data_VD3 # _chem_comp.id VD3 _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_type HETAIN _chem_comp.formula "C27 H44 O" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms "VITAMIN D3" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2006-06-15 _chem_comp.pdbx_modified_date 2020-06-17 _chem_comp.pdbx_ambiguous_flag N _chem_comp.pdbx_release_status REL _chem_comp.pdbx_replaced_by ? _chem_comp.pdbx_replaces ? _chem_comp.formula_weight 384.638 _chem_comp.one_letter_code ? _chem_comp.three_letter_code VD3 _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _chem_comp.pdbx_ideal_coordinates_details ? _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code ? _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site EBI # # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.alt_atom_id _chem_comp_atom.type_symbol _chem_comp_atom.charge _chem_comp_atom.pdbx_align _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_leaving_atom_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.model_Cartn_x _chem_comp_atom.model_Cartn_y _chem_comp_atom.model_Cartn_z _chem_comp_atom.pdbx_model_Cartn_x_ideal _chem_comp_atom.pdbx_model_Cartn_y_ideal _chem_comp_atom.pdbx_model_Cartn_z_ideal _chem_comp_atom.pdbx_component_atom_id _chem_comp_atom.pdbx_component_comp_id _chem_comp_atom.pdbx_ordinal VD3 O O O 0 1 N N N -0.432 0.185 24.583 -5.539 -3.548 -0.709 O VD3 1 VD3 C1 C1 C 0 1 N N N 0.634 1.412 21.416 -7.115 -0.429 0.671 C1 VD3 2 VD3 C2 C2 C 0 1 N N N 0.289 1.765 22.818 -6.855 -1.930 0.507 C2 VD3 3 VD3 C3 C3 C 0 1 N N S -0.929 0.981 23.494 -5.680 -2.151 -0.447 C3 VD3 4 VD3 C4 C4 C 0 1 N N N -1.633 0.070 22.460 -4.391 -1.618 0.185 C4 VD3 5 VD3 C5 C5 C 0 1 N N N -1.876 0.751 21.032 -4.587 -0.149 0.505 C5 VD3 6 VD3 C7 C7 C 0 1 N N N -3.094 0.632 20.405 -3.656 0.774 0.185 C7 VD3 7 VD3 C8 C8 C 0 1 N N N -4.496 1.237 20.391 -2.421 0.366 -0.488 C8 VD3 8 VD3 C9 C9 C 0 1 N N N -4.760 2.544 19.971 -1.502 1.278 -0.804 C9 VD3 9 VD3 C10 C10 C 0 1 N N N -4.835 2.045 18.426 -1.680 2.758 -0.492 C10 VD3 10 VD3 C6 C6 C 0 1 N N N -0.619 1.528 20.525 -5.843 0.221 1.189 C6 VD3 11 VD3 C11 C11 C 0 1 N N N -4.361 2.992 17.372 -0.448 3.313 0.219 C11 VD3 12 VD3 C12 C12 C 0 1 N N N -4.501 4.544 17.630 0.852 2.920 -0.504 C12 VD3 13 VD3 C13 C13 C 0 1 N N R -4.181 4.992 19.057 0.923 1.417 -0.558 C13 VD3 14 VD3 C14 C14 C 0 1 N N S -3.760 3.797 19.985 -0.218 0.921 -1.492 C14 VD3 15 VD3 C15 C15 C 0 1 N N N -3.510 4.548 21.388 0.110 -0.570 -1.603 C15 VD3 16 VD3 C16 C16 C 0 1 N N N -2.940 6.012 20.970 1.656 -0.569 -1.769 C16 VD3 17 VD3 C17 C17 C 