data_VDZ
#

_chem_comp.id                                   VDZ
_chem_comp.name                                 
;5-{2-[1-(5-HYDROXY-1,5-DIMETHYL-HEXYL)-7A-METHYL-OCTAHYDRO-INDEN-4-YLIDENE]-ETHYLIDENE}-2-METHYLENE-CYCLOHEXANE-1,3-DIO
L
;

_chem_comp.type                                 NON-POLYMER
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C27 H44 O3"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        "2-METHYLENE-19-NOR-(20S)-1ALPHA,25-DIHYDROXY-VITAMIN D3; 2MD"
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2003-12-17
_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                       416.636
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    VDZ
_chem_comp.pdbx_model_coordinates_details       ?
_chem_comp.pdbx_model_coordinates_missing_flag  N
_chem_comp.pdbx_ideal_coordinates_details       Corina
_chem_comp.pdbx_ideal_coordinates_missing_flag  N
_chem_comp.pdbx_model_coordinates_db_code       1RJK
_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
VDZ  O1    O1    O  0  1  N  N  N  60.750   4.465   2.321  -3.583   1.478   1.706  O1    VDZ   1  
VDZ  C1    C1    C  0  1  N  N  R  60.342   5.624   1.550  -4.836   0.790   1.675  C1    VDZ   2  
VDZ  C2    C2    C  0  1  N  N  N  60.774   6.948   2.031  -5.851   1.619   0.921  C2    VDZ   3  
VDZ  C28   C28   C  0  1  N  N  N  61.437   7.054   3.164  -6.907   2.097   1.532  C28   VDZ   4  
VDZ  C3    C3    C  0  1  N  N  R  60.568   8.207   1.231  -5.627   1.886  -0.550  C3    VDZ   5  
VDZ  O2    O2    O  0  1  N  N  N  59.068   8.230   1.261  -6.753   2.582  -1.088  O2    VDZ   6  
VDZ  C4    C4    C  0  1  N  N  N  60.935   8.127  -0.223  -5.458   0.543  -1.271  C4    VDZ   7  
VDZ  C10   C10   C  0  1  N  N  N  60.912   5.543   0.105  -4.667  -0.553   0.953  C10   VDZ   8  
VDZ  C5    C5    C  0  1  N  N  N  60.738   6.773  -0.822  -4.443  -0.285  -0.517  C5    VDZ   9  
VDZ  C6    C6    C  0  1  N  N  N  60.373   6.819  -2.186  -3.372  -0.770  -1.137  C6    VDZ  10  
VDZ  C7    C7    C  0  1  N  N  N  60.087   5.589  -2.985  -2.336  -1.478  -0.369  C7    VDZ  11  
VDZ  C8    C8    C  0  1  N  N  N  60.417   5.432  -4.250  -1.216  -1.870  -0.968  C8    VDZ  12  
VDZ  C9    C9    C  0  1  N  N  N  61.209   6.465  -5.004  -0.949  -1.615  -2.445  C9    VDZ  13  
VDZ  C11   C11   C  0  1  N  N  N  62.524   5.788  -5.463   0.426  -0.980  -2.644  C11   VDZ  14  
VDZ  C14   C14   C  0  1  N  N  S  60.079   4.108  -4.903  -0.123  -2.590  -0.236  C14   VDZ  15  
VDZ  C13   C13   C  0  1  N  N  R  61.472   3.461  -5.335   1.147  -1.710  -0.415  C13   VDZ  16  
