data_5MX7 # _model_server_result.job_id 4JPfR3a0EnvPEKUSb6oPZA _model_server_result.datetime_utc '2024-11-22 16:06:31' _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 5mx7 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":4000}' # _entry.id 5MX7 # _exptl.entry_id 5MX7 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 416.636 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '1a,20S-dihydroxyvitamin D3' _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 5MX7 _cell.length_a 65.936 _cell.length_b 65.936 _cell.length_c 262.97 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5MX7 _symmetry.cell_setting ? _symmetry.Int_Tables_number 179 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 # 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' 12_564 x,x-y+1,-z-1/6 0.5 0.866025 0 0.866025 -0.5 0 0 0 -1 -32.968 57.102251 -43.828333 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C27 H44 O3' _chem_comp.formula_weight 416.636 _chem_comp.id D3V _chem_comp.mon_nstd_flag . _chem_comp.name '1a,20S-dihydroxyvitamin D3' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 C11 C9 D3V sing 83 n n C9 C10 D3V sing 84 n n C9 C8 D3V sing 85 n n C8 C7 D3V sing 86 n n C7 C6 D3V sing 87 n n C6 C4 D3V sing 88 n n O C4 D3V sing 89 n n C13 C12 D3V sing 90 n n C26 C25 D3V doub 91 n n C15 C14 D3V sing 92 n n C15 C16 D3V sing 93 n n C14 C12 D3V sing 94 n n C4 C5 D3V sing 95 n n C4 C3 D3V sing 96 n n C12 C3 D3V sing 97 n n C12 C D3V sing 98 n n C23 C22 D3V sing 99 n n C23 C24 D3V sing 100 n n C25 C20 D3V sing 101 n n C25 C24 D3V sing 102 n n O2 C24 D3V sing 103 n n C21 C20 D3V sing 104 n n C21 C22 D3V sing 105 n n C20 C19 D3V doub 106 z n C3 C2 D3V sing 107 n n C22 O1 D3V sing 108 n n C19 C18 D3V sing 109 n n C16 C17 D3V sing 110 n n C18 C17 D3V doub 111 e n C17 C D3V sing 112 n n C C1 D3V sing 113 n n C2 C1 D3V sing 114 n n C5 H9 D3V sing 115 n n C5 H8 D3V sing 116 n n C5 H10 D3V sing 117 n n C6 H12 D3V sing 118 n n C6 H13 D3V sing 119 n n C7 H15 D3V sing 120 n n C7 H14 D3V sing 121 n n C8 H16 D3V sing 122 n n C8 H17 D3V sing 123 n n C9 H18 D3V sing 124 n n C10 H20 D3V sing 125 n n C10 H21 D3V sing 126 n n C10 H19 D3V sing 127 n n C11 H23 D3V sing 128 n n C11 H22 D3V sing 129 n n C11 H24 D3V sing 130 n n C13 H26 D3V sing 131 n n C13 H27 D3V sing 132 n n C13 H25 D3V sing 133 n n C14 H28 D3V sing 134 n n C14 H29 D3V sing 135 n n C15 H30 D3V sing 136 n n C15 H31 D3V sing 137 n n O2 H41 D3V sing 138 n n C24 H3 D3V sing 139 n n C23 H39 D3V sing 140 n n C23 H40 D3V sing 141 n n C22 H2 D3V sing 142 n n O1 H38 D3V sing 143 n n C21 H37 D3V sing 144 n n C21 H36 D3V sing 145 n n C26 H42 D3V sing 146 n n C26 H43 D3V sing 147 n n C19 H35 D3V sing 148 n n C18 H34 D3V sing 149 n n C H D3V sing 150 n n C16 H32 D3V sing 151 n n C16 H33 D3V