data_VDY
#

_chem_comp.id                                   VDY
_chem_comp.name                                 "3-{2-[1-(5-HYDROXY-1,5-DIMETHYL-HEXYL)-7A-METHYL-OCTAHYDRO-INDEN-4-YLIDENE]-ETHYLIDENE}-4-METHYLENE-CYCLOHEXANOL"
_chem_comp.type                                 NON-POLYMER
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C27 H44 O2"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        "25-HYDROXYVITAMIN D3"
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2001-05-18
_chem_comp.pdbx_modified_date                   2021-03-01
_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                       400.637
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    VDY
_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       1J78
_chem_comp.pdbx_subcomponent_list               ?
_chem_comp.pdbx_processing_site                 PDBJ
#   #
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
VDY  O1    O1    O  0  1  N  N  N  -28.787  -57.440  45.430  -1.505   1.897  -7.827  O1    VDY   1  
VDY  O2    O2    O  0  1  N  N  N  -17.338  -54.894  48.355  -2.743   0.908   6.676  O2    VDY   2  
VDY  C1    C1    C  0  1  N  N  N  -25.736  -55.906  43.634  -2.714  -0.417  -5.126  C1    VDY   3  
VDY  C2    C2    C  0  1  N  N  N  -27.219  -56.325  43.882  -2.590   0.170  -6.535  C2    VDY   4  
VDY  C3    C3    C  0  1  N  N  S  -27.394  -57.240  45.115  -1.512   1.254  -6.551  C3    VDY   5  
VDY  C4    C4    C  0  1  N  N  N  -26.701  -56.653  46.357  -0.140   0.625  -6.290  C4    VDY   6  
VDY  C5    C5    C  0  1  N  N  N  -25.240  -56.334  46.083  -0.191  -0.096  -4.959  C5    VDY   7  
VDY  C6    C6    C  0  1  N  N  N  -24.252  -56.928  46.781   0.784   0.047  -4.038  C6    VDY   8  
VDY  C7    C7    C  0  1  N  N  N  -22.872  -57.049  46.390   0.699  -0.667  -2.763  C7    VDY   9  
VDY  C8    C8    C  0  1  N  N  N  -21.768  -57.101  47.147   1.663  -0.525  -1.854  C8    VDY  10  
VDY  C9    C9    C  0  1  N  N  N  -21.731  -57.039  48.663   2.877   0.364  -2.084  C9    VDY  11  
VDY  C10   C10   C  0  1  N  N  N  -25.063  -55.397  44.895  -1.358  -0.970  -4.720  C10   VDY  12  
VDY  C11   C11   C  0  1  N  N  N  -20.863  -58.150  49.269   3.089   1.305  -0.900  C11   VDY  13  
VDY  C12   C12   C  0  1  N  N  N  -19.453  -58.240  48.625   3.039   0.555   0.441  C12   VDY  14  
VDY  C13   C13   C  0  1  N  N  R  -19.475  -58.373  47.073   1.695  -0.116   0.552  C13   VDY  15  
VDY  C14   C14   C  0  1  N  N  S  -20.370  -57.188  46.525   1.631  -1.231  -0.531  C14   VDY  16  
VDY  C15   C15   C  0  1  N  N  N  -20.205  -57.325  44.973   0.323  -1.935  -0.160  C15   VDY  17  
VDY  C16   C16   C  0  1  N  N  N  -18.761  -57.851  44.798   0.399  -2.004   1.391  C16   VDY  18  
VDY  C17   C17   C  0  1  N  N  R  -18.187  -57.956  46.221   1.345  -0.857   1.833  C17   VDY  19  
VDY  C18   C18   C  0  1  N  N  N  -20.060  -59.782  46.690   0.595   0.900   0.242  C18   VDY  20  
VDY  C19   C19   C  0  1  N  N  N  -24.416  -54.225  44.926  -1.232  -2.177  -4.169  C19   VDY  21  
VDY  C20   C20   C  0  1  N  N  R  -16.833  -58.765  46.226   0.627   0.077   2.808  C20   VDY  22  