VDZ  C12   C12   C  0  1  N  N  N  62.385   4.401  -6.141   1.521  -1.739  -1.875  C12   VDZ  17  
VDZ  C18   C18   C  0  1  N  N  N  62.288   3.114  -3.984   0.825  -0.273  -0.001  C18   VDZ  18  
VDZ  C15   C15   C  0  1  N  N  N  59.198   3.027  -4.321  -0.236  -2.644   1.289  C15   VDZ  19  
VDZ  C16   C16   C  0  1  N  N  N  59.651   1.753  -5.105   1.238  -2.854   1.736  C16   VDZ  20  
VDZ  C17   C17   C  0  1  N  N  R  60.946   2.140  -5.909   2.124  -2.302   0.589  C17   VDZ  21  
VDZ  C20   C20   C  0  1  N  N  S  61.840   0.914  -6.008   3.064  -1.217   1.119  C20   VDZ  22  
VDZ  C21   C21   C  0  1  N  N  N  61.004  -0.108  -6.815   4.037  -1.833   2.126  C21   VDZ  23  
VDZ  C22   C22   C  0  1  N  N  N  63.271   1.147  -6.557   3.850  -0.610  -0.045  C22   VDZ  24  
VDZ  C23   C23   C  0  1  N  N  N  64.070  -0.151  -6.592   4.697   0.557   0.466  C23   VDZ  25  
VDZ  C24   C24   C  0  1  N  N  N  65.574   0.014  -6.804   5.484   1.164  -0.698  C24   VDZ  26  
VDZ  C25   C25   C  0  1  N  N  N  66.378  -1.318  -6.672   6.331   2.331  -0.188  C25   VDZ  27  
VDZ  C26   C26   C  0  1  N  N  N  67.692  -1.049  -7.347   7.305   1.826   0.878  C26   VDZ  28  
VDZ  C27   C27   C  0  1  N  N  N  66.537  -1.890  -5.234   7.117   2.938  -1.351  C27   VDZ  29  
VDZ  O3    O3    O  0  1  N  N  N  65.723  -2.313  -7.402   5.477   3.326   0.381  O3    VDZ  30  
VDZ  HO1   HO1   H  0  1  N  N  N  60.471   3.611   2.010  -3.621   2.343   2.137  HO1   VDZ  31  
VDZ  H1    H1    H  0  1  N  N  N  59.231   5.567   1.633  -5.185   0.621   2.693  H1    VDZ  32  
VDZ  H281  1H28  H  0  0  N  N  N  61.587   6.131   3.750  -7.058   1.900   2.583  H281  VDZ  33  
VDZ  H282  2H28  H  0  0  N  N  N  61.760   8.045   3.524  -7.626   2.687   0.984  H282  VDZ  34  
VDZ  H3    H3    H  0  1  N  N  N  61.168   9.055   1.635  -4.728   2.489  -0.679  H3    VDZ  35  
VDZ  HO2   HO2   H  0  1  N  N  N  58.938   9.024   0.756  -6.925   3.435  -0.668  HO2   VDZ  36  
VDZ  H41   1H4   H  0  1  N  N  N  60.385   8.899  -0.809  -6.413   0.018  -1.295  H41   VDZ  37  
VDZ  H42   2H4   H  0  1  N  N  N  61.980   8.478  -0.383  -5.107   0.715  -2.289  H42   VDZ  38  
VDZ  H101  1H10  H  0  0  N  N  N  61.993   5.274   0.154  -3.809  -1.084   1.364  H101  VDZ  39  
VDZ  H102  2H10  H  0  0  N  N  N  60.492   4.643  -0.401  -5.568  -1.153   1.083  H102  VDZ  40  
VDZ  H6    H6    H  0  1  N  N  N  60.310   7.825  -2.631  -3.261  -0.643  -2.204  H6    VDZ  41  
VDZ  H7    H7    H  0  1  N  N  N  59.573   4.693  -2.596  -2.485  -1.679   0.681  H7    VDZ  42  
