data_1HZX # _model_server_result.job_id ve0-TasUKSIqSOdUC_x1Dw _model_server_result.datetime_utc '2024-11-23 14:51:52' _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 1hzx # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":1503}' # _entry.id 1HZX # _exptl.entry_id 1HZX _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 306.395 _entity.id 5 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 'nonyl beta-D-glucopyranoside' _entity.pdbx_number_of_molecules 7 _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 1HZX _cell.length_a 97.246 _cell.length_b 97.246 _cell.length_c 149.544 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1HZX _symmetry.cell_setting ? _symmetry.Int_Tables_number 76 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 41' # 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 PISA dimeric 2 software_defined_assembly 3 PISA,PQS dimeric 2 software_defined_assembly 4 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,LA 1 1 B,E,F,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA,MA 2 1 A,C,D,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,LA 3 1 B,E,F,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA,MA 3 2 A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA 4 1 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_654 -x+1,-y,z-1/2 -1 0 0 0 -1 0 0 0 1 97.246 0 -74.772 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 5 G N N ? 5 H N N ? 5 I N N ? 5 J N N ? 5 K N N ? 5 Z N N ? 5 AA N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 2 oligosaccharide 3 oligosaccharide 4 oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 2 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 2 3 2 MAN NAG C1 O1 . O4 HO4 . sing 3 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 4 ? 4 2 1 NAG NAG C1 O1 . O4 HO4 . sing 5 ? 4 3 2 BMA NAG C1 O1 . O4 HO4 . sing 6 ? 4 4 3 BMA BMA C1 O1 . O3 HO3 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n C NAG 1 C 1 NAG C 505 NAG 2 n C NAG 2 C 2 NAG C 504 NAG 2 n C MAN 3 C 3 MAN C 503 MAN 3 n D NAG 1 D 1 NAG E 705 NAG 3 n D NAG 2 D 2 NAG E 704 NAG 4 n E NAG 1 E 1 NAG D 605 NAG 4 n E NAG 2 E 2 NAG D 604 NAG 4 n E BMA 3 E 3 BMA D 603 MAN 4 n E BMA 4 E 4 BMA D 602 MAN 3 n F NAG 1 F 1 NAG F 805 NAG 3 n F NAG 2 F 2 NAG F 804 NAG # 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 A SG CYS 111 A CYS 110 1_555 A SG CYS 188 A CYS 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf2 B SG CYS 111 B CYS 110 1_555 B SG CYS 188 B CYS 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? covale ? covale1 A C ACE 1 A ACE 0 1_555 A N MET 2 A MET 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale2 A ND2 ASN 3 A ASN 2 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale3 A ND2 ASN 16 A ASN 15 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale4 A NZ LYS 297 A LYS 296 1_555 U C15 RET . A RET 1296 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.352 ? covale ? covale5 A SG CYS 323 A CYS 322 1_555 S C1 PLM . A PLM 1322 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.859 ? covale ? covale6 A SG CYS 324 A CYS 323 1_555 T C1 PLM . A PLM 1323 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.839 ? covale ? covale7 B C ACE 1 B ACE 0 1_555 B N MET 2 B MET 