data_VND
#

_chem_comp.id                                   VND
_chem_comp.name                                 "(1S,2S,3R,4S,5S)-5-(butylamino)-1-(hydroxymethyl)cyclohexane-1,2,3,4-tetrol"
_chem_comp.type                                 non-polymer
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C11 H23 N O5"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2020-08-30
_chem_comp.pdbx_modified_date                   2021-10-08
_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                       249.304
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    VND
_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       7JTY
_chem_comp.pdbx_subcomponent_list               ?
_chem_comp.pdbx_processing_site                 RCSB
#   #
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
VND  N1   N1   N  0  1  N  N  N  -11.185  22.895  -13.479  -1.102   0.474  -0.484  N1   VND   1  
VND  C4   C1   C  0  1  N  N  R   -8.812  21.727  -12.372   0.924  -1.364   0.473  C4   VND   2  
VND  C5   C2   C  0  1  N  N  S   -8.948  22.034  -10.880   2.177  -0.524   0.217  C5   VND   3  
VND  C6   C3   C  0  1  N  N  S  -10.235  22.823  -10.604   1.772   0.830  -0.369  C6   VND   4  
VND  C7   C4   C  0  1  N  N  N  -10.238  23.247   -9.127   3.025   1.670  -0.625  C7   VND   5  
VND  C8   C5   C  0  1  N  N  N  -12.292  23.649  -14.032  -2.500   0.056  -0.649  C8   VND   6  
VND  C10  C6   C  0  1  N  N  N  -14.200  22.275  -12.852  -4.836   0.371   0.181  C10  VND   7  
VND  C1   C7   C  0  1  N  N  N  -10.387  24.067  -11.488   1.026   0.612  -1.687  C1   VND   8  
VND  C11  C8   C  0  1  N  N  N  -15.578  21.672  -13.147  -5.715   1.122   1.183  C11  VND   9  
VND  C2   C9   C  0  1  N  N  S  -10.130  23.788  -12.974  -0.227  -0.228  -1.432  C2   VND  10  
VND  C3   C10  C  0  1  N  N  S   -8.784  23.057  -13.127   0.178  -1.582  -0.845  C3   VND  11  
VND  C9   C11  C  0  1  N  N  N  -13.584  22.823  -14.131  -3.379   0.807   0.353  C9   VND  12  
VND  O1   O1   O  0  1  N  N  N  -11.311  21.982  -10.882   0.921   1.513   0.553  O1   VND  13  
VND  O2   O2   O  0  1  N  N  N   -9.273  24.254   -8.958   3.783   1.775   0.582  O2   VND  14  
VND  O3   O3   O  0  1  N  N  N   -9.045  20.810  -10.205   2.874  -0.321   1.448  O3   VND  15  
VND  O4   O4   O  0  1  N  N  N   -7.599  21.035  -12.564   1.302  -2.629   1.020  O4   VND  16  
VND  O5   O5   O  0  1  N  N  N   -8.485  22.876  -14.487  -0.992  -2.366  -0.607  O5   VND  17  
VND  H1   H1   H  0  1  N  N  N  -11.520  22.329  -12.726  -1.010   1.475  -0.580  H1   VND  18  
VND  H3   H3   H  0  1  N  N  N   -9.673  21.129  -12.707   0.275  -0.843   1.176  H3   VND  19  
VND  H4   H4   H  0  1  N  N  N   -8.078  22.615  -10.540   2.826  -1.045  -0.486  H4   VND  20  
VND  H5   H5   H  0  1  N  N  N  -11.231  23.633   -8.852   3.632   1.192  -1.394  H5   VND  21  
VND  H6   H6   H  0  1  N  N  N   -9.991  22.384   -8.491   2.733   2.665  -0.959  H6   VND  22  
VND  H7   H7   H  0  1  N  N  N  -12.015  23.991  -15.040  -2.830   0.283  -1.663  H7   VND  23  
VND  H8   H8   H  0  1  N  N  N  -12.480  24.520  -13.388  -2.582  -1.016  -0.472  H8   VND  24  
VND  H9   H9   H  0  1  N  N  N  -13.543  21.496  -12.437  -4.918  -0.701   0.358  H9   VND  25  
VND  H10  H10  H  0  1  N  N  N  -14.309  23.091  -12.122  -5.166   0.598  -0.833  H10  VND  26  
VND  H11  H11  H  0  1  N  N  N   -9.670  24.828  -11.146   0.738   1.577  -2.105  H11  VND  27  
VND  H12  H12  H  0  1  N  N  N  -11.411  24.452  -11.377   1.676   0.091  -2.391  H12  VND  28  
VND  H13  H13  H  0  1  N  N  N  -16.014  21.279  -12.216  -6.753   0.812   1.060  H13  VND  29  
