data_2GJ5
#
_model_server_result.job_id            BLTW-TsgTKodza4ARX0-pg 
_model_server_result.datetime_utc      '2024-11-15 13:31:34' 
_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          2gj5 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":163}' 
#
_entry.id    2GJ5 
#
_exptl.entry_id    2GJ5 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              384.638 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '(1S,3Z)-3-[(2E)-2-[(1R,3AR,7AS)-7A-METHYL-1-[(2R)-6-METHYLHEPTAN-2-YL]-2,3,3A,5,6,7-HEXAHYDRO-1H-INDEN-4-YLIDENE]ETHYLI DENE]-4-METHYLIDENE-CYCLOHEXAN-1-OL' 
_entity.pdbx_number_of_molecules    2 
_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            2GJ5 
_cell.length_a            53.782 
_cell.length_b            53.782 
_cell.length_c            111.578 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2GJ5 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        154 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 32 2 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_pdbx_struct_assembly.details               author_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D 
_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 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 2 B N N 
? 2 C 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
disulf ? disulf1 A SG CYS 66 A CYS 66 1_555 A SG CYS 160 A CYS 160 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf2 A SG CYS 106 A CYS 106 1_555 A SG CYS 119 A CYS 119 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? 
#
_chem_comp.formula           'C27 H44 O' 
_chem_comp.formula_weight    384.638 
_chem_comp.id                VD3 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '(1S,3Z)-3-[(2E)-2-[(1R,3AR,7AS)-7A-METHYL-1-[(2R)-6-METHYLHEPTAN-2-YL]-2,3,3A,5,6,7-HEXAHYDRO-1H-INDEN-4-YLIDENE]ETHYLI DENE]-4-METHYLIDENE-CYCLOHEXAN-1-OL' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     'VITAMIN 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
O C3 VD3 sing 376 n n 
O HO VD3 sing 377 n n 
C1 C2 VD3 sing 378 n n 
C1 C6 VD3 sing 379 n n 
C1 H11 VD3 sing 380 n n 
C1 H12 VD3 sing 381 n n 
C2 C3 VD3 sing 382 n n 
C2 H21 VD3 sing 383 n n 
C2 H22 VD3 sing 384 n n 
C3 C4 VD3 sing 385 n n 
C3 H3 VD3 sing 386 n n 
C4 C5 VD3 sing 387 n n 
C4 H41 VD3 sing 388 n n 
C4 H42 VD3 sing 389 n n 
C5 C7 VD3 doub 390 e n 
C5 C6 VD3 sing 391 n n 
C7 C8 VD3 sing 392 n n 
C7 H7 VD3 sing 393 n n 
C8 C9 VD3 doub 394 z n 
C8 H8 VD3 sing 395 n n 
C9 C10 VD3 sing 396 n n 
C9 C14 VD3 sing 397 n n 
C10 C11 VD3 sing 398 n n 
C10 H101 VD3 sing 399 n n 
C10 H102 VD3 sing 400 n n 
C6 C19 VD3 doub 401 n n 
C11 C12 VD3 sing 402 n n 
C11 H111 VD3 sing 403 n n 
C11 H112 VD3 sing 404 n n 