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale8 B ND2 ASN 3 B ASN 2 1_555 F C1 NAG . F NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale9 B ND2 ASN 16 B ASN 15 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale10 B NZ LYS 297 B LYS 296 1_555 IA C15 RET . B RET 1296 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.364 ? covale ? covale11 B SG CYS 323 B CYS 322 1_555 HA C1 PLM . B PLM 1322 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.867 ? covale ? covale12 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.389 ? covale ? covale13 C O4 NAG . C NAG 2 1_555 C C1 MAN . C MAN 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.385 ? covale ? covale14 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.377 ? covale ? covale15 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.377 ? covale ? covale16 E O4 NAG . E NAG 2 1_555 E C1 BMA . E BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.393 ? covale ? covale17 E O3 BMA . E BMA 3 1_555 E C1 BMA . E BMA 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.41 ? covale ? covale18 F O4 NAG . F NAG 1 1_555 F C1 NAG . F NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.393 ? metalc ? metalc1 A OE2 GLU 202 A GLU 201 1_555 O ZN ZN . A ZN 957 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.115 ? metalc ? metalc2 A ND1 HIS 212 A HIS 211 1_555 Q ZN ZN . A ZN 962 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.223 ? metalc ? metalc3 A NE2 GLN 280 A GLN 279 1_555 O ZN ZN . A ZN 957 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.987 ? metalc ? metalc4 B ND1 HIS 212 B HIS 211 1_555 GA ZN ZN . B ZN 963 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.15 ? # _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 100 n n C1 O1 BNG sing 101 n n C1 O5 BNG sing 102 n n C1 H1 BNG sing 103 n n C2 C3 BNG sing 104 n n C2 O2 BNG sing 105 n n C2 H2 BNG sing 106 n n C3 C4 BNG sing 107 n n C3 O3 BNG sing 108 n n C3 H3 BNG sing 109 n n C4 C5 BNG sing 110 n n C4 O4 BNG sing 111 n n C4 H4 BNG sing 112 n n C5 C6 BNG sing 113 n n C5 O5 BNG sing 114 n n C5 H5 BNG sing 115 n n C6 O6 BNG sing 116 n n C6 H61 BNG sing 117 n n C6 H62 BNG sing 118 n n C1' C2' BNG sing 119 n n C1' O1 BNG sing 120 n n C1' "H1'1" BNG sing 121 n n C1' "H1'2" BNG sing 122 n n C2' C3' BNG sing 123 n n C2' "H2'1" BNG sing 124 n n C2' "H2'2" BNG sing 125 n n C3' C4' BNG sing 126 n n C3' "H3'1" BNG sing 127 n n C3' "H3'2" BNG sing 128 n n C4' C5' BNG sing 129 n n C4' "H4'1" BNG sing 130 n n C4' "H4'2" BNG sing 131 n n C5' C6' BNG sing 132 n n C5' "H5'1" BNG sing 133 n n C5' "H5'2" BNG sing 134 n n C6' C7' BNG sing 135 n n C6' "H6'1" BNG sing 136 n n C6' "H6'2" BNG sing 137 n n C7' C8' BNG sing 138 n n C7' "H7'1" BNG sing 139 n n C7' "H7'2" BNG sing 140 n n C8' C9' BNG sing 141 n n C8' "H8'1" BNG sing 142 n n C8' "H8'2" BNG sing 143 n n C9' "H9'1" BNG sing 144 n n C9' "H9'2" BNG sing 145 n n C9' "H9'3" BNG sing 146 n n O2 HO2 BNG sing 147 n n O3 HO3 BNG sing 148 n n O4 HO4 BNG sing 149 n n O6 HO6 BNG sing 150 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 1HZX _atom_sites.fract_transf_matrix[1][1] 0.010283 _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] 0.010283 _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] 