VDY  C21   C21   C  0  1  N  N  N  -16.880  -60.294  46.023   1.552   1.238   3.176  C21   VDY  23  
VDY  C22   C22   C  0  1  N  N  N  -16.036  -58.450  47.537   0.252  -0.697   4.074  C22   VDY  24  
VDY  C23   C23   C  0  1  N  N  N  -15.425  -57.048  47.650  -0.465   0.237   5.049  C23   VDY  25  
VDY  C24   C24   C  0  1  N  N  N  -15.634  -56.451  49.066  -0.840  -0.536   6.315  C24   VDY  26  
VDY  C25   C25   C  0  1  N  N  N  -16.197  -55.030  49.240  -1.558   0.398   7.291  C25   VDY  27  
VDY  C26   C26   C  0  1  N  N  N  -16.685  -54.767  50.658  -1.933  -0.376   8.556  C26   VDY  28  
VDY  C27   C27   C  0  1  N  N  N  -15.148  -53.977  48.845  -0.633   1.559   7.658  C27   VDY  29  
VDY  HO1   HO1   H  0  1  N  N  N  -28.895  -58.002  46.188  -0.817   2.576  -7.795  HO1   VDY  30  
VDY  HO2   HO2   H  0  1  N  N  N  -17.686  -54.016  48.463  -3.297   0.146   6.461  HO2   VDY  31  
VDY  H11   1H1   H  0  1  N  N  N  -25.661  -55.160  42.809  -3.450  -1.221  -5.128  H11   VDY  32  
VDY  H12   2H1   H  0  1  N  N  N  -25.154  -56.739  43.175  -3.021   0.361  -4.429  H12   VDY  33  
VDY  H21   1H2   H  0  1  N  N  N  -27.655  -56.798  42.972  -3.545   0.605  -6.832  H21   VDY  34  
VDY  H22   2H2   H  0  1  N  N  N  -27.878  -55.428  43.956  -2.320  -0.619  -7.236  H22   VDY  35  
VDY  H31   1H3   H  0  1  N  N  N  -26.924  -58.215  44.849  -1.727   1.990  -5.776  H31   VDY  36  
VDY  H41   1H4   H  0  1  N  N  N  -26.813  -57.323  47.241   0.620   1.405  -6.256  H41   VDY  37  
VDY  H42   2H4   H  0  1  N  N  N  -27.247  -55.762  46.745   0.095  -0.083  -7.084  H42   VDY  38  
VDY  H61   1H6   H  0  1  N  N  N  -24.598  -57.345  47.742   1.628   0.689  -4.242  H61   VDY  39  
VDY  H71   1H7   H  0  1  N  N  N  -22.615  -57.113  45.319  -0.144  -1.309  -2.559  H71   VDY  40  
VDY  H91   1H9   H  0  1  N  N  N  -22.760  -57.052  49.092   3.761  -0.260  -2.209  H91   VDY  41  
VDY  H92   2H9   H  0  1  N  N  N  -21.404  -56.034  49.017   2.723   0.953  -2.988  H92   VDY  42  
VDY  H111  1H11  H  0  0  N  N  N  -21.386  -59.134  49.221   4.061   1.789  -1.001  H111  VDY  43  
VDY  H112  2H11  H  0  0  N  N  N  -20.788  -58.037  50.376   2.311   2.069  -0.910  H112  VDY  44  
VDY  H121  1H12  H  0  0  N  N  N  -18.866  -59.071  49.081   3.824  -0.199   0.472  H121  VDY  45  
VDY  H122  2H12  H  0  0  N  N  N  -18.824  -57.373  48.935   3.168   1.259   1.263  H122  VDY  46  
VDY  H141  1H14  H  0  0  N  N  N  -20.053  -56.166  46.838   2.476  -1.912  -0.437  H141  VDY  47  
VDY  H151  1H15  H  0  0  N  N  N  -20.426  -56.392  44.404   0.288  -2.936  -0.590  H151  VDY  48  
VDY  H152  2H15  H  0  0  N  N  N  -20.985  -57.952  44.482  -0.536  -1.346  -0.478  H152  VDY  49  
VDY  H161  1H16  H  0  0  N  N  N  -18.139  -57.234  44.108   0.806  -2.966   1.703  H161  VDY  50  
VDY  H162  2H16  H  0  0  N  N  N  -18.697  -58.801  44.218  -0.591  -1.859   1.821  H162  VDY  51  
VDY  H171  1H17  H  0  0  N  N  N  -17.775  -57.049  46.722   2.245  -1.264   2.293  H171  VDY  52  
VDY  H181  1H18  H  0  0  N  N  N  -21.061  -59.965  47.147   0.735   1.293  -0.764  H181  VDY  53  