C12 C13 VD3 sing 405 n n 
C12 H121 VD3 sing 406 n n 
C12 H122 VD3 sing 407 n n 
C13 C14 VD3 sing 408 n n 
C13 C17 VD3 sing 409 n n 
C13 C18 VD3 sing 410 n n 
C14 C15 VD3 sing 411 n n 
C14 H14 VD3 sing 412 n n 
C15 C16 VD3 sing 413 n n 
C15 H151 VD3 sing 414 n n 
C15 H152 VD3 sing 415 n n 
C16 C17 VD3 sing 416 n n 
C16 H161 VD3 sing 417 n n 
C16 H162 VD3 sing 418 n n 
C17 C20 VD3 sing 419 n n 
C17 H17 VD3 sing 420 n n 
C18 H181 VD3 sing 421 n n 
C18 H182 VD3 sing 422 n n 
C18 H183 VD3 sing 423 n n 
C19 H191 VD3 sing 424 n n 
C19 H192 VD3 sing 425 n n 
C20 C21 VD3 sing 426 n n 
C20 C22 VD3 sing 427 n n 
C20 H20 VD3 sing 428 n n 
C21 H211 VD3 sing 429 n n 
C21 H212 VD3 sing 430 n n 
C21 H213 VD3 sing 431 n n 
C22 C23 VD3 sing 432 n n 
C22 H221 VD3 sing 433 n n 
C22 H222 VD3 sing 434 n n 
C23 C24 VD3 sing 435 n n 
C23 H231 VD3 sing 436 n n 
C23 H232 VD3 sing 437 n n 
C24 C25 VD3 sing 438 n n 
C24 H241 VD3 sing 439 n n 
C24 H242 VD3 sing 440 n n 
C25 C26 VD3 sing 441 n n 
C25 C27 VD3 sing 442 n n 
C25 H25 VD3 sing 443 n n 
C26 H261 VD3 sing 444 n n 
C26 H262 VD3 sing 445 n n 
C26 H263 VD3 sing 446 n n 
C27 H271 VD3 sing 447 n n 
C27 H272 VD3 sing 448 n n 
C27 H273 VD3 sing 449 n n 
#
_atom_sites.entry_id                     2GJ5 
_atom_sites.fract_transf_matrix[1][1]    0.018594 
_atom_sites.fract_transf_matrix[1][2]    0.010735 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.02147 
_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]    0.008962 
_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 VD3 A 1 163 101 VD3 VD3 . 
C 2 VD3 A 1 164 102 VD3 VD3 . 
D 3 HOH A 1 165 1 HOH TIP . 
D 3 HOH A 2 166 2 HOH TIP . 
D 3 HOH A 3 167 3 HOH TIP . 
D 3 HOH A 4 168 4 HOH TIP . 
D 3 HOH A 5 169 5 HOH TIP . 
D 3 HOH A 6 170 6 HOH TIP . 
D 3 HOH A 7 171 7 HOH TIP . 
D 3 HOH A 8 172 8 HOH TIP . 
D 3 HOH A 9 173 9 HOH TIP . 
D 3 HOH A 10 174 10 HOH TIP . 
D 3 HOH A 11 175 11 HOH TIP . 
D 3 HOH A 12 176 12 HOH TIP . 
D 3 HOH A 13 177 13 HOH TIP . 
D 3 HOH A 14 178 14 HOH TIP . 
D 3 HOH A 15 179 15 HOH TIP . 
D 3 HOH A 16 180 16 HOH TIP . 
D 3 HOH A 17 181 17 HOH TIP . 
D 3 HOH A 18 182 18 HOH TIP . 
D 3 HOH A 19 183 19 HOH TIP . 
D 3 HOH A 20 184 20 HOH TIP . 
D 3 HOH A 21 185 21 HOH TIP . 
D 3 HOH A 22 186 22 HOH TIP . 
D 3 HOH A 23 187 23 HOH TIP . 
D 3 HOH A 24 188 24 HOH TIP . 
D 3 HOH A 25 189 25 HOH TIP . 
D 3 HOH A 26 190 26 HOH TIP . 
D 3 HOH A 27 191 27 HOH TIP . 
D 3 HOH A 28 192 28 HOH TIP . 
D 3 HOH A 29 193 29 HOH TIP . 
D 3 HOH A 30 194 30 HOH TIP . 
D 3 HOH A 31 195 31 HOH TIP . 
D 3 HOH A 32 196 32 HOH TIP . 
D 3 HOH A 33 197 33 HOH TIP . 
D 3 HOH A 34 198 34 HOH TIP . 
D 3 HOH A 35 199 35 HOH TIP . 
D 3 HOH A 36 200 36 HOH TIP . 
D 3 HOH A 37 201 37 HOH TIP . 
D 3 HOH A 38 202 38 HOH TIP . 
