12.207 1 86.49 ? C3 BNG 902 A 1 
HETATM 4 C C4 BNG . . . E 4 68.406 32.104 -11.789 1 87.6 ? C4 BNG 902 A 1 
HETATM 5 C C5 BNG . . . E 4 68.557 30.677 -11.23 1 89.56 ? C5 BNG 902 A 1 
HETATM 6 C C6 BNG . . . E 4 67.186 30.153 -10.779 1 92.17 ? C6 BNG 902 A 1 
HETATM 7 C C1' BNG . . . E 4 71.851 28.42 -13.268 1 79.3 ? C1' BNG 902 A 1 
HETATM 8 C C2' BNG . . . E 4 71.307 26.994 -13.397 1 73.13 ? C2' BNG 902 A 1 
HETATM 9 C C3' BNG . . . E 4 72.406 25.93 -13.461 1 69.7 ? C3' BNG 902 A 1 
HETATM 10 C C4' BNG . . . E 4 71.796 24.526 -13.559 1 71.27 ? C4' BNG 902 A 1 
HETATM 11 C C5' BNG . . . E 4 72.813 23.441 -13.925 1 73.01 ? C5' BNG 902 A 1 
HETATM 12 C C6' BNG . . . E 4 73.935 23.299 -12.906 1 75.27 ? C6' BNG 902 A 1 
HETATM 13 C C7' BNG . . . E 4 74.897 22.191 -13.318 1 77.77 ? C7' BNG 902 A 1 
HETATM 14 C C8' BNG . . . E 4 76.076 22.065 -12.363 0 77.57 ? C8' BNG 902 A 1 
HETATM 15 C C9' BNG . . . E 4 75.587 21.671 -10.989 0 78.09 ? C9' BNG 902 A 1 
HETATM 16 O O1 BNG . . . E 4 70.832 29.328 -13.695 1 84.96 ? O1 BNG 902 A 1 
HETATM 17 O O2 BNG . . . E 4 71.654 32.068 -13.658 1 82.37 ? O2 BNG 902 A 1 
HETATM 18 O O3 BNG . . . E 4 69.674 33.924 -12.768 1 86.31 ? O3 BNG 902 A 1 
HETATM 19 O O4 BNG . . . E 4 67.858 32.96 -10.783 1 85.05 ? O4 BNG 902 A 1 
HETATM 20 O O5 BNG . . . E 4 69.092 29.823 -12.238 1 91.68 ? O5 BNG 902 A 1 
HETATM 21 O O6 BNG . . . E 4 67.272 28.845 -10.241 1 95.59 ? O6 BNG 902 A 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           377 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           21 
#