data_4HMK # _model_server_result.job_id JYolEnwmdV_xe3w1qZAqaw _model_server_result.datetime_utc '2025-07-04 14:35:53' _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 4hmk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"X","auth_seq_id":608}' # _entry.id 4HMK # _exptl.entry_id 4HMK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 292.369 _entity.id 5 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 'octyl beta-D-glucopyranoside' _entity.pdbx_number_of_molecules 9 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 94.25 _cell.angle_gamma 90 _cell.entry_id 4HMK _cell.length_a 84.14 _cell.length_b 92.32 _cell.length_c 87.21 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4HMK _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 PISA dimeric 2 software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,E,F,G,H,I,J,K,L,M,N,O,P,CA 1 1 B,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,DA 2 1 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 3 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 ? 5 H N N ? 5 I N N ? 5 J N N ? 5 K N N ? 5 L N N ? 5 Q N N ? 5 R N N ? 5 X N N ? 5 Y 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 metalc ? metalc1 A O GLY 20 A GLY 20 1_555 D NA NA . A NA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.737 ? metalc ? metalc2 A O ALA 22 A ALA 22 1_555 E NA NA . A NA 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.078 ? metalc ? metalc3 A O VAL 23 A VAL 23 1_555 D NA NA . A NA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.715 ? metalc ? metalc4 A OD1 ASN 27 A ASN 27 1_555 E NA NA . A NA 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.973 ? metalc ? metalc5 A O THR 254 A THR 254 1_555 E NA NA . A NA 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.996 ? metalc ? metalc6 A OG1 THR 254 A THR 254 1_555 E NA NA . A NA 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.066 ? metalc ? metalc7 A OD1 ASN 286 A ASN 286 1_555 E NA NA . A NA 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.114 ? metalc ? metalc8 A O ALA 351 A ALA 351 1_555 D NA NA . A NA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.842 ? metalc ? metalc9 A OG1 THR 354 A THR 354 1_555 D NA NA . A NA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.949 ? metalc ? metalc10 C OXT LEU . A LEU 601 1_555 E NA NA . A NA 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.937 ? metalc ? metalc11 B O GLY 20 B GLY 20 1_555 T NA NA . B NA 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.741 ? metalc ? metalc12 B O ALA 22 B ALA 22 1_555 U NA NA . B NA 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.125 ? metalc ? metalc13 B O VAL 23 B VAL 23 1_555 T NA NA . B NA 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.741 ? metalc ? metalc14 B OD1 ASN 27 B ASN 27 1_555 U NA NA . B NA 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.965 ? metalc ? metalc15 B O THR 254 B THR 254 1_555 U NA NA . B NA 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.97 ? metalc ? metalc16 B OG1 THR 254 B THR 254 1_555 U NA NA . B NA 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.082 ? metalc ? metalc17 B OD1 ASN 286 B ASN 286 1_555 U NA NA . B NA 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.159 ? metalc ? metalc18 B O ALA 351 B ALA 351 1_555 T NA NA . B NA 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.821 ? metalc ? metalc19 B OG1 THR 354 B THR 354 1_555 T NA NA . B NA 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.924 ? metalc ? metalc20 S OXT LEU . B LEU 603 1_555 U NA NA . B NA 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.003 ? # _chem_comp.formula 'C14 H28 O6' _chem_comp.formula_weight 292.369 _chem_comp.id BOG _chem_comp.mon_nstd_flag n _chem_comp.name 'octyl beta-D-glucopyranoside' _chem_comp.type d-saccharide _chem_comp.pdbx_synonyms 'Beta-Octylglucoside;octyl beta-D-glucoside;octyl D-glucoside;octyl 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 O1 BOG sing 70 n n C1 C2 BOG sing 71 n n C1 O5 BOG sing 72 n n C1 H1 BOG sing 73 n n O1 C1' BOG sing 74 n n C2 O2 BOG sing 75 n n C2 C3 BOG sing 76 n n C2 H2 BOG sing 77 n n O2 HO2 BOG sing 78 n n C3 O3 BOG sing 79 n n C3 C4 BOG sing 80 n n C3 H3 BOG sing 81 n n O3 HO3 BOG sing 82 n n C4 