data_VDK
#

_chem_comp.id                                   VDK
_chem_comp.name                                 "[(1S,3S)-3-carboxycyclohexyl]azanium"
_chem_comp.type                                 "peptide linking"
_chem_comp.pdbx_type                            ATOMP
_chem_comp.formula                              "C7 H14 N O2"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   1
_chem_comp.pdbx_initial_date                    2021-05-07
_chem_comp.pdbx_modified_date                   2021-08-06
_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                       144.192
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    VDK
_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       7OFV
_chem_comp.pdbx_subcomponent_list               ?
_chem_comp.pdbx_processing_site                 PDBE
#   #
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
VDK  C2   C1   C  0  1  N  N  S  17.841  -32.654  -0.309   1.809   0.853  -0.279  C2   VDK   1  
VDK  C4   C2   C  0  1  N  N  N  16.957  -31.832   0.651   2.226  -0.537  -0.764  C4   VDK   2  
VDK  C5   C3   C  0  1  N  N  N  15.517  -32.347   0.685   1.453  -1.602   0.016  C5   VDK   3  
VDK  C6   C4   C  0  1  N  N  N  14.980  -32.307  -0.748  -0.048  -1.413  -0.210  C6   VDK   4  
VDK  C7   C5   C  0  1  N  N  S  15.781  -33.209  -1.728  -0.465  -0.023   0.275  C7   VDK   5  
VDK  N1   N1   N  1  1  N  N  N  19.170  -32.017  -0.463   2.108   0.982   1.154  N1   VDK   6  
VDK  C9   C6   C  0  1  N  N  N  17.226  -32.723  -1.718   0.307   1.043  -0.505  C9   VDK   7  
VDK  C10  C7   C  0  1  N  N  N  15.651  -34.661  -1.337  -1.944   0.164   0.052  C10  VDK   8  
VDK  O11  O1   O  0  1  N  N  N  16.614  -35.332  -1.023  -2.339   1.058  -0.659  O11  VDK   9  
VDK  H1   H1   H  0  1  N  N  N  17.955  -33.674   0.087   2.359   1.612  -0.835  H1   VDK  10  
VDK  H2   H2   H  0  1  N  N  N  17.380  -31.894   1.664   2.004  -0.633  -1.827  H2   VDK  11  
VDK  H3   H3   H  0  1  N  N  N  16.952  -30.783   0.319   3.295  -0.672  -0.602  H3   VDK  12  
VDK  H4   H4   H  0  1  N  N  N  14.904  -31.705   1.334   1.750  -2.593  -0.329  H4   VDK  13  
VDK  H5   H5   H  0  1  N  N  N  15.496  -33.379   1.065   1.675  -1.507   1.079  H5   VDK  14  
VDK  H6   H6   H  0  1  N  N  N  15.027  -31.269  -1.110  -0.270  -1.508  -1.273  H6   VDK  15  
VDK  H7   H7   H  0  1  N  N  N  13.933  -32.645  -0.739  -0.598  -2.172   0.346  H7   VDK  16  
VDK  H8   H8   H  0  1  N  N  N  15.369  -33.073  -2.739  -0.243   0.073   1.338  H8   VDK  17  
VDK  H9   H9   H  0  1  N  N  N  19.613  -31.949   0.431   3.098   0.857   1.303  H9   VDK  18  
VDK  H10  H10  H  0  1  N  Y  N  19.736  -32.570  -1.074   1.833   1.898   1.474  H10  VDK  19  
VDK  H12  H12  H  0  1  N  N  N  17.829  -33.412  -2.328   0.010   2.033  -0.160  H12  VDK  20  
VDK  H13  H13  H  0  1  N  N  N  17.258  -31.717  -2.161   0.085   0.947  -1.568  H13  VDK  21  
VDK  OXY  OXY  O  0  1  N  Y  N  14.414  -35.165  -1.344  -2.821  -0.662   0.642  OXY  VDK  22  
VDK  HXY  HXY  H  0  1  N  Y  N  14.441  -36.076  -1.076  -3.759  -0.503   0.469  HXY  VDK  23  
VDK  H11  H11  H  0  1  N  Y  N  19.058  -31.102  -0.850   1.598   0.279   1.668  H11  VDK  24  
#   #
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
VDK  C7   C9   SING  N  N   1  
VDK  C7   C10  SING  N  N   2  
VDK  C7   C6   SING  N  N   3  
VDK  C9   C2   SING  N  N   4  
VDK  C10  O11  DOUB  N  N   5  
VDK  C6   C5   SING  N  N   6  
VDK  N1   C2   SING  N  N   7  
VDK  C2   C4   SING  N  N   8  
VDK  C4   C5   SING  N  N   9  
VDK  C2   H1   SING  N  N  10  
VDK  C4   H2   SING  N  N  11  
VDK  C4   H3   SING  N  N  12  
VDK  C5   H4   SING  N  N  13  
VDK  C5   H5   SING  N  N  14  
VDK  C6   H6   SING  N  N  15  
VDK  C6   H7   SING  N  N  16  
VDK  C7   H8   SING  N  N  17  
VDK  N1   H9   SING  N  N  18  
VDK  N1   H10  SING  N  N  19  
VDK  C9   H12  SING  N  N  20  
VDK  C9   H13  SING  N  N  21  
VDK  C10  OXY  SING  N  N  22  
VDK  OXY  HXY  SING  N  N  23  
VDK  N1   H11  SING  N  N  24  
#   #
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
VDK  InChI             InChI                 1.03   "InChI=1S/C7H13NO2/c8-6-3-1-2-5(4-6)7(9)10/h5-6H,1-4,8H2,(H,9,10)/p+1/t5-,6-/m0/s1"  
VDK  InChIKey          InChI                 1.03   CKTUXQBZPWBFDX-WDSKDSINSA-O  
VDK  SMILES_CANONICAL  CACTVS                3.385  "[NH3+][C@H]1CCC[C@@H](C1)C(O)=O"  
VDK  SMILES            CACTVS                3.385  "[NH3+][CH]1CCC[CH](C1)C(O)=O"  
VDK  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "C1C[C@@H](C[C@H](C1)[NH3+])C(=O)O"  
VDK  SMILES            "OpenEye OEToolkits"  2.0.7  "C1CC(CC(C1)[NH3+])C(=O)O"  
#
_pdbx_chem_comp_identifier.comp_id          VDK
_pdbx_chem_comp_identifier.type             "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program          "OpenEye OEToolkits"
_pdbx_chem_comp_identifier.program_version  2.0.7
_pdbx_chem_comp_identifier.identifier       "[(1~{S},3~{S})-3-carboxycyclohexyl]azanium"
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
VDK  "Create component"  2021-05-07  PDBE  
VDK  "Initial release"   2021-08-11  RCSB  
##
