data_5MT8 # _model_server_result.job_id 3K1JeJao2y2inY3xD6CJzQ _model_server_result.datetime_utc '2025-01-10 12:50:09' _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 5mt8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":304}' # _entry.id 5MT8 # _exptl.entry_id 5MT8 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 306.395 _entity.id 3 _entity.src_method man _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 90 _cell.angle_gamma 120 _cell.entry_id 5MT8 _cell.length_a 111.159 _cell.length_b 111.159 _cell.length_c 124.553 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5MT8 _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'H 3 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 ? 3 C N N ? 3 D N N ? 3 E N N ? 3 F N N ? 3 G 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 163 A HIS 254 1_555 B C1 0QE 7 B 0QE 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? covale ? covale2 B C ACE 1 B ACE 1 1_555 B N ARG 2 B ARG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.373 ? covale ? covale3 B C ALA 6 B ALA 6 1_555 B C1 0QE 7 B 0QE 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.484 ? # _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 80 n n C1 O1 BNG sing 81 n n C1 O5 BNG sing 82 n n C1 H1 BNG sing 83 n n C2 C3 BNG sing 84 n n C2 O2 BNG sing 85 n n C2 H2 BNG sing 86 n n C3 C4 BNG sing 87 n n C3 O3 BNG sing 88 n n C3 H3 BNG sing 89 n n C4 C5 BNG sing 90 n n C4 O4 BNG sing 91 n n C4 H4 BNG sing 92 n n C5 C6 BNG sing 93 n n C5 O5 BNG sing 94 n n C5 H5 BNG sing 95 n n C6 O6 BNG sing 96 n n C6 H61 BNG sing 97 n n C6 H62 BNG sing 98 n n C1' C2' BNG sing 99 n n C1' O1 BNG sing 100 n n C1' "H1'1" BNG sing 101 n n C1' "H1'2" BNG sing 102 n n C2' C3' BNG sing 103 n n C2' "H2'1" BNG sing 104 n n C2' "H2'2" BNG sing 105 n n C3' C4' BNG sing 106 n n C3' "H3'1" BNG sing 107 n n C3' "H3'2" BNG sing 108 n n C4' C5' BNG sing 109 n n C4' "H4'1" BNG sing 110 n n C4' "H4'2" BNG sing 111 n n C5' C6' BNG sing 112 n n C5' "H5'1" BNG sing 113 n n C5' "H5'2" BNG sing 114 n n C6' C7' BNG sing 115 n n C6' "H6'1" BNG sing 116 n n C6' "H6'2" BNG sing 117 n n C7' C8' BNG sing 118 n n C7' "H7'1" BNG sing 119 n n C7' "H7'2" BNG sing 120 n n C8' C9' BNG sing 121 n n C8' "H8'1" BNG sing 122 n n C8' "H8'2" BNG sing 123 n n C9' "H9'1" BNG sing 124 n n C9' "H9'2" BNG sing 125 n n C9' "H9'3" BNG sing 126 n n O2 HO2 BNG sing 127 n n O3 HO3 BNG sing 128 n n O4 HO4 BNG sing 129 n n O6 HO6 BNG sing 130 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 5MT8 _atom_sites.fract_transf_matrix[1][1] 0.008996 _atom_sites.fract_transf_matrix[1][2] 0.005194 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010388 _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] 0.008029 _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 3 BNG A 1 301 1 BNG BNG . D 3 BNG A 1 302 2 BNG BNG . E 3 BNG A 1 303 3 BNG BNG . F 3 BNG A 1 304 4 BNG BNG . G 3 BNG A 1 305 5 BNG BNG . H 4 CL A 1 306 2 CL CL . I 5 HOH A 1 401 23 HOH HOH . I 5 HOH A 2 402 2 HOH HOH . I 5 HOH A 3 403 29 HOH HOH . I 5 HOH A 4 404 27 HOH HOH . I 5 HOH A 5 405 11 HOH HOH . I 5 HOH A 6 406 26 HOH HOH . I 5 HOH A 7 407 20 HOH HOH . I 5 HOH A 8 408 13 HOH HOH . I 5 HOH A 9 409 1 HOH HOH . I 5 HOH A 10 410 18 HOH HOH . I 5 HOH A 11 411 19 HOH HOH . I 5 HOH A 12 412 9 HOH HOH . I 5 HOH A 13 413 4 HOH HOH . I 5 HOH A 14 414 16 HOH HOH . I 5 HOH A 15 415 12 HOH HOH . I 5 HOH A 16 416 22 HOH HOH . I 5 HOH A 17 417 15 HOH HOH . I 5 HOH A 18 418 24 HOH HOH . I 5 HOH A 19 419 10 HOH HOH . I 5 HOH A 20 420 28 HOH HOH . I 5 HOH A 21 421 6 HOH HOH . I 5 HOH A 22 422 7 HOH HOH . I 5 HOH A 23 423 21 HOH HOH . I 5 HOH A 24 424 25 HOH HOH . I 5 HOH A 25 425 8 HOH HOH . I 5 HOH A 26 426 3 HOH HOH . I 5 HOH A 27 427 5 HOH HOH . I 5 HOH A 28 428 17 HOH HOH . J 5 HOH B 1 101 14 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' BNG . . . F 3 -3.657 -3.451 -59.257 1 86.42 ? C1' BNG 304 A 1 HETATM 2 C C2' BNG . . . F 3 -4.177 -4.03 -57.947 1 90.61 ? C2' BNG 304 A 1 HETATM 3 C C3' BNG . . . F 3 -3.67 -3.227 -56.753 1 88.54 ? C3' BNG 304 A 1 HETATM 4 C C4' BNG . . . F 3 -4.137 -3.835 -55.432 1 92.75 ? C4' BNG 304 A 1 HETATM 5 C C5' BNG . . . F 3 -3.223 -3.417 -54.283 1 89.18 ? C5' BNG 304 A 1 HETATM 6 C C6' BNG . . . F 3 -3.717 -3.94 -52.935 1 88.36 ? C6' BNG 304 A 1 HETATM 7 C C7' BNG . . . F 3 -3.432 -2.945 -51.809 1 82.17 ? C7' BNG 304 A 1 HETATM 8 C C8' BNG . . . F 3 -3.623 -3.567 -50.425 1 79.05 ? C8' BNG 304 A 1 HETATM 9 C C9' BNG . . . F 3 -3.136 -2.666 -49.307 1 76.21 ? C9' BNG 304 A 1 # _model_server_stats.io_time_ms 78 _model_server_stats.parse_time_ms 111 _model_server_stats.create_model_time_ms 40 _model_server_stats.query_time_ms 367 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 9 #