VDY  H182  2H18  H  0  0  N  N  N  -20.076  -59.877  45.579  -0.378   0.414   0.310  H182  VDY  54  
VDY  H183  3H18  H  0  0  N  N  N  -19.510  -60.618  47.181   0.643   1.718   0.961  H183  VDY  55  
VDY  H191  1H19  H  0  0  N  N  N  -23.927  -53.855  45.843  -0.256  -2.544  -3.890  H191  VDY  56  
VDY  H192  2H19  H  0  0  N  N  N  -24.288  -53.547  44.066  -2.107  -2.789  -4.003  H192  VDY  57  
VDY  H201  1H20  H  0  0  N  N  N  -16.332  -58.400  45.300  -0.276   0.466   2.340  H201  VDY  58  
VDY  H211  1H21  H  0  0  N  N  N  -17.428  -60.515  45.078   2.455   0.849   3.645  H211  VDY  59  
VDY  H212  2H21  H  0  0  N  N  N  -15.923  -60.866  46.027   1.819   1.790   2.275  H212  VDY  60  
VDY  H213  3H21  H  0  0  N  N  N  -17.567  -60.737  46.781   1.040   1.904   3.871  H213  VDY  61  
VDY  H221  1H22  H  0  0  N  N  N  -15.241  -59.218  47.685  -0.406  -1.524   3.812  H221  VDY  62  
VDY  H222  2H22  H  0  0  N  N  N  -16.681  -58.650  48.424   1.156  -1.086   4.542  H222  VDY  63  
VDY  H231  1H23  H  0  0  N  N  N  -15.816  -56.367  46.858   0.193   1.065   5.312  H231  VDY  64  
VDY  H232  2H23  H  0  0  N  N  N  -14.348  -57.047  47.362  -1.369   0.627   4.581  H232  VDY  65  
VDY  H241  1H24  H  0  0  N  N  N  -14.667  -56.513  49.617  -1.499  -1.364   6.053  H241  VDY  66  
VDY  H242  2H24  H  0  0  N  N  N  -16.273  -57.154  49.650   0.063  -0.926   6.783  H242  VDY  67  
VDY  H261  1H26  H  0  0  N  N  N  -17.542  -55.417  50.951  -2.444   0.289   9.251  H261  VDY  68  
VDY  H262  2H26  H  0  0  N  N  N  -15.808  -54.871  51.338  -2.592  -1.203   8.294  H262  VDY  69  
VDY  H263  3H26  H  0  0  N  N  N  -17.204  -53.786  50.765  -1.029  -0.765   9.025  H263  VDY  70  
VDY  H271  1H27  H  0  0  N  N  N  -15.562  -52.942  48.836   0.270   1.170   8.127  H271  VDY  71  
VDY  H272  2H27  H  0  0  N  N  N  -14.271  -54.082  49.525  -0.366   2.111   6.757  H272  VDY  72  
VDY  H273  3H27  H  0  0  N  N  N  -14.865  -54.037  47.768  -1.145   2.225   8.354  H273  VDY  73  
#   #
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
VDY  O1   C3    SING  N  N   1  
VDY  O1   HO1   SING  N  N   2  
VDY  O2   C25   SING  N  N   3  
VDY  O2   HO2   SING  N  N   4  
VDY  C1   C2    SING  N  N   5  
VDY  C1   C10   SING  N  N   6  
VDY  C1   H11   SING  N  N   7  
VDY  C1   H12   SING  N  N   8  
VDY  C2   C3    SING  N  N   9  
VDY  C2   H21   SING  N  N  10  
VDY  C2   H22   SING  N  N  11  
VDY  C3   C4    SING  N  N  12  
VDY  C3   H31   SING  N  N  13  
VDY  C4   C5    SING  N  N  14  
VDY  C4   H41   SING  N  N  15  
VDY  C4   H42   SING  N  N  16  
VDY  C5   C6    DOUB  N  Z  17  
VDY  C5   C10   SING  N  N  18  
VDY  C6   C7    SING  N  N  19  
VDY  C6   H61   SING  N  N  20  
VDY  C7   C8    DOUB  N  E  21  
VDY  C7   H71   SING  N  N  22  
VDY  C8   C9    SING  N  N  23  
VDY  C8   C14   SING  N  N  24  
VDY  C9   C11   SING  N  N  25  
VDY  C9   H91   SING  N  N  26  
VDY  C9   H92   SING  N  N  27  
VDY  C10  C19   DOUB  N  N  28  
VDY  C11  C12   SING  N  N  29  
VDY  C11  H111  SING  N  N  30  
VDY  C11  H112  SING  N  N  31  