0 1 N N R -2.873 5.914 19.400 2.162 0.757 -1.144 C17 VD3 18 VD3 C18 C18 C 0 1 N N N -5.554 5.695 19.498 0.664 0.848 0.839 C18 VD3 19 VD3 C19 C19 C 0 1 N N N -0.577 2.209 19.448 -5.863 1.087 2.202 C19 VD3 20 VD3 C20 C20 C 0 1 N N R -2.899 7.364 18.620 3.183 0.469 -0.041 C20 VD3 21 VD3 C21 C21 C 0 1 N N N -1.521 7.511 17.986 3.615 1.784 0.610 C21 VD3 22 VD3 C22 C22 C 0 1 N N N -3.007 8.707 19.437 4.404 -0.226 -0.646 C22 VD3 23 VD3 C23 C23 C 0 1 N N N -4.241 9.651 18.788 5.369 -0.626 0.472 C23 VD3 24 VD3 C24 C24 C 0 1 N N N -3.387 10.910 18.467 6.590 -1.321 -0.133 C24 VD3 25 VD3 C25 C25 C 0 1 N N N -3.686 12.301 19.059 7.556 -1.721 0.985 C25 VD3 26 VD3 C26 C26 C 0 1 N N N -2.338 12.451 19.433 8.715 -2.525 0.394 C26 VD3 27 VD3 C27 C27 C 0 1 N N N -3.671 13.599 18.440 8.101 -0.462 1.662 C27 VD3 28 VD3 HO HO H 0 1 N N N -0.322 -0.714 24.295 -4.793 -3.645 -1.316 HO VD3 29 VD3 H11 1H1 H 0 1 N N N 1.009 0.378 21.383 -7.388 0.004 -0.291 H11 VD3 30 VD3 H12 2H1 H 0 1 N N N 1.409 2.100 21.047 -7.922 -0.273 1.387 H12 VD3 31 VD3 H21 1H2 H 0 1 N N N -0.033 2.816 22.778 -7.746 -2.410 0.102 H21 VD3 32 VD3 H22 2H2 H 0 1 N N N 1.181 1.560 23.429 -6.620 -2.366 1.478 H22 VD3 33 VD3 H3 H3 H 0 1 N N N -1.661 1.712 23.868 -5.869 -1.624 -1.383 H3 VD3 34 VD3 H41 1H4 H 0 1 N N N -2.626 -0.165 22.871 -3.563 -1.735 -0.514 H41 VD3 35 VD3 H42 2H4 H 0 1 N N N -1.001 -0.817 22.307 -4.177 -2.168 1.102 H42 VD3 36 VD3 H7 H7 H 0 1 N N N -3.041 -0.160 19.672 -3.823 1.814 0.424 H7 VD3 37 VD3 H8 H8 H 0 1 N N N -5.323 0.626 20.721 -2.254 -0.674 -0.727 H8 VD3 38 VD3 H101 1H10 H 0 0 N N N -5.907 1.905 18.223 -1.835 3.304 -1.422 H101 VD3 39 VD3 H102 2H10 H 0 0 N N N -4.209 1.144 18.351 -2.553 2.887 0.149 H102 VD3 40 VD3 H111 1H11 H 0 0 N N N -5.020 2.797 16.513 -0.519 4.400 0.256 H111 VD3 41 VD3 H112 2H11 H 0 0 N N N -3.288 2.794 17.233 -0.419 2.924 1.237 H112 VD3 42 VD3 H121 1H12 H 0 0 N N N -5.558 4.795 17.455 0.846 3.318 -1.518 H121 VD3 43 VD3 H122 2H12 H 0 0 N N N -3.803 5.060 16.953 1.711 3.311 0.042 H122 VD3 44 VD3 H14 H14 H 0 1 N N N -2.862 3.254 19.654 -0.157 1.403 -2.468 H14 VD3 45 VD3 H151 1H15 H 0 0 N N N -2.811 3.998 22.035 -0.372 -1.008 -2.476 H151 VD3 46 VD3 H152 2H15 H 0 0 N N N -4.443 4.635 21.964 -0.180 -1.098 -0.694 H152 VD3 47 VD3 H161 1H16 H 0 0 N N N -1.972 6.252 21.434 1.918 -0.608 -2.827 H161 VD3 48 VD3 H162 2H16 H 0 0 N N N -3.606 6.822 21.302 2.090 -1.420 -1.244 H162 VD3 49 VD3 H17 H17 H 0 1 N N N -1.919 5.492 19.051 2.603 1.393 -1.911 H17 VD3 50 VD3 H181 1H18 H 0 0 N N N -6.401 5.048 19.226 -0.321 1.165 1.183 H181 VD3 51 VD3 H182 