data_8OO1
#
_model_server_result.job_id            wkXEd_so4gTvURXh9hwsJw 
_model_server_result.datetime_utc      '2024-11-29 01:40:21' 
_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          8oo1 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"J","auth_seq_id":501}' 
#
_entry.id    8OO1 
#
_exptl.entry_id    8OO1 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              306.395 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'nonyl beta-D-glucopyranoside' 
_entity.pdbx_number_of_molecules    5 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          100.485 
_cell.angle_gamma         90 
_cell.entry_id            8OO1 
_cell.length_a            86.25 
_cell.length_b            116.82 
_cell.length_c            94.3 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8OO1 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    'P 2yb' 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_pdbx_struct_assembly.details               author_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,N,O 
_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 F N N 
? 4 G N N 
? 4 J N N 
? 4 K N N 
? 4 L 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 B SG CYS 26 B CYS 22 1_555 B SG CYS 100 B CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf2 D SG CYS 26 D CYS 22 1_555 D SG CYS 100 D CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
#
_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 107 n n 
C1 O1 BNG sing 108 n n 
C1 O5 BNG sing 109 n n 
C1 H1 BNG sing 110 n n 
C2 C3 BNG sing 111 n n 
C2 O2 BNG sing 112 n n 
C2 H2 BNG sing 113 n n 
C3 C4 BNG sing 114 n n 
C3 O3 BNG sing 115 n n 
C3 H3 BNG sing 116 n n 
C4 C5 BNG sing 117 n n 
C4 O4 BNG sing 118 n n 
C4 H4 BNG sing 119 n n 
C5 C6 BNG sing 120 n n 
C5 O5 BNG sing 121 n n 
C5 H5 BNG sing 122 n n 
C6 O6 BNG sing 123 n n 
C6 H61 BNG sing 124 n n 
C6 H62 BNG sing 125 n n 
C1' C2' BNG sing 126 n n 
C1' O1 BNG sing 127 n n 
C1' "H1'1" BNG sing 128 n n 
C1' "H1'2" BNG sing 129 n n 
C2' C3' BNG sing 130 n n 
C2' "H2'1" BNG sing 131 n n 
C2' "H2'2" BNG sing 132 n n 
C3' C4' BNG sing 133 n n 
C3' "H3'1" BNG sing 134 n n 
C3' "H3'2" BNG sing 135 n n 
C4' C5' BNG sing 136 n n 
C4' "H4'1" BNG sing 137 n n 
C4' "H4'2" BNG sing 138 n n 
C5' C6' BNG sing 139 n n 
C5' "H5'1" BNG sing 140 n n 
C5' "H5'2" BNG sing 141 n n 
C6' C7' BNG sing 142 n n 
C6' "H6'1" BNG sing 143 n n 
C6' "H6'2" BNG sing 144 n n 
C7' C8' BNG sing 145 n n 
C7' "H7'1" BNG sing 146 n n 
C7' "H7'2" BNG sing 147 n n 
C8' C9' BNG sing 148 n n 
C8' "H8'1" BNG sing 149 n n 
C8' "H8'2" BNG sing 150 n n 
C9' "H9'1" BNG sing 151 n n 
C9' "H9'2" BNG sing 152 n n 
C9' "H9'3" BNG sing 153 n n 
O2 HO2 BNG sing 154 n n 
O3 HO3 BNG sing 155 n n 
O4 HO4 BNG sing 156 n n 
O6 HO6 BNG sing 157 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                     8OO1 
_atom_sites.fract_transf_matrix[1][1]    0.011594 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.002146 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.00856 
_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]    0.010785 
_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 1PE A 1 501 550 1PE 1PE . 
F 4 BNG A 1 502 501 BNG BNG . 
G 4 BNG A 1 503 502 BNG BNG . 
H 5 URA A 1 504 450 URA URA . 
I 6 DMU B 1 201 470 DMU DMU . 
J 4 BNG C 1 501 501 BNG BNG . 
K 4 BNG C 1 502 502 BNG BNG . 
L 4 BNG C 1 503 503 BNG BNG . 
M 5 URA C 1 504 450 URA URA . 
N 6 DMU D 1 201 470 DMU DMU . 
O 3 1PE D 1 202 550 1PE 1PE . 
#
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 . . . J 4 8.392 -15.654 38.617 1 32.45 ? C1 BNG 501 C 1 
HETATM 2 C C2 BNG . . . J 4 6.876 -15.893 38.61 1 64.15 ? C2 BNG 501 C 1 
HETATM 3 C C3 BNG . . . J 4 6.153 -14.563 38.371 1 69.52 ? C3 BNG 501 C 1 
HETATM 4 C C4 BNG . . . J 4 6.637 -13.547 39.41 1 78.99 ? C4 BNG 501 C 1 
HETATM 5 C C5 BNG . . . J 4 8.164 -13.467 39.348 1 41.54 ? C5 BNG 501 C 1 
HETATM 6 C C6 BNG . . . J 4 8.649 -12.43 40.36 1 45.88 ? C6 BNG 501 C 1 
HETATM 7 C C1' BNG . . . J 4 9.67 -17.281 37.607 1 61.92 ? C1' BNG 501 C 1 
HETATM 8 C C2' BNG . . . J 4 10.784 -18.296 37.871 1 50.44 ? C2' BNG 501 C 1 
HETATM 9 C C3' BNG . . . J 4 11.161 -18.988 36.558 1 28.98 ? C3' BNG 501 C 1 
HETATM 10 C C4' BNG . . . J 4 9.911 -19.609 35.93 1 40.57 ? C4' BNG 501 C 1 
HETATM 11 C C5' BNG . . . J 4 10.304 -20.418 34.693 1 39.12 ? C5' BNG 501 C 1 
HETATM 12 C C6' BNG . . . J 4 10.268 -19.525 33.451 1 29.02 ? C6' BNG 501 C 1 
HETATM 13 C C7' BNG . . . J 4 8.88 -19.578 32.813 1 44.3 ? C7' BNG 501 C 1 
HETATM 14 C C8' BNG . . . J 4 8.671 -20.942 32.152 1 43.16 ? C8' BNG 501 C 1 
HETATM 15 C C9' BNG . . . J 4 7.238 -21.05 31.631 1 44.63 ? C9' BNG 501 C 1 
HETATM 16 O O1 BNG . . . J 4 9.062 -16.897 38.841 1 47.03 ? O1 BNG 501 C 1 
HETATM 17 O O2 BNG . . . J 4 6.53 -16.811 37.573 1 85.77 ? O2 BNG 501 C 1 
HETATM 18 O O3 BNG . . . J 4 4.742 -14.747 38.499 1 35.52 ? O3 BNG 501 C 1 
HETATM 19 O O4 BNG . . . J 4 6.078 -12.263 39.127 1 67.78 ? O4 BNG 501 C 1 
HETATM 20 O O5 BNG . . . J 4 8.735 -14.739 39.657 1 14.47 ? O5 BNG 501 C 1 
HETATM 21 O O6 BNG . . . J 4 7.918 -12.578 41.581 1 44.38 ? O6 BNG 501 C 1 
#
_model_server_stats.io_time_ms              30 
_model_server_stats.parse_time_ms           16 
_model_server_stats.create_model_time_ms    8 
_model_server_stats.query_time_ms           265 
_model_server_stats.encode_time_ms          9 
_model_server_stats.element_count           21 
#