VDZ  H91   1H9   H  0  1  N  N  N  60.638   6.925  -5.844  -0.990  -2.560  -2.986  H91   VDZ  43  
VDZ  H92   2H9   H  0  1  N  N  N  61.379   7.398  -4.417  -1.714  -0.944  -2.837  H92   VDZ  44  
VDZ  H111  1H11  H  0  0  N  N  N  63.088   6.478  -6.132   0.669  -0.986  -3.706  H111  VDZ  45  
VDZ  H112  2H11  H  0  0  N  N  N  63.230   5.716  -4.603   0.395   0.051  -2.294  H112  VDZ  46  
VDZ  H14   H14   H  0  1  N  N  N  59.353   4.456  -5.674   0.031  -3.584  -0.655  H14   VDZ  47  
VDZ  H121  1H12  H  0  0  N  N  N  62.038   4.497  -7.196   1.575  -2.768  -2.228  H121  VDZ  48  
VDZ  H122  2H12  H  0  0  N  N  N  63.382   3.938  -6.326   2.482  -1.246  -2.018  H122  VDZ  49  
VDZ  H181  1H18  H  0  0  N  N  N  63.261   2.661  -4.285   0.488  -0.260   1.036  H181  VDZ  50  
VDZ  H182  2H18  H  0  0  N  N  N  62.408   3.994  -3.311   1.719   0.343  -0.100  H182  VDZ  51  
VDZ  H183  3H18  H  0  0  N  N  N  61.709   2.470  -3.280   0.039   0.123  -0.644  H183  VDZ  52  
VDZ  H151  1H15  H  0  0  N  N  N  59.245   2.933  -3.210  -0.628  -1.705   1.680  H151  VDZ  53  
VDZ  H152  2H15  H  0  0  N  N  N  58.104   3.240  -4.368  -0.858  -3.483   1.600  H152  VDZ  54  
VDZ  H161  1H16  H  0  0  N  N  N  59.793   0.863  -4.448   1.432  -2.305   2.657  H161  VDZ  55  
VDZ  H162  2H16  H  0  0  N  N  N  58.847   1.327  -5.749   1.436  -3.916   1.884  H162  VDZ  56  
VDZ  H17   H17   H  0  1  N  N  N  60.804   2.390  -6.986   2.696  -3.109   0.130  H17   VDZ  57  
VDZ  H20   H20   H  0  1  N  N  N  62.097   0.541  -4.989   2.480  -0.438   1.608  H20   VDZ  58  
VDZ  H211  1H21  H  0  0  N  N  N  61.659  -1.007  -6.887   3.477  -2.266   2.955  H211  VDZ  59  
VDZ  H212  2H21  H  0  0  N  N  N  59.995  -0.312  -6.385   4.621  -2.613   1.637  H212  VDZ  60  
VDZ  H213  3H21  H  0  0  N  N  N  60.643   0.273  -7.798   4.707  -1.060   2.504  H213  VDZ  61  
VDZ  H221  1H22  H  0  0  N  N  N  63.250   1.641  -7.556   4.501  -1.370  -0.478  H221  VDZ  62  
VDZ  H222  2H22  H  0  0  N  N  N  63.804   1.940  -5.983   3.156  -0.251  -0.804  H222  VDZ  63  
VDZ  H231  1H23  H  0  0  N  N  N  63.876  -0.745  -5.668   4.046   1.316   0.899  H231  VDZ  64  
VDZ  H232  2H23  H  0  0  N  N  N  63.648  -0.839  -7.360   5.392   0.197   1.225  H232  VDZ  65  
VDZ  H241  1H24  H  0  0  N  N  N  65.781   0.502  -7.784   6.135   0.405  -1.132  H241  VDZ  66  
VDZ  H242  2H24  H  0  0  N  N  N  65.984   0.790  -6.117   4.789   1.523  -1.457  H242  VDZ  67  
VDZ  H261  1H26  H  0  0  N  N  N  68.266  -2.000  -7.252   7.957   1.067   0.445  H261  VDZ  68  
VDZ  H262  2H26  H  0  0  N  N  N  67.594  -0.683  -8.395   7.909   2.658   1.242  H262  VDZ  69  