2H18 H 0 0 N N N -5.652 6.663 18.985 0.702 -0.240 0.801 H182 VD3 52 VD3 H183 3H18 H 0 0 N N N -5.551 5.856 20.586 1.425 1.215 1.528 H183 VD3 53 VD3 H191 1H19 H 0 0 N N N -1.374 2.365 18.736 -6.799 1.341 2.677 H191 VD3 54 VD3 H192 2H19 H 0 0 N N N 0.430 2.596 19.404 -4.943 1.534 2.549 H192 VD3 55 VD3 H20 H20 H 0 1 N N N -3.808 7.291 18.005 2.732 -0.178 0.712 H20 VD3 56 VD3 H211 1H21 H 0 0 N N N -0.894 6.652 18.268 4.066 2.431 -0.143 H211 VD3 57 VD3 H212 2H21 H 0 0 N N N -1.052 8.440 18.341 2.745 2.280 1.041 H212 VD3 58 VD3 H213 3H21 H 0 0 N N N -1.622 7.546 16.891 4.342 1.579 1.395 H213 VD3 59 VD3 H221 1H22 H 0 0 N N N -2.054 9.253 19.378 4.906 0.454 -1.333 H221 VD3 60 VD3 H222 2H22 H 0 0 N N N -3.231 8.481 20.490 4.084 -1.118 -1.186 H222 VD3 61 VD3 H231 1H23 H 0 0 N N N -5.117 9.813 19.434 4.867 -1.307 1.159 H231 VD3 62 VD3 H232 2H23 H 0 0 N N N -4.720 9.205 17.904 5.689 0.265 1.012 H232 VD3 63 VD3 H241 1H24 H 0 0 N N N -3.601 11.065 17.399 7.093 -0.640 -0.820 H241 VD3 64 VD3 H242 2H24 H 0 0 N N N -2.371 10.664 18.809 6.271 -2.212 -0.673 H242 VD3 65 VD3 H25 H25 H 0 1 N N N -4.677 12.210 19.527 7.029 -2.329 1.720 H25 VD3 66 VD3 H261 1H26 H 0 0 N N N -2.033 11.597 20.056 9.403 -2.809 1.191 H261 VD3 67 VD3 H262 2H26 H 0 0 N N N -2.218 13.383 20.005 8.327 -3.422 -0.088 H262 VD3 68 VD3 H263 3H26 H 0 0 N N N -1.709 12.490 18.531 9.243 -1.916 -0.340 H263 VD3 69 VD3 H271 1H27 H 0 0 N N N -4.565 13.715 17.810 7.274 0.111 2.083 H271 VD3 70 VD3 H272 2H27 H 0 0 N N N -2.769 13.698 17.818 8.788 -0.746 2.459 H272 VD3 71 VD3 H273 3H27 H 0 0 N N N -3.667 14.377 19.218 8.628 0.147 0.928 H273 VD3 72 # # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal VD3 O C3 SING N N 1 VD3 O HO SING N N 2 VD3 C1 C2 SING N N 3 VD3 C1 C6 SING N N 4 VD3 C1 H11 SING N N 5 VD3 C1 H12 SING N N 6 VD3 C2 C3 SING N N 7 VD3 C2 H21 SING N N 8 VD3 C2 H22 SING N N 9 VD3 C3 C4 SING N N 10 VD3 C3 H3 SING N N 11 VD3 C4 C5 SING N N 12 VD3 C4 H41 SING N N 13 VD3 C4 H42 SING N N 14 VD3 C5 C7 DOUB N E 15 VD3 C5 C6 SING N N 16 VD3 C7 C8 SING N N 17 VD3 C7 H7 SING N N 18 VD3 C8 C9 DOUB N Z 19 VD3 C8 H8 SING N N 20 VD3 C9 C10 SING N N 21 VD3 C9 C14 SING N N 22 VD3 C10 C11 SING N N 23 VD3 C10 H101 SING N N 24 VD3 C10 H102 SING N N 25 VD3 C6 C19 DOUB N N 26 VD3 C11 C12 SING N N 27 VD3 C11 H111 SING N N 28 VD3 C11 H112 SING N N 29 VD3 C12 C13 SING N N 30 VD3 C12 H121 SING N N 31 VD3 C12 H122 SING N N 32 VD3 C13 C14 SING N N 33 VD3 C13 C17 SING N N 34 VD3 C13 C18 SING N N 35 VD3 C14 C15 SING N N 36 VD3 C14 H14 SING N N 37 VD3 C15 C16 SING N N 38 VD3 C15 H151 SING