data_4PD9 # _model_server_result.job_id kd06nnAvDvtbq6Spmf5oRg _model_server_result.datetime_utc '2025-02-17 11:35:11' _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 4pd9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":503}' # _entry.id 4PD9 # _exptl.entry_id 4PD9 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 482.562 _entity.id 4 _entity.src_method man _entity.type non-polymer _entity.pdbx_description DECYL-BETA-D-MALTOPYRANOSIDE _entity.pdbx_number_of_molecules 1 _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 4PD9 _cell.length_a 120.001 _cell.length_b 120.001 _cell.length_c 83.488 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4PD9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 173 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 63' # _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 # 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_545 -y,x-y-1,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 60.0005 -103.923914 0 3 'crystal symmetry operation' 3_655 -x+y+1,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 120.001 0 0 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 ASN 155 A ASN 149 1_555 C NA NA . A NA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.452 ? metalc ? metalc2 A OD1 ASN 155 A ASN 149 1_555 C NA NA . A NA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.469 ? metalc ? metalc3 A O VAL 158 A VAL 152 1_555 C NA NA . A NA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.474 ? metalc ? metalc4 A OG SER 189 A SER 183 1_555 C NA NA . A NA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.422 ? metalc ? metalc5 A O ILE 190 A ILE 184 1_555 C NA NA . A NA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.462 ? metalc ? metalc6 C NA NA . A NA 502 1_555 E O HOH . A HOH 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.392 ? # _chem_comp.formula 'C22 H42 O11' _chem_comp.formula_weight 482.562 _chem_comp.id DMU _chem_comp.mon_nstd_flag . _chem_comp.name DECYL-BETA-D-MALTOPYRANOSIDE _chem_comp.type d-saccharide _chem_comp.pdbx_synonyms DECYLMALTOSIDE # 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 C40 C37 DMU sing 117 n n C40 C43 DMU sing 118 n n C37 C34 DMU sing 119 n n C34 C31 DMU sing 120 n n C31 C28 DMU sing 121 n n C28 C25 DMU sing 122 n n C22 C25 DMU sing 123 n n C22 C19 DMU sing 124 n n O61 C57 DMU sing 125 n n O4 C7 DMU sing 126 n n C18 C19 DMU sing 127 n n C18 O16 DMU sing 128 n n O5 C6 DMU sing 129 n n O5 C4 DMU sing 130 n n C57 C4 DMU sing 131 n n C6 O16 DMU sing 132 n n C6 C1 DMU sing 133 n n C7 C5 DMU sing 134 n n C7 C8 DMU sing 135 n n C4 C3 DMU sing 136 n n O1 C10 DMU sing 137 n n O1 C9 DMU sing 138 n n C10 C5 DMU sing 139 n n C10 O7 DMU sing 140 n n C5 O3 DMU sing 141 n n O49 C1 DMU sing 142 n n C8 C9 DMU sing 143 n n C8 O2 DMU sing 144 n n C1 C2 DMU sing 145 n n C11 C9 DMU sing 146 n n C11 O6 DMU sing 147 n n C3 O7 DMU sing 148 n n C3 C2 DMU sing 149 n n C2 O55 DMU sing 150 n n C1 H1 DMU sing 151 n n C2 H2 DMU sing 152 n n C3 H3 DMU sing 153 n n C4 H4 DMU sing 154 n n C6 H5 DMU sing 155 n n C18 H6 DMU sing 156 n n C18 H7 DMU sing 157 n n C19 H8 DMU sing 158 n n C19 H9 DMU sing 159 n n C22 H10 DMU sing 160 n n C22 H11 DMU sing 161 n n C25 H12 DMU sing 162 n n C25 H13 DMU sing 163 n n C28 H14 DMU sing 164 n n C28 H15 DMU sing 165 n n C31 H16 DMU sing 166 n n C31 H17 DMU sing 167 n n C34 H18 DMU sing 168 n n C34 H19 DMU sing 169 n n C37 H20 DMU sing 170 n n C37 H21 DMU sing 171 n n C40 H22 DMU sing 172 n n C40 H23 DMU sing 173 n n C43 H24 DMU sing 174 n n C43 H25 DMU sing 175 n n