sing 152 n n C3 H1 D3V sing 153 n n C2 H6 D3V sing 154 n n C2 H7 D3V sing 155 n n C1 H5 D3V sing 156 n n C1 H4 D3V sing 157 n n O H11 D3V sing 158 n n # _atom_sites.entry_id 5MX7 _atom_sites.fract_transf_matrix[1][1] 0.015166 _atom_sites.fract_transf_matrix[1][2] 0.008756 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.017512 _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] 0.003803 _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 D3V A1 1 4000 4000 D3V XXX . D 4 HOH A1 1 4101 11 HOH HOH . D 4 HOH A1 2 4102 13 HOH HOH . D 4 HOH A1 3 4103 3 HOH HOH . D 4 HOH A1 4 4104 7 HOH HOH . D 4 HOH A1 5 4105 24 HOH HOH . D 4 HOH A1 6 4106 14 HOH HOH . D 4 HOH A1 7 4107 1 HOH HOH . D 4 HOH A1 8 4108 6 HOH HOH . D 4 HOH A1 9 4109 4 HOH HOH . D 4 HOH A1 10 4110 5 HOH HOH . D 4 HOH A1 11 4111 28 HOH HOH . D 4 HOH A1 12 4112 16 HOH HOH . D 4 HOH A1 13 4113 2 HOH HOH . D 4 HOH A1 14 4114 2 HOH HOH . D 4 HOH A1 15 4115 10 HOH HOH . D 4 HOH A1 16 4116 15 HOH HOH . D 4 HOH A1 17 4117 25 HOH HOH . D 4 HOH A1 18 4118 9 HOH HOH . D 4 HOH A1 19 4119 3 HOH HOH . D 4 HOH A1 20 4120 14 HOH HOH . D 4 HOH A1 21 4121 1 HOH HOH . D 4 HOH A1 22 4122 8 HOH HOH . D 4 HOH A1 23 4123 26 HOH HOH . D 4 HOH A1 24 4124 5 HOH HOH . D 4 HOH A1 25 4125 22 HOH HOH . D 4 HOH A1 26 4126 27 HOH HOH . D 4 HOH A1 27 4127 12 HOH HOH . D 4 HOH A1 28 4128 3 HOH HOH . D 4 HOH A1 29 4129 13 HOH HOH . D 4 HOH A1 30 4130 30 HOH HOH . D 4 HOH A1 31 4131 8 HOH HOH . D 4 HOH A1 32 4132 9 HOH HOH . D 4 HOH A1 33 4133 23 HOH HOH . D 4 HOH A1 34 4134 10 HOH HOH . D 4 HOH A1 35 4135 11 HOH HOH . D 4 HOH A1 36 4136 12 HOH HOH . D 4 HOH A1 37 4137 17 HOH HOH . D 4 HOH A1 38 4138 21 HOH HOH . D 4 HOH A1 39 4139 7 HOH HOH . D 4 HOH A1 40 4140 4 HOH HOH . D 4 HOH A1 41 4141 23 HOH HOH . D 4 HOH A1 42 4142 31 HOH HOH . D 4 HOH A1 43 4143 22 HOH HOH . D 4 HOH A1 44 4144 5 HOH HOH . D 4 HOH A1 45 4145 16 HOH HOH . D 4 HOH A1 46 4146 6 HOH HOH . D 4 HOH A1 47 4147 2 HOH HOH . D 4 HOH A1 48 4148 20 HOH HOH . D 4 HOH A1 49 4149 27 HOH HOH . D 4 HOH A1 50 4150 25 HOH HOH . D 4 HOH A1 51 4151 15 HOH HOH . D 4 HOH A1 52 4152 1 HOH HOH . D 4 HOH A1 53 4153 18 HOH HOH . D 4 HOH A1 54 4154 26 HOH HOH . D 4 HOH A1 55 4155 19 HOH HOH . D 4 HOH A1 56 4156 29 HOH HOH . E 4 HOH B1 1 801 4 HOH HOH . E 4 HOH B1 2 802 20 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 C4 D3V . . . C 3 -26.643 16.961 -6.198 1 63.98 ? C4 D3V 4000 A1 1 HETATM 2 C C5 D3V . . . C 3 -25.358 16.872 -5.388 1 58.69 ? C5 D3V 4000 A1 1 HETATM 3 C C6 D3V . . . C 3 -26.444 18.034 -7.278 1 68.91 ? C6 D3V 4000 A1 1 HETATM 4 C C7 D3V . . . C 3 -25.286 17.805 -8.244 1 78.71 ? C7 D3V 4000 A1 1 HETATM 5 C C8 D3V . . . C 3 -25.529 18.355 -9.644 1 91.4 ? C8 D3V 4000 A1 1 HETATM 6 C C9 D3V . . . C 3 -24.799 17.676 -10.779 1 96.52 ? C9 D3V 4000 A1 1 HETATM 7 C C10 D3V . . . C 3 -23.301 17.605 -10.569 1 104.44 ? C10 D3V 4000 A1 1 HETATM 8 C C11 D3V . . . C 3 -25.129 18.354 -12.094 1 99.09 ? C11 D3V 4000 A1 1 HETATM 9 C C12 D3V . . . C 3 -29.361 17.044 -5.828 1 48.32 ? C12 D3V 4000 A1 1 HETATM 10 C C13 D3V . . . C 3 -29.716 18.112 -6.881 1 46.2 ? C13 D3V 4000 A1 1 HETATM 11 C C14 D3V . . . C 3 -29.813 15.655 -6.311 1 45.63 ? C14 D3V 4000 A1 1 HETATM 12 C C15 D3V . . . C 3 -31.327 15.531 -6.448 1 54.56 ? C15 D3V 4000 A1 1 HETATM 13 O O2 D3V . . . C 3 -33.909 23.418 -5.733 1 48.23 ? O2 D3V 4000 A1 1 HETATM 14 C C24 D3V . . . C 3 -34.545 22.243 -5.251 1 48.23 ? C24 D3V 4000 A1 1 HETATM 15 C C23 D3V . . . C 3 -35.959 22.157 -5.802 1 43.69 ? C23 D3V 4000 A1 1 HETATM 16 C C22 D3V . . . C 3 -36.654 20.924 -5.261 1 51.16 ? C22 D3V 4000 A1 1 HETATM 17 O O1 D3V . . . C 3 -36.698 20.981 -3.833 1 53.5 ? O1 D3V 4000 A1 1 HETATM 18 C C21 D3V . . . C 3 -35.931 19.668 -5.712 1 47.64 ? C21 D3V 4000 A1 1 HETATM 19 C C25 D3V . . . C 3 -33.818 21.027 -5.77 1 50.4 ? C25 D3V 4000 A1 1 HETATM 20 C C26 D3V . . . C 3 -32.731 21.131 -6.512 1 57.6 ? C26 D3V 4000 A1 1 HETATM 21 C C20 D3V . . . C 3 -34.44 19.732 -5.466 1 45.51 ? C20 D3V 4000 A1 1 HETATM 22 C C19 D3V . . . C 3 -33.718 18.599 -5.204 1 49.8 ? C19 D3V 4000 A1 1 HETATM 23 C C18 D3V . . . C 3 -32.309 18.497 -4.923 1 48.51 ? C18 D3V 4000 A1 1 HETATM 24 C C17 D3V . . . C 3 -31.586 17.373 -4.807 1 50.33 ? C17 D3V 4000 A1 1 HETATM 25 C C D3V . . . C 3 -30.106 17.353 -4.496 1 51.7 ? C D3V 4000 A1 1 HETATM 26 C C16 D3V . . . C 3 -32.039 15.992 -5.18 1 55.23 ? C16 D3V 4000 A1 1 HETATM 27 C C3 D3V . . . C 3 -27.901 17.13 -5.284 1 52.64 ? C3 D3V 4000 A1 1 HETATM 28 C C2 D3V . . . C 3 -27.889 18.424 -4.444 1 53.23 ? C2 D3V 4000 A1 1 HETATM 29 C C1 D3V . . . C 3 -29.333 18.55 -3.903 1 57.99 ? C1 D3V 4000 A1 1 HETATM 30 O O D3V . . . C 3 -26.771 15.728 -6.929 1 74.91 ? O D3V 4000 A1 1 HETATM 31 H H9 D3V . . . C 3 -24.599 16.279 -5.896 1 70.43 ? H9 D3V 4000 A1 1 HETATM 32 H H8 D3V . . . C 3 -25.527 16.415 -4.414 1 70.43 ? H8 D3V 4000 A1 1 HETATM 33 H H10 D3V . . . C 3 -24.923 17.851 -5.19 1 70.43 ? H10 D3V 4000 A1 1 HETATM 34 H H12 D3V . . . C 3 -27.352 18.145 -7.87 1 82.7 ? H12 D3V 4000 A1 1 HETATM 35 H H13 D3V . . . C 3 -26.301 18.997 -6.789 1 82.7 ? H13 D3V 4000 A1 1 HETATM 36 H H15 D3V . . . C 3 -24.383 18.242 -7.82 1 94.45 ? H15 D3V 4000 A1 1 HETATM 37 H H14 D3V . . . C 3 -25.061 16.742 -8.314 1 94.45 ? H14 D3V 4000 A1 1 HETATM 38 H H16 D3V . . . C 3 -26.598 18.341 -9.851 1 109.68 ? H16 D3V 4000 A1 1 HETATM 39 H H17 D3V . . . C 3 -25.273 19.414 -9.655 1 109.68 ? H17 D3V 4000 A1 1 HETATM 40 H H18 D3V . . . C 3 -25.167 16.654 -10.841 1 115.82 ? H18 D3V 4000 A1 1 HETATM 41 H H20 D3V . . . C 3 -22.841 18.588 -10.482 1 125.33 ? H20 D3V 