VDZ  H263  3H26  H  0  0  N  N  N  68.229  -0.156  -6.949   6.745   1.394   1.707  H263  VDZ  70  
VDZ  H271  1H27  H  0  0  N  N  N  67.111  -2.841  -5.139   6.423   3.297  -2.111  H271  VDZ  71  
VDZ  H272  2H27  H  0  0  N  N  N  66.982  -1.114  -4.568   7.720   3.770  -0.988  H272  VDZ  72  
VDZ  H273  3H27  H  0  0  N  N  N  65.533  -2.008  -4.763   7.768   2.179  -1.785  H273  VDZ  73  
VDZ  HO3   HO3   H  0  1  N  N  N  66.212  -3.123  -7.321   4.832   3.692  -0.240  HO3   VDZ  74  
#   #
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
VDZ  O1   C1    SING  N  N   1  
VDZ  O1   HO1   SING  N  N   2  
VDZ  C1   C2    SING  N  N   3  
VDZ  C1   C10   SING  N  N   4  
VDZ  C1   H1    SING  N  N   5  
VDZ  C2   C28   DOUB  N  N   6  
VDZ  C2   C3    SING  N  N   7  
VDZ  C28  H281  SING  N  N   8  
VDZ  C28  H282  SING  N  N   9  
VDZ  C3   O2    SING  N  N  10  
VDZ  C3   C4    SING  N  N  11  
VDZ  C3   H3    SING  N  N  12  
VDZ  O2   HO2   SING  N  N  13  
VDZ  C4   C5    SING  N  N  14  
VDZ  C4   H41   SING  N  N  15  
VDZ  C4   H42   SING  N  N  16  
VDZ  C10  C5    SING  N  N  17  
VDZ  C10  H101  SING  N  N  18  
VDZ  C10  H102  SING  N  N  19  
VDZ  C5   C6    DOUB  N  N  20  
VDZ  C6   C7    SING  N  N  21  
VDZ  C6   H6    SING  N  N  22  
VDZ  C7   C8    DOUB  N  E  23  
VDZ  C7   H7    SING  N  N  24  
VDZ  C8   C9    SING  N  N  25  
VDZ  C8   C14   SING  N  N  26  
VDZ  C9   C11   SING  N  N  27  
VDZ  C9   H91   SING  N  N  28  
VDZ  C9   H92   SING  N  N  29  
VDZ  C11  C12   SING  N  N  30  
VDZ  C11  H111  SING  N  N  31  
VDZ  C11  H112  SING  N  N  32  
VDZ  C14  C13   SING  N  N  33  
VDZ  C14  C15   SING  N  N  34  
VDZ  C14  H14   SING  N  N  35  
VDZ  C13  C12   SING  N  N  36  
VDZ  C13  C18   SING  N  N  37  
VDZ  C13  C17   SING  N  N  38  
VDZ  C12  H121  SING  N  N  39  
VDZ  C12  H122  SING  N  N  40  
VDZ  C18  H181  SING  N  N  41  
VDZ  C18  H182  SING  N  N  42  
VDZ  C18  H183  SING  N  N  43  
VDZ  C15  C16   SING  N  N  44  
VDZ  C15  H151  SING  N  N  45  
VDZ  C15  H152  SING  N  N  46  
VDZ  C16  C17   SING  N  N  47  
VDZ  C16  H161  SING  N  N  48  
VDZ  C16  H162  SING  N  N  49  
VDZ  C17  C20   SING  N  N  50  
VDZ  C17  H17   SING  N  N  51  
VDZ  C20  C21   SING  N  N  52  
VDZ  C20  C22   SING  N  N  53  
VDZ  C20  H20   SING  N  N  54  
VDZ  C21  H211  SING  N  N  55  
VDZ  C21  H212  SING  N  N  56  
VDZ  C21  H213  SING  N  N  57  
VDZ  C22  C23   SING  N  N  58  
VDZ  C22  H221  SING  N  N  59  
VDZ  C22  H222  SING  N  N  60  
VDZ  C23  C24   SING  N  N  61  