O4 BOG sing 83 n n C4 C5 BOG sing 84 n n C4 H4 BOG sing 85 n n O4 HO4 BOG sing 86 n n C5 O5 BOG sing 87 n n C5 C6 BOG sing 88 n n C5 H5 BOG sing 89 n n C6 O6 BOG sing 90 n n C6 H61 BOG sing 91 n n C6 H62 BOG sing 92 n n O6 HO6 BOG sing 93 n n C1' C2' BOG sing 94 n n C1' "H1'1" BOG sing 95 n n C1' "H1'2" BOG sing 96 n n C2' C3' BOG sing 97 n n C2' "H2'1" BOG sing 98 n n C2' "H2'2" BOG sing 99 n n C3' C4' BOG sing 100 n n C3' "H3'1" BOG sing 101 n n C3' "H3'2" BOG sing 102 n n C4' C5' BOG sing 103 n n C4' "H4'1" BOG sing 104 n n C4' "H4'2" BOG sing 105 n n C5' C6' BOG sing 106 n n C5' "H5'1" BOG sing 107 n n C5' "H5'2" BOG sing 108 n n C6' C7' BOG sing 109 n n C6' "H6'1" BOG sing 110 n n C6' "H6'2" BOG sing 111 n n C7' C8' BOG sing 112 n n C7' "H7'1" BOG sing 113 n n C7' "H7'2" BOG sing 114 n n C8' "H8'1" BOG sing 115 n n C8' "H8'2" BOG sing 116 n n C8' "H8'3" BOG sing 117 n n # _pdbx_chem_comp_identifier.comp_id BOG _pdbx_chem_comp_identifier.identifier b-octylglucoside _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 4HMK _atom_sites.fract_transf_matrix[1][1] 0.011885 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000883 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010832 _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] 0.011498 _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 LEU A 1 601 601 LEU LEU . D 3 NA A 1 602 751 NA NA . E 3 NA A 1 603 752 NA NA . F 4 BR A 1 604 753 BR BR . G 4 BR A 1 605 754 BR BR . H 5 BOG A 1 606 702 BOG BOG . I 5 BOG A 1 607 703 BOG BOG . J 5 BOG A 1 608 704 BOG BOG . K 5 BOG A 1 609 706 BOG BOG . L 5 BOG A 1 610 708 BOG BOG . M 4 BR A 1 611 755 BR BR . N 4 BR A 1 612 757 BR BR . O 4 BR A 1 613 758 BR BR . P 4 BR A 1 614 759 BR BR . Q 5 BOG B 1 601 705 BOG BOG . R 5 BOG B 1 602 707 BOG BOG . S 2 LEU B 1 603 601 LEU LEU . T 3 NA B 1 604 751 NA NA . U 3 NA B 1 605 752 NA NA . V 4 BR B 1 606 753 BR BR . W 4 BR B 1 607 754 BR BR . X 5 BOG B 1 608 703 BOG BOG . Y 5 BOG B 1 609 704 BOG BOG . Z 4 BR B 1 610 755 BR BR . AA 4 BR B 1 611 756 BR BR . BA 4 BR B 1 612 757 BR BR . CA 6 HOH A 1 701 1 HOH HOH . CA 6 HOH A 2 702 2 HOH HOH . CA 6 HOH A 3 703 3 HOH HOH . CA 6 HOH A 4 704 4 HOH HOH . CA 6 HOH A 5 705 5 HOH HOH . CA 6 HOH A 6 706 6 HOH HOH . CA 6 HOH A 7 707 7 HOH HOH . DA 6 HOH B 1 701 1 HOH HOH . DA 6 HOH B 2 702 2 HOH HOH . DA 6 HOH B 3 703 3 HOH HOH . DA 6 HOH B 4 704 4 HOH HOH . DA 6 HOH B 5 705 5 HOH HOH . DA 6 HOH B 6 706 6 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 BOG . . . X 5 -52.29 23.303 -11.215 0.68 72.59 ? C1 BOG 608 B 1 HETATM 2 O O1 BOG . . . X 5 -51.006 22.874 -11.218 0.68 65.7 ? O1 BOG 608 B 1 HETATM 3 C C2 BOG . . . X 5 -52.442 24.377 -10.197 0.68 78.28 ? C2 BOG 608 B 1 HETATM 4 O O2 BOG . . . X 5 -52.162 23.904 -8.879 0.68 72.01 ? O2 BOG 608 B 1 HETATM 5 C C3 BOG . . . X 5 -53.767 24.974 -10.268 0.68 75 ? C3 BOG 608 B 1 HETATM 6 O O3 BOG . . . X 5 -53.992 25.906 -9.213 0.68 81.31 ? O3 BOG 608 B 1 HETATM 7 C C4 BOG . . . X 5 -53.882 25.628 -11.588 0.68 61.18 ? C4 BOG 608 B 1 HETATM 8 O O4 BOG . . . X 5 -55.043 26.408 -11.685 0.68 66.36 ? O4 BOG 608 B 1 HETATM 9 C C5 BOG . . . X 5 -53.865 24.556 -12.639 0.68 60.22 ? C5 BOG 608 B 1 HETATM 10 O O5 BOG . . . X 5 -52.658 23.799 -12.601 0.68 71.19 ? O5 BOG 608 B 1 HETATM 11 C C6 BOG . . . X 5 -54.028 25.211 -13.952 0.68 61.06 ? C6 BOG 608 B 1 HETATM 12 O O6 BOG . . . X 5 -53.542 26.497 -14.032 0.68 59.49 ? O6 BOG 608 B 1 HETATM 13 C C1' BOG . . . X 5 -50.622 21.634 -11.78 0.68 55.42 ? C1' BOG 608 B 1 HETATM 14 C C2' BOG . . . X 5 -49.144 21.253 -11.584 0.68 58.21 ? C2' BOG 608 B 1 HETATM 15 C C3' BOG . . . X 5 -48.576 20.003 -12.281 0.68 54.22 ? C3' BOG 608 B 1 HETATM 16 C C4' BOG . . . X 5 -47.045 19.863 -12.365 0.68 67.88 ? C4' BOG 608 B 1 HETATM 17 C C5' BOG . . . X 5 -46.471 18.588 -12.998 0.68 53.4 ? C5' BOG 608 B 1 HETATM 18 C C6' BOG . . . X 5 -47.213 17.297 -12.682 0.68 36.35 ? C6' BOG 608 B 1 HETATM 19 C C7' BOG . . . X 5 -46.86 16.047 -13.44 0.68 38.13 ? C7' BOG 608 B 1 HETATM 20 C C8' BOG . . . X 5 -47.273 14.743 -12.812 0.68 28.66 ? C8' BOG 608 B 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 20 _model_server_stats.query_time_ms 243 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 20 #