4000 A1 1 HETATM 42 H H21 D3V . . . C 3 -22.795 17.108 -11.396 1 125.33 ? H21 D3V 4000 A1 1 HETATM 43 H H19 D3V . . . C 3 -23.037 17.051 -9.669 1 125.33 ? H19 D3V 4000 A1 1 HETATM 44 H H23 D3V . . . C 3 -24.839 19.403 -12.105 1 118.91 ? H23 D3V 4000 A1 1 HETATM 45 H H22 D3V . . . C 3 -26.194 18.32 -12.32 1 118.91 ? H22 D3V 4000 A1 1 HETATM 46 H H24 D3V . . . C 3 -24.622 17.882 -12.935 1 118.91 ? H24 D3V 4000 A1 1 HETATM 47 H H26 D3V . . . C 3 -29.211 17.947 -7.831 1 55.44 ? H26 D3V 4000 A1 1 HETATM 48 H H27 D3V . . . C 3 -29.437 19.11 -6.547 1 55.44 ? H27 D3V 4000 A1 1 HETATM 49 H H25 D3V . . . C 3 -30.781 18.152 -7.101 1 55.44 ? H25 D3V 4000 A1 1 HETATM 50 H H28 D3V . . . C 3 -29.346 15.42 -7.266 1 54.76 ? H28 D3V 4000 A1 1 HETATM 51 H H29 D3V . . . C 3 -29.469 14.874 -5.634 1 54.76 ? H29 D3V 4000 A1 1 HETATM 52 H H30 D3V . . . C 3 -31.596 14.5 -6.672 1 65.48 ? H30 D3V 4000 A1 1 HETATM 53 H H31 D3V . . . C 3 -31.69 16.09 -7.309 1 65.48 ? H31 D3V 4000 A1 1 HETATM 54 H H41 D3V . . . C 3 -33.056 23.512 -5.233 1 57.88 ? H41 D3V 4000 A1 1 HETATM 55 H H3 D3V . . . C 3 -34.566 22.272 -4.162 1 57.87 ? H3 D3V 4000 A1 1 HETATM 56 H H39 D3V . . . C 3 -36.521 23.051 -5.538 1 52.43 ? H39 D3V 4000 A1 1 HETATM 57 H H40 D3V . . . C 3 -35.918 22.155 -6.89 1 52.43 ? H40 D3V 4000 A1 1 HETATM 58 H H2 D3V . . . C 3 -37.707 20.905 -5.537 1 61.39 ? H2 D3V 4000 A1 1 HETATM 59 H H38 D3V . . . C 3 -37.012 20.101 -3.496 1 64.2 ? H38 D3V 4000 A1 1 HETATM 60 H H37 D3V . . . C 3 -36.375 18.802 -5.224 1 57.17 ? H37 D3V 4000 A1 1 HETATM 61 H H36 D3V . . . C 3 -36.083 19.485 -6.775 1 57.17 ? H36 D3V 4000 A1 1 HETATM 62 H H42 D3V . . . C 3 -32.184 20.273 -6.901 1 69.12 ? H42 D3V 4000 A1 1 HETATM 63 H H43 D3V . . . C 3 -32.279 22.078 -6.804 1 69.12 ? H43 D3V 4000 A1 1 HETATM 64 H H35 D3V . . . C 3 -34.276 17.664 -5.208 1 59.76 ? H35 D3V 4000 A1 1 HETATM 65 H H34 D3V . . . C 3 -31.795 19.448 -4.795 1 58.21 ? H34 D3V 4000 A1 1 HETATM 66 H H D3V . . . C 3 -29.97 16.534 -3.792 1 62.04 ? H D3V 4000 A1 1 HETATM 67 H H32 D3V . . . C 3 -31.849 15.31 -4.354 1 66.28 ? H32 D3V 4000 A1 1 HETATM 68 H H33 D3V . . . C 3 -33.116 15.97 -5.341 1 66.28 ? H33 D3V 4000 A1 1 HETATM 69 H H1 D3V . . . C 3 -27.829 16.308 -4.573 1 63.16 ? H1 D3V 4000 A1 1 HETATM 70 H H6 D3V . . . C 3 -27.589 19.284 -5.042 1 63.88 ? H6 D3V 4000 A1 1 HETATM 71 H H7 D3V . . . C 3 -27.156 18.374 -3.64 1 63.88 ? H7 D3V 4000 A1 1 HETATM 72 H H5 D3V . . . C 3 -29.365 18.542 -2.814 1 69.59 ? H5 D3V 4000 A1 1 HETATM 73 H H4 D3V . . . C 3 -29.768 19.507 -4.185 1 69.59 ? H4 D3V 4000 A1 1 HETATM 74 H H11 D3V . . . C 3 -26.435 14.997 -6.347 1 89.9 ? H11 D3V 4000 A1 1 # _model_server_stats.io_time_ms 53 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 288 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 74 #