data_3AFR
#
_model_server_result.job_id            xEbfQaReQdldX5gpPIijTQ 
_model_server_result.datetime_utc      '2025-03-06 09:11:42' 
_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          3afr 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":1}' 
#
_entry.id    3AFR 
#
_exptl.entry_id    3AFR 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              472.743 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '(1R,3S,5Z)-5-[(2E)-2-{(1R,3aS,7aR)-1-[(1R,2S,4R)-2-butyl-4-hydroxy-1,5-dimethylhexyl]-7a-methyloctahydro-4H-inden-4-yli dene}ethylidene]-4-methylidenecyclohexane-1,3-diol' 
_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          95.341 
_cell.angle_gamma         90 
_cell.entry_id            3AFR 
_cell.length_a            153.448 
_cell.length_b            43.394 
_cell.length_c            41.992 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3AFR 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 1 2 1' 
#
_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 
_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 
#
_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           'C31 H52 O3' 
_chem_comp.formula_weight    472.743 
_chem_comp.id                ICJ 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '(1R,3S,5Z)-5-[(2E)-2-{(1R,3aS,7aR)-1-[(1R,2S,4R)-2-butyl-4-hydroxy-1,5-dimethylhexyl]-7a-methyloctahydro-4H-inden-4-yli dene}ethylidene]-4-methylidenecyclohexane-1,3-diol' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     '22S-butyl-1a,24R-dihydroxyvitamin D3' 
#
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
O1 C01 ICJ sing 152 n n 
O2 C03 ICJ sing 153 n n 
O3 C24 ICJ sing 154 n n 
C01 C02 ICJ sing 155 n n 
C01 C10 ICJ sing 156 n n 
C02 C03 ICJ sing 157 n n 
C03 C04 ICJ sing 158 n n 
C04 C05 ICJ sing 159 n n 
C05 C06 ICJ doub 160 n n 
C05 C10 ICJ sing 161 n n 
C06 C07 ICJ sing 162 n n 
C07 C08 ICJ doub 163 n n 
C08 C09 ICJ sing 164 n n 
C08 C14 ICJ sing 165 n n 
C09 C11 ICJ sing 166 n n 
C10 C19 ICJ doub 167 n n 
C11 C12 ICJ sing 168 n n 
C12 C13 ICJ sing 169 z n 
C13 C14 ICJ sing 170 n n 
C13 C17 ICJ sing 171 n n 
C13 C18 ICJ sing 172 n n 
C14 C15 ICJ sing 173 e n 
C15 C16 ICJ sing 174 n n 
C16 C17 ICJ sing 175 n n 
C17 C20 ICJ sing 176 n n 
C20 C21 ICJ sing 177 n n 
C20 C22 ICJ sing 178 n n 
C22 C23 ICJ sing 179 n n 
C22 C28 ICJ sing 180 n n 
C23 C24 ICJ sing 181 n n 
C24 C25 ICJ sing 182 n n 
C25 C26 ICJ sing 183 n n 
C25 C27 ICJ sing 184 n n 
C28 C29 ICJ sing 185 n n 
C29 C30 ICJ sing 186 n n 
C30 C31 ICJ sing 187 n n 
O1 HO1 ICJ sing 188 n n 
O2 HO2 ICJ sing 189 n n 
O3 HO3 ICJ sing 190 n n 
C01 H01 ICJ sing 191 n n 
C02 H02 ICJ sing 192 n n 
C02 H02A ICJ sing 193 n n 
C03 H03 ICJ sing 194 n n 
C04 H04 ICJ sing 195 n n 
C04 H04A ICJ sing 196 n n 
C06 H06 ICJ sing 197 n n 
C07 H07 ICJ sing 198 n n 
C09 H09 ICJ sing 199 n n 
C09 H09A ICJ sing 200 n n 
C11 H11 ICJ sing 201 n n 
C11 H11A ICJ sing 202 n n 
C12 H12 ICJ sing 203 n n 
C12 H12A ICJ sing 204 n n 
C14 H14 ICJ sing 205 n n 
C15 H15 ICJ sing 206 n n 
C15 H15A ICJ sing 207 n n 
C16 H16 ICJ sing 208 n n 
C16 H16A ICJ sing 209 n n 
C17 H17 ICJ sing 210 n n 
C18 H18 ICJ sing 211 n n 
C18 H18A ICJ sing 212 n n 
C18 H18B ICJ sing 213 n n 
C19 H19 ICJ sing 214 n n 
C19 H19A ICJ sing 215 n n 
C20 H20 ICJ sing 216 n n 
C21 H21 ICJ sing 217 n n 
C21 H21A ICJ sing 218 n n 
C21 H21B ICJ sing 219 n n 
C22 H22 ICJ sing 220 n n 
C23 H23 ICJ sing 221 n n 
C23 H23A ICJ sing 222 n n 
C24 H24 ICJ sing 223 n n 
C25 H25 ICJ sing 224 n n 
C26 H26 ICJ sing 225 n n 
C26 H26A ICJ sing 226 n n 
C26 H26B ICJ sing 227 n n 
C27 H27 ICJ sing 228 n n 
C27 H27A ICJ sing 229 n n 
C27 H27B ICJ sing 230 n n 
C28 H28 ICJ sing 231 n n 
C28 H28A ICJ sing 232 n n 
C29 H29 ICJ sing 233 n n 
C29 H29A ICJ sing 234 n n 
C30 H30 ICJ sing 235 n n 
C30 H30A ICJ sing 236 n n 
C31 H31 ICJ sing 237 n n 
C31 H31A ICJ sing 238 n n 
C31 H31B ICJ sing 239 n n 
#
_atom_sites.entry_id                     3AFR 
_atom_sites.fract_transf_matrix[1][1]    0.006517 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.000609 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.023045 
_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]    0.023918 
_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 ICJ A 1 1 1 ICJ ICJ . 