N N 39 VD3 C15 H152 SING N N 40 VD3 C16 C17 SING N N 41 VD3 C16 H161 SING N N 42 VD3 C16 H162 SING N N 43 VD3 C17 C20 SING N N 44 VD3 C17 H17 SING N N 45 VD3 C18 H181 SING N N 46 VD3 C18 H182 SING N N 47 VD3 C18 H183 SING N N 48 VD3 C19 H191 SING N N 49 VD3 C19 H192 SING N N 50 VD3 C20 C21 SING N N 51 VD3 C20 C22 SING N N 52 VD3 C20 H20 SING N N 53 VD3 C21 H211 SING N N 54 VD3 C21 H212 SING N N 55 VD3 C21 H213 SING N N 56 VD3 C22 C23 SING N N 57 VD3 C22 H221 SING N N 58 VD3 C22 H222 SING N N 59 VD3 C23 C24 SING N N 60 VD3 C23 H231 SING N N 61 VD3 C23 H232 SING N N 62 VD3 C24 C25 SING N N 63 VD3 C24 H241 SING N N 64 VD3 C24 H242 SING N N 65 VD3 C25 C26 SING N N 66 VD3 C25 C27 SING N N 67 VD3 C25 H25 SING N N 68 VD3 C26 H261 SING N N 69 VD3 C26 H262 SING N N 70 VD3 C26 H263 SING N N 71 VD3 C27 H271 SING N N 72 VD3 C27 H272 SING N N 73 VD3 C27 H273 SING N N 74 # # loop_ _pdbx_chem_comp_descriptor.comp_id _pdbx_chem_comp_descriptor.type _pdbx_chem_comp_descriptor.program _pdbx_chem_comp_descriptor.program_version _pdbx_chem_comp_descriptor.descriptor VD3 SMILES ACDLabs 10.04 "OC3CC(=C/C=C1\CCCC2(C)C(C(C)CCCC(C)C)CCC12)\C(=C)CC3" VD3 SMILES_CANONICAL CACTVS 3.341 "CC(C)CCC[C@@H](C)[C@H]1CC[C@H]2C(/CCC[C@]12C)=C\C=C3/C[C@@H](O)CCC3=C" VD3 SMILES CACTVS 3.341 "CC(C)CCC[CH](C)[CH]1CC[CH]2C(CCC[C]12C)=CC=C3C[CH](O)CCC3=C" VD3 SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "CC(C)CCC[C@@H](C)[C@H]1CC[C@@H]2[C@@]1(CCCC2=CC=C3C[C@H](CCC3=C)O)C" VD3 SMILES "OpenEye OEToolkits" 1.5.0 "CC(C)CCCC(C)C1CCC2C1(CCCC2=CC=C3CC(CCC3=C)O)C" VD3 InChI InChI 1.03 "InChI=1S/C27H44O/c1-19(2)8-6-9-21(4)25-15-16-26-22(10-7-17-27(25,26)5)12-13-23-18-24(28)14-11-20(23)3/h12-13,19,21,24-26,28H,3,6-11,14-18H2,1-2,4-5H3/t21-,24+,25-,26+,27-/m1/s1" VD3 InChIKey InChI 1.03 QYSXJUFSXHHAJI-RWDMXNMGSA-N # # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version _pdbx_chem_comp_identifier.identifier VD3 "SYSTEMATIC NAME" ACDLabs 10.04 "(3S,5E,7Z,14beta,17alpha)-9,10-secocholesta-5,7,10-trien-3-ol" VD3 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "(1S)-3-[2-[(1R,3aS,7aR)-7a-methyl-1-[(2R)-6-methylheptan-2-yl]-2,3,3a,5,6,7-hexahydro-1H-inden-4-ylidene]ethylidene]-4-methylidene-cyclohexan-1-ol" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site VD3 "Create component" 2006-06-15 EBI VD3 "Modify descriptor" 2011-06-04 RCSB VD3 "Modify synonyms" 2020-06-05 PDBE # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id VD3 _pdbx_chem_comp_synonyms.name "VITAMIN D3" _pdbx_chem_comp_synonyms.provenance ? _pdbx_chem_comp_synonyms.type ? ##