VDY  C12  C13   SING  N  N  32  
VDY  C12  H121  SING  N  N  33  
VDY  C12  H122  SING  N  N  34  
VDY  C13  C14   SING  N  N  35  
VDY  C13  C17   SING  N  N  36  
VDY  C13  C18   SING  N  N  37  
VDY  C14  C15   SING  N  N  38  
VDY  C14  H141  SING  N  N  39  
VDY  C15  C16   SING  N  N  40  
VDY  C15  H151  SING  N  N  41  
VDY  C15  H152  SING  N  N  42  
VDY  C16  C17   SING  N  N  43  
VDY  C16  H161  SING  N  N  44  
VDY  C16  H162  SING  N  N  45  
VDY  C17  C20   SING  N  N  46  
VDY  C17  H171  SING  N  N  47  
VDY  C18  H181  SING  N  N  48  
VDY  C18  H182  SING  N  N  49  
VDY  C18  H183  SING  N  N  50  
VDY  C19  H191  SING  N  N  51  
VDY  C19  H192  SING  N  N  52  
VDY  C20  C21   SING  N  N  53  
VDY  C20  C22   SING  N  N  54  
VDY  C20  H201  SING  N  N  55  
VDY  C21  H211  SING  N  N  56  
VDY  C21  H212  SING  N  N  57  
VDY  C21  H213  SING  N  N  58  
VDY  C22  C23   SING  N  N  59  
VDY  C22  H221  SING  N  N  60  
VDY  C22  H222  SING  N  N  61  
VDY  C23  C24   SING  N  N  62  
VDY  C23  H231  SING  N  N  63  
VDY  C23  H232  SING  N  N  64  
VDY  C24  C25   SING  N  N  65  
VDY  C24  H241  SING  N  N  66  
VDY  C24  H242  SING  N  N  67  
VDY  C25  C26   SING  N  N  68  
VDY  C25  C27   SING  N  N  69  
VDY  C26  H261  SING  N  N  70  
VDY  C26  H262  SING  N  N  71  
VDY  C26  H263  SING  N  N  72  
VDY  C27  H271  SING  N  N  73  
VDY  C27  H272  SING  N  N  74  
VDY  C27  H273  SING  N  N  75  
#   #
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
VDY  SMILES            ACDLabs               10.04  "OC3CC(=C/C=C1\CCCC2(C)C(C(C)CCCC(O)(C)C)CCC12)/C(=C)CC3"  
VDY  SMILES_CANONICAL  CACTVS                3.341  "C[C@H](CCCC(C)(C)O)[C@H]1CC[C@H]2C(/CCC[C@]12C)=C/C=C3/C[C@@H](O)CCC3=C"  
VDY  SMILES            CACTVS                3.341  "C[CH](CCCC(C)(C)O)[CH]1CC[CH]2C(CCC[C]12C)=CC=C3C[CH](O)CCC3=C"  
VDY  SMILES_CANONICAL  "OpenEye OEToolkits"  1.5.0  "C[C@H](CCCC(C)(C)O)[C@H]1CC[C@@H]\2[C@@]1(CCC/C2=C\C=C3C[C@H](CCC3=C)O)C"  
VDY  SMILES            "OpenEye OEToolkits"  1.5.0  "CC(CCCC(C)(C)O)C1CCC2C1(CCCC2=CC=C3CC(CCC3=C)O)C"  
VDY  InChI             InChI                 1.03   "InChI=1S/C27H44O2/c1-19-10-13-23(28)18-22(19)12-11-21-9-7-17-27(5)24(14-15-25(21)27)20(2)8-6-16-26(3,4)29/h11-12,20,23-25,28-29H,1,6-10,13-18H2,2-5H3/b21-11+,22-12-/t20-,23+,24-,25+,27-/m1/s1"  
VDY  InChIKey          InChI                 1.03   JWUBBDSIWDLEOM-DTOXIADCSA-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
VDY  "SYSTEMATIC NAME"  ACDLabs               10.04  "(3S,5Z,14beta,17alpha)-9,10-secocholesta-5,7,10-triene-3,25-diol"  
VDY  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  1.5.0  "(1S)-3-[(2E)-2-[(1R,3aS,7aR)-1-[(2R)-6-hydroxy-6-methyl-heptan-2-yl]-7a-methyl-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
VDY  "Create component"   2001-05-18  PDBJ  
VDY  "Modify descriptor"  2011-06-04  RCSB  
VDY  "Modify synonyms"    2021-03-01  PDBE  
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     VDY
_pdbx_chem_comp_synonyms.name        "25-HYDROXYVITAMIN D3"
_pdbx_chem_comp_synonyms.provenance  ?
_pdbx_chem_comp_synonyms.type        ?
##