C43 H26 DMU sing 176 n n O49 H27 DMU sing 177 n n O55 H28 DMU sing 178 n n C57 H29 DMU sing 179 n n C57 H30 DMU sing 180 n n O61 H31 DMU sing 181 n n C5 H32 DMU sing 182 n n C7 H33 DMU sing 183 n n C8 H34 DMU sing 184 n n C9 H35 DMU sing 185 n n C10 H36 DMU sing 186 n n O2 H37 DMU sing 187 n n O3 H38 DMU sing 188 n n O4 H39 DMU sing 189 n n C11 H40 DMU sing 190 n n C11 H41 DMU sing 191 n n O6 H42 DMU sing 192 n n # _atom_sites.entry_id 4PD9 _atom_sites.fract_transf_matrix[1][1] 0.008333 _atom_sites.fract_transf_matrix[1][2] 0.004811 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009622 _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] 0.011978 _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 B 2 ADN A 1 501 1 ADN Ar . C 3 NA A 1 502 1 NA NA . D 4 DMU A 1 503 503 DMU DMU . E 5 HOH A 1 601 1 HOH HOH . E 5 HOH A 2 602 2 HOH HOH . E 5 HOH A 3 603 1 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 DMU . . . D 4 64.12 -7.103 -13.106 1 89.01 ? C1 DMU 503 A 1 HETATM 2 C C2 DMU . . . D 4 63.543 -7.175 -14.471 1 89.01 ? C2 DMU 503 A 1 HETATM 3 C C3 DMU . . . D 4 62.365 -7.992 -14.586 1 89.01 ? C3 DMU 503 A 1 HETATM 4 C C4 DMU . . . D 4 61.366 -7.775 -13.503 1 89.01 ? C4 DMU 503 A 1 HETATM 5 O O5 DMU . . . D 4 61.987 -7.711 -12.13 1 89.01 ? O5 DMU 503 A 1 HETATM 6 C C6 DMU . . . D 4 63.102 -6.872 -12.019 1 89.01 ? C6 DMU 503 A 1 HETATM 7 O O7 DMU . . . D 4 61.722 -7.696 -15.876 1 89.01 ? O7 DMU 503 A 1 HETATM 8 O O16 DMU . . . D 4 63.664 -7.038 -10.741 1 89.01 ? O16 DMU 503 A 1 HETATM 9 C C18 DMU . . . D 4 62.945 -6.608 -9.572 1 89.01 ? C18 DMU 503 A 1 HETATM 10 C C19 DMU . . . D 4 63.212 -7.328 -8.278 1 89.01 ? C19 DMU 503 A 1 HETATM 11 C C22 DMU . . . D 4 63.268 -6.534 -6.976 1 89.01 ? C22 DMU 503 A 1 HETATM 12 C C25 DMU . . . D 4 63.873 -7.232 -5.751 1 89.01 ? C25 DMU 503 A 1 HETATM 13 C C28 DMU . . . D 4 63.675 -6.626 -4.373 1 89.01 ? C28 DMU 503 A 1 HETATM 14 C C31 DMU . . . D 4 64.514 -7.215 -3.218 1 89.01 ? C31 DMU 503 A 1 HETATM 15 C C34 DMU . . . D 4 63.853 -7.427 -1.88 1 89.01 ? C34 DMU 503 A 1 HETATM 16 C C37 DMU . . . D 4 64.252 -8.679 -1.053 1 89.01 ? C37 DMU 503 A 1 HETATM 17 C C40 DMU . . . D 4 63.314 -9.115 0.021 1 89.01 ? C40 DMU 503 A 1 HETATM 18 C C43 DMU . . . D 4 63.268 -10.582 0.359 1 89.01 ? C43 DMU 503 A 1 HETATM 19 O O49 DMU . . . D 4 65.095 -6.083 -13.102 1 89.01 ? O49 DMU 503 A 1 HETATM 20 O O55 DMU . . . D 4 64.582 -7.634 -15.382 1 89.01 ? O55 DMU 503 A 1 HETATM 21 C C57 DMU . . . D 4 60.254 -8.746 -13.524 1 89.01 ? C57 DMU 503 A 1 HETATM 22 O O61 DMU . . . D 4 60.537 -10.082 -13.721 1 89.01 ? O61 DMU 503 A 1 HETATM 23 C C5 DMU . . . D 4 62.222 -8.349 -18.064 1 89.01 ? C5 DMU 503 A 1 HETATM 24 C C7 DMU . . . D 4 61.372 -7.26 -18.618 1 89.01 ? C7 DMU 503 A 1 HETATM 25 C C8 DMU . . . D 4 59.98 -7.594 -18.635 1 89.01 ? C8 DMU 503 A 1 HETATM 26 C C9 DMU . . . D 4 59.517 -8.185 -17.335 1 89.01 ? C9 DMU 503 A 1 HETATM 27 O O1 DMU . . . D 4 60.402 -9.275 -16.848 1 89.01 ? O1 DMU 503 A 1 HETATM 28 C C10 DMU . . . D 4 61.714 -8.805 -16.737 1 89.01 ? C10 DMU 503 A 1 HETATM 29 O O2 DMU . . . D 4 59.148 -6.432 -18.916 1 89.01 ? O2 DMU 503 A 1 HETATM 30 O O3 DMU . . . D 4 63.547 -7.945 -17.911 1 89.01 ? O3 DMU 503 A 1 HETATM 31 O O4 DMU . . . D 4 61.856 -6.921 -19.949 1 89.01 ? O4 DMU 503 A 1 HETATM 32 C C11 DMU . . . D 4 58.126 -8.659 -17.439 1 89.01 ? C11 DMU 503 A 1 HETATM 33 O O6 DMU . . . D 4 57.668 -9.593 -16.557 1 89.01 ? O6 DMU 503 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 309 _model_server_stats.encode_time_ms 13 _model_server_stats.element_count 33 #