VND  H14  H14  H  0  1  N  N  N  -16.237  22.449  -13.561  -5.385   0.895   2.197  H14  VND  30  
VND  H15  H15  H  0  1  N  N  N  -15.472  20.855  -13.876  -5.633   2.194   1.006  H15  VND  31  
VND  H16  H16  H  0  1  N  N  N  -10.111  24.732  -13.538  -0.758  -0.383  -2.371  H16  VND  32  
VND  H17  H17  H  0  1  N  N  N   -8.010  23.687  -12.665   0.827  -2.103  -1.549  H17  VND  33  
VND  H18  H18  H  0  1  N  N  N  -14.342  23.463  -14.607  -3.050   0.580   1.367  H18  VND  34  
VND  H19  H19  H  0  1  N  N  N  -13.369  21.962  -14.782  -3.298   1.879   0.176  H19  VND  35  
VND  H20  H20  H  0  1  N  N  N  -11.247  21.198  -10.349   1.329   1.685   1.412  H20  VND  36  
VND  H21  H21  H  0  1  N  N  N   -9.259  24.531   -8.049   4.593   2.295   0.494  H21  VND  37  
VND  H22  H22  H  0  1  N  N  N   -9.131  20.968   -9.272   3.161  -1.139   1.877  H22  VND  38  
VND  H23  H23  H  0  1  N  N  N   -7.626  20.211  -12.092   0.556  -3.215   1.208  H23  VND  39  
VND  H24  H24  H  0  1  N  N  N   -7.653  22.425  -14.572  -0.811  -3.240  -0.234  H24  VND  40  
#   #
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
VND  O5   C3   SING  N  N   1  
VND  C9   C8   SING  N  N   2  
VND  C9   C10  SING  N  N   3  
VND  C8   N1   SING  N  N   4  
VND  N1   C2   SING  N  N   5  
VND  C11  C10  SING  N  N   6  
VND  C3   C2   SING  N  N   7  
VND  C3   C4   SING  N  N   8  
VND  C2   C1   SING  N  N   9  
VND  O4   C4   SING  N  N  10  
VND  C4   C5   SING  N  N  11  
VND  C1   C6   SING  N  N  12  
VND  O1   C6   SING  N  N  13  
VND  C5   C6   SING  N  N  14  
VND  C5   O3   SING  N  N  15  
VND  C6   C7   SING  N  N  16  
VND  C7   O2   SING  N  N  17  
VND  N1   H1   SING  N  N  18  
VND  C4   H3   SING  N  N  19  
VND  C5   H4   SING  N  N  20  
VND  C7   H5   SING  N  N  21  
VND  C7   H6   SING  N  N  22  
VND  C8   H7   SING  N  N  23  
VND  C8   H8   SING  N  N  24  
VND  C10  H9   SING  N  N  25  
VND  C10  H10  SING  N  N  26  
VND  C1   H11  SING  N  N  27  
VND  C1   H12  SING  N  N  28  
VND  C11  H13  SING  N  N  29  
VND  C11  H14  SING  N  N  30  
VND  C11  H15  SING  N  N  31  
VND  C2   H16  SING  N  N  32  
VND  C3   H17  SING  N  N  33  
VND  C9   H18  SING  N  N  34  
VND  C9   H19  SING  N  N  35  
VND  O1   H20  SING  N  N  36  
VND  O2   H21  SING  N  N  37  
VND  O3   H22  SING  N  N  38  
VND  O4   H23  SING  N  N  39  
VND  O5   H24  SING  N  N  40  
#   #
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
VND  SMILES            ACDLabs               12.01  "N(C1CC(C(C(C1O)O)O)(CO)O)CCCC"  
VND  InChI             InChI                 1.03   "InChI=1S/C11H23NO5/c1-2-3-4-12-7-5-11(17,6-13)10(16)9(15)8(7)14/h7-10,12-17H,2-6H2,1H3/t7-,8-,9+,10-,11-/m0/s1"  
VND  InChIKey          InChI                 1.03   OSBGPDPUURWCPT-HHKYUTTNSA-N  
VND  SMILES_CANONICAL  CACTVS                3.385  "CCCCN[C@H]1C[C@](O)(CO)[C@@H](O)[C@H](O)[C@H]1O"  
VND  SMILES            CACTVS                3.385  "CCCCN[CH]1C[C](O)(CO)[CH](O)[CH](O)[CH]1O"  
VND  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "CCCCN[C@H]1C[C@@]([C@H]([C@@H]([C@H]1O)O)O)(CO)O"  
VND  SMILES            "OpenEye OEToolkits"  2.0.7  "CCCCNC1CC(C(C(C1O)O)O)(CO)O"  
#   #
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
VND  "SYSTEMATIC NAME"  ACDLabs               12.01  "(1S,2S,3R,4S,5S)-5-(butylamino)-1-(hydroxymethyl)cyclohexane-1,2,3,4-tetrol"  
VND  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  2.0.7  "(1~{S},2~{S},3~{R},4~{S},5~{S})-5-(butylamino)-1-(hydroxymethyl)cyclohexane-1,2,3,4-tetrol"  
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
VND  "Create component"  2020-08-30  RCSB  
VND  "Initial release"   2021-10-13  RCSB  
##