D 4 HOH A 1 2 2 HOH HOH . 
D 4 HOH A 2 3 3 HOH HOH . 
D 4 HOH A 3 4 4 HOH HOH . 
D 4 HOH A 4 5 5 HOH HOH . 
D 4 HOH A 5 6 6 HOH HOH . 
D 4 HOH A 6 7 7 HOH HOH . 
D 4 HOH A 7 8 8 HOH HOH . 
D 4 HOH A 8 9 9 HOH HOH . 
D 4 HOH A 9 10 10 HOH HOH . 
D 4 HOH A 10 11 11 HOH HOH . 
D 4 HOH A 11 12 12 HOH HOH . 
D 4 HOH A 12 13 13 HOH HOH . 
D 4 HOH A 13 14 14 HOH HOH . 
D 4 HOH A 14 15 15 HOH HOH . 
D 4 HOH A 15 16 16 HOH HOH . 
D 4 HOH A 16 17 17 HOH HOH . 
D 4 HOH A 17 18 18 HOH HOH . 
D 4 HOH A 18 19 19 HOH HOH . 
D 4 HOH A 19 20 20 HOH HOH . 
D 4 HOH A 20 21 21 HOH HOH . 
D 4 HOH A 21 22 22 HOH HOH . 
D 4 HOH A 22 23 23 HOH HOH . 
D 4 HOH A 23 24 24 HOH HOH . 
D 4 HOH A 24 25 25 HOH HOH . 
D 4 HOH A 25 26 26 HOH HOH . 
D 4 HOH A 26 28 28 HOH HOH . 
D 4 HOH A 27 29 29 HOH HOH . 
D 4 HOH A 28 30 30 HOH HOH . 
D 4 HOH A 29 31 31 HOH HOH . 
D 4 HOH A 30 32 32 HOH HOH . 
D 4 HOH A 31 33 33 HOH HOH . 
D 4 HOH A 32 34 34 HOH HOH . 
D 4 HOH A 33 35 35 HOH HOH . 
D 4 HOH A 34 36 36 HOH HOH . 
D 4 HOH A 35 37 37 HOH HOH . 
D 4 HOH A 36 38 38 HOH HOH . 
D 4 HOH A 37 39 39 HOH HOH . 
D 4 HOH A 38 40 40 HOH HOH . 
D 4 HOH A 39 41 41 HOH HOH . 
D 4 HOH A 40 42 42 HOH HOH . 
D 4 HOH A 41 43 43 HOH HOH . 
D 4 HOH A 42 44 44 HOH HOH . 
D 4 HOH A 43 45 45 HOH HOH . 
D 4 HOH A 44 46 46 HOH HOH . 
D 4 HOH A 45 47 47 HOH HOH . 
D 4 HOH A 46 48 48 HOH HOH . 
D 4 HOH A 47 49 49 HOH HOH . 
D 4 HOH A 48 50 50 HOH HOH . 
D 4 HOH A 49 51 51 HOH HOH . 
D 4 HOH A 50 52 52 HOH HOH . 
D 4 HOH A 51 53 53 HOH HOH . 
D 4 HOH A 52 54 54 HOH HOH . 
D 4 HOH A 53 55 55 HOH HOH . 
D 4 HOH A 54 56 56 HOH HOH . 
D 4 HOH A 55 57 57 HOH HOH . 
D 4 HOH A 56 58 58 HOH HOH . 
D 4 HOH A 57 59 59 HOH HOH . 
D 4 HOH A 58 60 60 HOH HOH . 
D 4 HOH A 59 424 1 HOH HOH . 