#
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 O VD3 . . . B 2 -0.376 0.172 24.587 0.5 39.57 ? O VD3 163 A 1 
HETATM 2 C C1 VD3 . . . B 2 0.71 1.328 21.403 0.5 41.44 ? C1 VD3 163 A 1 
HETATM 3 C C2 VD3 . . . B 2 0.435 1.696 22.814 0.5 40.97 ? C2 VD3 163 A 1 
HETATM 4 C C3 VD3 . . . B 2 -0.832 1.015 23.511 0.5 40.81 ? C3 VD3 163 A 1 
HETATM 5 C C4 VD3 . . . B 2 -1.635 0.166 22.49 0.5 40.92 ? C4 VD3 163 A 1 
HETATM 6 C C5 VD3 . . . B 2 -1.827 0.832 21.041 0.5 41.83 ? C5 VD3 163 A 1 
HETATM 7 C C7 VD3 . . . B 2 -3.017 0.723 20.376 0.5 41.35 ? C7 VD3 163 A 1 
HETATM 8 C C8 VD3 . . . B 2 -4.406 1.332 20.316 0.5 41.94 ? C8 VD3 163 A 1 
HETATM 9 C C9 VD3 . . . B 2 -4.677 2.637 19.889 0.5 40.64 ? C9 VD3 163 A 1 
HETATM 10 C C10 VD3 . . . B 2 -4.659 2.175 18.335 0.5 40.75 ? C10 VD3 163 A 1 
HETATM 11 C C6 VD3 . . . B 2 -0.557 1.574 20.556 0.5 40.7 ? C6 VD3 163 A 1 
HETATM 12 C C11 VD3 . . . B 2 -4.355 3.22 17.323 0.5 39.77 ? C11 VD3 163 A 1 
HETATM 13 C C12 VD3 . . . B 2 -4.69 4.722 17.671 0.5 38.89 ? C12 VD3 163 A 1 
HETATM 14 C C13 VD3 . . . B 2 -4.377 5.152 19.111 0.5 39.47 ? C13 VD3 163 A 1 
HETATM 15 C C14 VD3 . . . B 2 -3.762 3.974 19.96 0.5 40 ? C14 VD3 163 A 1 
HETATM 16 C C15 VD3 . . . B 2 -3.568 4.712 21.38 0.5 40.53 ? C15 VD3 163 A 1 
HETATM 17 C C16 VD3 . . . B 2 -3.228 6.269 21.01 0.5 39.74 ? C16 VD3 163 A 1 
HETATM 18 C C17 VD3 . . . B 2 -3.209 6.267 19.435 0.5 39.2 ? C17 VD3 163 A 1 
HETATM 19 C C18 VD3 . . . B 2 -5.817 5.636 19.623 0.5 38.84 ? C18 VD3 163 A 1 
HETATM 20 C C19 VD3 . . . B 2 -0.515 2.331 19.534 0.5 41.1 ? C19 VD3 163 A 1 
HETATM 21 C C20 VD3 . . . B 2 -3.562 7.722 18.724 0.5 38.54 ? C20 VD3 163 A 1 
HETATM 22 C C21 VD3 . . . B 2 -2.898 7.744 17.366 0.5 39.84 ? C21 VD3 163 A 1 
HETATM 23 C C22 VD3 . . . B 2 -3.04 9.081 19.321 0.5 37.33 ? C22 VD3 163 A 1 
HETATM 24 C C23 VD3 . . . B 2 -4.181 10.268 18.958 0.5 35.43 ? C23 VD3 163 A 1 
HETATM 25 C C24 VD3 . . . B 2 -3.203 11.4 18.567 0.5 33.92 ? C24 VD3 163 A 1 
HETATM 26 C C25 VD3 . . . B 2 -3.418 12.864 19.018 0.5 34.3 ? C25 VD3 163 A 1 
HETATM 27 C C26 VD3 . . . B 2 -2.179 12.86 19.703 0.5 35.52 ? C26 VD3 163 A 1 
HETATM 28 C C27 VD3 . . . B 2 -3.082 14.105 18.363 0.5 33.85 ? C27 VD3 163 A 1 
#
_model_server_stats.io_time_ms              61 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    20 
_model_server_stats.query_time_ms           313 
_model_server_stats.encode_time_ms          10 
_model_server_stats.element_count           28 
#