VDZ  C23  H231  SING  N  N  62  
VDZ  C23  H232  SING  N  N  63  
VDZ  C24  C25   SING  N  N  64  
VDZ  C24  H241  SING  N  N  65  
VDZ  C24  H242  SING  N  N  66  
VDZ  C25  C26   SING  N  N  67  
VDZ  C25  C27   SING  N  N  68  
VDZ  C25  O3    SING  N  N  69  
VDZ  C26  H261  SING  N  N  70  
VDZ  C26  H262  SING  N  N  71  
VDZ  C26  H263  SING  N  N  72  
VDZ  C27  H271  SING  N  N  73  
VDZ  C27  H272  SING  N  N  74  
VDZ  C27  H273  SING  N  N  75  
VDZ  O3   HO3   SING  N  N  76  
#   #
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
VDZ  SMILES            ACDLabs               10.04  "OC3/C(=C)C(O)CC(=C\C=C1/CCCC2(C1CCC2C(C)CCCC(O)(C)C)C)\C3"  
VDZ  InChI             InChI                 1.03   "InChI=1S/C27H44O3/c1-18(8-6-14-26(3,4)30)22-12-13-23-21(9-7-15-27(22,23)5)11-10-20-16-24(28)19(2)25(29)17-20/h10-11,18,22-25,28-30H,2,6-9,12-17H2,1,3-5H3/b21-11+/t18-,22+,23-,24+,25+,27+/m0/s1"  
VDZ  InChIKey          InChI                 1.03   UHMPCVGLSKFXHR-NAQZCRMNSA-N  
VDZ  SMILES_CANONICAL  CACTVS                3.385  "C[C@@H](CCCC(C)(C)O)[C@H]1CC[C@H]2C(/CCC[C@]12C)=C/C=C3C[C@@H](O)C(=C)[C@H](O)C3"  
VDZ  SMILES            CACTVS                3.385  "C[CH](CCCC(C)(C)O)[CH]1CC[CH]2C(CCC[C]12C)=CC=C3C[CH](O)C(=C)[CH](O)C3"  
VDZ  SMILES_CANONICAL  "OpenEye OEToolkits"  1.7.5  "C[C@@H](CCCC(C)(C)O)[C@H]1CC[C@@H]\2[C@@]1(CCC/C2=C\C=C3C[C@H](C(=C)[C@@H](C3)O)O)C"  
VDZ  SMILES            "OpenEye OEToolkits"  1.7.5  "CC(CCCC(C)(C)O)C1CCC2C1(CCCC2=CC=C3CC(C(=C)C(C3)O)O)C"  
#   #
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
VDZ  "SYSTEMATIC NAME"  ACDLabs               10.04  "(1R,3R,7E,17beta)-17-[(1S)-5-hydroxy-1,5-dimethylhexyl]-2-methylidene-9,10-secoestra-5,7-diene-1,3-diol"  
VDZ  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  1.5.0  "(1R,3R)-5-[(2E)-2-[(1R,3aS,7aR)-1-[(2S)-6-hydroxy-6-methyl-heptan-2-yl]-7a-methyl-2,3,3a,5,6,7-hexahydro-1H-inden-4-ylidene]ethylidene]-2-methylidene-cyclohexane-1,3-diol"  
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
VDZ  "Create component"    2003-12-17  PDBJ  
VDZ  "Modify descriptor"   2011-06-04  RCSB  
VDZ  "Modify descriptor"   2012-01-05  RCSB  
VDZ  "Modify coordinates"  2012-01-05  RCSB  
VDZ  "Modify synonyms"     2020-06-05  PDBE  
#   #
loop_
_pdbx_chem_comp_synonyms.ordinal
_pdbx_chem_comp_synonyms.comp_id
_pdbx_chem_comp_synonyms.name
_pdbx_chem_comp_synonyms.provenance
_pdbx_chem_comp_synonyms.type
1  VDZ  "2-METHYLENE-19-NOR-(20S)-1ALPHA,25-DIHYDROXY-VITAMIN D3"  ?  ?  
2  VDZ  2MD                                                        ?  ?  
##