E 4 HOH C 1 27 27 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 O O1 ICJ . . . C 3 58.511 3.354 23.742 1 35.54 ? O1 ICJ 1 A 1 
HETATM 2 O O2 ICJ . . . C 3 56.026 6.671 22.399 1 31.24 ? O2 ICJ 1 A 1 
HETATM 3 O O3 ICJ . . . C 3 62.239 -3.881 14.031 1 43.09 ? O3 ICJ 1 A 1 
HETATM 4 C C01 ICJ . . . C 3 57.91 4.304 22.856 1 32.23 ? C01 ICJ 1 A 1 
HETATM 5 C C02 ICJ . . . C 3 58.028 5.737 23.461 1 31.02 ? C02 ICJ 1 A 1 
HETATM 6 C C03 ICJ . . . C 3 57.43 6.832 22.49 1 28.74 ? C03 ICJ 1 A 1 
HETATM 7 C C04 ICJ . . . C 3 58.018 6.712 21.062 1 31.91 ? C04 ICJ 1 A 1 
HETATM 8 C C05 ICJ . . . C 3 58.172 5.26 20.541 1 30.91 ? C05 ICJ 1 A 1 
HETATM 9 C C06 ICJ . . . C 3 57.877 5.138 19.169 1 32.37 ? C06 ICJ 1 A 1 
HETATM 10 C C07 ICJ . . . C 3 57.946 3.986 18.39 1 32.29 ? C07 ICJ 1 A 1 
HETATM 11 C C08 ICJ . . . C 3 58.12 3.939 17.013 1 31.2 ? C08 ICJ 1 A 1 
HETATM 12 C C09 ICJ . . . C 3 58.254 5.206 16.102 1 32.02 ? C09 ICJ 1 A 1 
HETATM 13 C C10 ICJ . . . C 3 58.582 4.253 21.461 1 33.53 ? C10 ICJ 1 A 1 
HETATM 14 C C11 ICJ . . . C 3 59.575 5.2 15.303 1 30.04 ? C11 ICJ 1 A 1 
HETATM 15 C C12 ICJ . . . C 3 59.918 3.782 14.726 1 30.29 ? C12 ICJ 1 A 1 
HETATM 16 C C13 ICJ . . . C 3 59.8 2.607 15.778 1 30.48 ? C13 ICJ 1 A 1 
HETATM 17 C C14 ICJ . . . C 3 58.293 2.611 16.205 1 31.68 ? C14 ICJ 1 A 1 
HETATM 18 C C15 ICJ . . . C 3 58.071 1.274 16.957 1 31.06 ? C15 ICJ 1 A 1 
HETATM 19 C C16 ICJ . . . C 3 59.076 0.349 16.251 1 31.42 ? C16 ICJ 1 A 1 
HETATM 20 C C17 ICJ . . . C 3 59.869 1.175 15.172 1 32.86 ? C17 ICJ 1 A 1 
HETATM 21 C C18 ICJ . . . C 3 60.9 2.765 16.92 1 32.49 ? C18 ICJ 1 A 1 
HETATM 22 C C19 ICJ . . . C 3 59.559 3.256 21.23 1 34.81 ? C19 ICJ 1 A 1 
HETATM 23 C C20 ICJ . . . C 3 61.269 0.526 14.811 1 31.81 ? C20 ICJ 1 A 1 
HETATM 24 C C21 ICJ . . . C 3 62.041 1.37 13.747 1 29.49 ? C21 ICJ 1 A 1 
HETATM 25 C C22 ICJ . . . C 3 61.128 -0.965 14.323 1 35.18 ? C22 ICJ 1 A 1 
HETATM 26 C C23 ICJ . . . C 3 62.549 -1.534 14.085 1 38.42 ? C23 ICJ 1 A 1 
HETATM 27 C C24 ICJ . . . C 3 62.845 -2.865 14.812 1 39.87 ? C24 ICJ 1 A 1 
HETATM 28 C C25 ICJ . . . C 3 64.372 -3.158 14.99 1 42.47 ? C25 ICJ 1 A 1 
HETATM 29 C C26 ICJ . . . C 3 65.144 -3.025 13.653 1 43.53 ? C26 ICJ 1 A 1 
HETATM 30 C C27 ICJ . . . C 3 65.002 -2.168 15.983 1 43.37 ? C27 ICJ 1 A 1 
HETATM 31 C C28 ICJ . . . C 3 60.33 -1.087 12.999 1 35.84 ? C28 ICJ 1 A 1 
HETATM 32 C C29 ICJ . . . C 3 58.87 -1.526 13.13 1 37.7 ? C29 ICJ 1 A 1 
HETATM 33 C C30 ICJ . . . C 3 58.278 -1.839 11.753 1 36.88 ? C30 ICJ 1 A 1 
HETATM 34 C C31 ICJ . . . C 3 58.086 -0.567 10.898 1 39.1 ? C31 ICJ 1 A 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    2 
_model_server_stats.query_time_ms           272 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           34 
#