0.006687 _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 G 5 BNG A 1 1500 1500 BNG BNG . H 5 BNG A 1 1501 1501 BNG BNG . I 5 BNG A 1 1503 1503 BNG BNG . J 5 BNG A 1 1504 1504 BNG BNG . K 5 BNG A 1 1505 1505 BNG BNG . L 6 HG A 1 901 901 HG HG . M 6 HG A 1 903 903 HG HG . N 6 HG A 1 905 905 HG HG . O 7 ZN A 1 957 957 ZN ZN . P 7 ZN A 1 959 959 ZN ZN . Q 7 ZN A 1 962 962 ZN ZN . R 7 ZN A 1 964 964 ZN ZN . S 8 PLM A 1 1322 1322 PLM PLY . T 8 PLM A 1 1323 1323 PLM PLY . U 9 RET A 1 1296 1296 RET RET . V 10 HTO A 1 1400 1400 HTO HTO . W 10 HTO A 1 1403 1403 HTO HTO . X 10 HTO A 1 1404 1404 HTO HTO . Y 10 HTO A 1 1405 1405 HTO HTO . Z 5 BNG B 1 1502 1502 BNG BNG . AA 5 BNG B 1 1506 1506 BNG BNG . BA 6 HG B 1 902 902 HG HG . CA 6 HG B 1 904 904 HG HG . DA 6 HG B 1 906 906 HG HG . EA 7 ZN B 1 956 956 ZN ZN . FA 7 ZN B 1 958 958 ZN ZN . GA 7 ZN B 1 963 963 ZN ZN . HA 8 PLM B 1 1322 1322 PLM PLY . IA 9 RET B 1 1296 1296 RET RET . JA 10 HTO B 1 1401 1401 HTO HTO . KA 10 HTO B 1 1406 1406 HTO HTO . LA 11 HOH A 1 2000 2000 HOH HOH . LA 11 HOH A 2 2002 2002 HOH HOH . LA 11 HOH A 3 2004 2004 HOH HOH . LA 11 HOH A 4 2007 2007 HOH HOH . LA 11 HOH A 5 2010 2010 HOH HOH . LA 11 HOH A 6 2011 2011 HOH HOH . LA 11 HOH A 7 2014 2014 HOH HOH . MA 11 HOH B 1 2005 2005 HOH HOH . MA 11 HOH B 2 2008 2008 HOH HOH . MA 11 HOH B 3 2009 2009 HOH HOH . MA 11 HOH B 4 2012 2012 HOH HOH . MA 11 HOH B 5 2013 2013 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 . . . I 5 52.049 -8.542 -12.498 1 76.85 ? C1 BNG 1503 A 1 HETATM 2 C C2 BNG . . . I 5 52.024 -10.1 -12.573 1 78.44 ? C2 BNG 1503 A 1 HETATM 3 C C3 BNG . . . I 5 51.193 -10.543 -13.813 1 79.82 ? C3 BNG 1503 A 1 HETATM 4 C C4 BNG . . . I 5 49.749 -9.992 -13.677 1 79.51 ? C4 BNG 1503 A 1 HETATM 5 C C5 BNG . . . I 5 49.789 -8.425 -13.565 1 77.86 ? C5 BNG 1503 A 1 HETATM 6 C C6 BNG . . . I 5 48.37 -7.855 -13.38 1 76.92 ? C6 BNG 1503 A 1 HETATM 7 C C1' BNG . . . I 5 52.968 -6.698 -11.209 1 71.33 ? C1' BNG 1503 A 1 HETATM 8 C C2' BNG . . . I 5 53.847 -6.424 -10.002 1 68.23 ? C2' BNG 1503 A 1 HETATM 9 C C3' BNG . . . I 5 55.035 -5.539 -10.361 1 65.86 ? C3' BNG 1503 A 1 HETATM 10 C C4' BNG . . . I 5 55.136 -4.332 -9.44 1 63.59 ? C4' BNG 1503 A 1 HETATM 11 C C5' BNG . . . I 5 56.379 -4.394 -8.564 1 61.89 ? C5' BNG 1503 A 1 HETATM 12 C C6' BNG . . . I 5 56.072 -3.887 -7.166 1 60.71 ? C6' BNG 1503 A 1 HETATM 13 C C7' BNG . . . I 5 57.046 -2.815 -6.73 1 60.42 ? C7' BNG 1503 A 1 HETATM 14 C C8' BNG . . . I 5 57.731 -3.215 -5.441 1 59.98 ? C8' BNG 1503 A 1 HETATM 15 C C9' BNG . . . I 5 59.227 -3.327 -5.645 1 59.1 ? C9' BNG 1503 A 1 HETATM 16 O O1 BNG . . . I 5 52.83 -8.125 -11.357 1 73.82 ? O1 BNG 1503 A 1 HETATM 17 O O2 BNG . . . I 5 53.35 -10.597 -12.66 1 79.01 ? O2 BNG 1503 A 1 HETATM 18 O O3 BNG . . . I 5 51.175 -11.958 -13.91 1 80.99 ? O3 BNG 1503 A 1 HETATM 19 O O4 BNG . . . I 5 48.958 -10.387 -14.801 1 80.42 ? O4 BNG 1503 A 1 HETATM 20 O O5 BNG . . . I 5 50.639 -8.048 -12.418 1 76.97 ? O5 BNG 1503 A 1 HETATM 21 O O6 BNG . . . I 5 48.326 -6.466 -13.678 1 75.38 ? O6 BNG 1503 A 1 # _model_server_stats.io_time_ms 116 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 280 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 21 #