data_ZD1
#

_chem_comp.id                                   ZD1
_chem_comp.name                                 "(1R,4S,5S,6R)-4-amino-5,6-dihydroxy-2-(hydroxymethyl)cyclohex-2-en-1-yl alpha-D-glucopyranoside"
_chem_comp.type                                 non-polymer
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C13 H23 N O9"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2021-04-14
_chem_comp.pdbx_modified_date                   2021-07-09
_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                       337.323
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    ZD1
_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       7MGY
_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
ZD1  C02  C1   C  0  1  N  N  S  23.602  -29.967  278.093   4.017  -0.602   0.381  C02  ZD1   1  
ZD1  C03  C2   C  0  1  N  N  N  24.962  -30.316  277.555   2.885  -1.558   0.620  C03  ZD1   2  
ZD1  C04  C3   C  0  1  N  N  N  25.261  -30.496  276.264   1.664  -1.343   0.247  C04  ZD1   3  
ZD1  C05  C4   C  0  1  N  N  N  26.700  -30.507  275.756   0.633  -2.394   0.568  C05  ZD1   4  
ZD1  C07  C5   C  0  1  N  N  R  24.232  -30.392  275.170   1.212  -0.113  -0.484  C07  ZD1   5  
ZD1  C09  C6   C  0  1  N  N  S  23.765  -31.525  273.073  -0.924   0.893  -0.899  C09  ZD1   6  
ZD1  C10  C7   C  0  1  N  N  R  23.225  -32.867  272.512  -1.767   1.987  -0.240  C10  ZD1   7  
ZD1  C12  C8   C  0  1  N  N  S  24.376  -33.924  272.381  -2.614   1.366   0.875  C12  ZD1   8  
ZD1  C14  C9   C  0  1  N  N  S  25.530  -33.335  271.512  -3.475   0.246   0.284  C14  ZD1   9  
ZD1  C16  C10  C  0  1  N  N  R  26.011  -32.047  272.264  -2.565  -0.781  -0.395  C16  ZD1  10  
ZD1  C17  C11  C  0  1  N  N  N  27.211  -31.322  271.504  -3.421  -1.873  -1.040  C17  ZD1  11  
ZD1  C20  C12  C  0  1  N  N  R  22.795  -29.946  275.693   2.257   0.996  -0.347  C20  ZD1  12  
ZD1  C22  C13  C  0  1  N  N  S  22.519  -30.454  277.106   3.629   0.412  -0.697  C22  ZD1  13  
ZD1  N01  N1   N  0  1  N  N  N  23.470  -30.629  279.383   4.327   0.108   1.629  N01  ZD1  14  
ZD1  O06  O1   O  0  1  N  N  N  26.999  -29.258  275.183   1.277  -3.538   1.133  O06  ZD1  15  
ZD1  O08  O2   O  0  1  N  N  N  24.079  -31.639  274.471  -0.029   0.335   0.065  O08  ZD1  16  
ZD1  O11  O3   O  0  1  N  N  N  22.279  -33.345  273.446  -0.907   2.985   0.313  O11  ZD1  17  
ZD1  O13  O4   O  0  1  N  N  N  23.880  -35.047  271.691  -3.457   2.368   1.449  O13  ZD1  18  
ZD1  O15  O5   O  0  1  N  N  N  26.576  -34.298  271.482  -4.215  -0.389   1.329  O15  ZD1  19  
ZD1  O18  O6   O  0  1  N  N  N  26.668  -30.754  270.319  -2.576  -2.923  -1.516  O18  ZD1  20  
ZD1  O19  O7   O  0  1  N  N  N  24.918  -31.124  272.369  -1.783  -0.133  -1.400  O19  ZD1  21  
ZD1  O21  O8   O  0  1  N  N  N  22.850  -28.550  275.837   1.946   2.063  -1.243  O21  ZD1  22  
ZD1  O23  O9   O  0  1  N  N  N  22.481  -31.858  277.006   4.600   1.459  -0.739  O23  ZD1  23  
ZD1  H1   H1   H  0  1  N  N  N  23.519  -28.877  278.212   4.896  -1.158   0.054  H1   ZD1  24  
ZD1  H2   H2   H  0  1  N  N  N  25.763  -30.431  278.270   3.103  -2.482   1.134  H2   ZD1  25  
ZD1  H3   H3   H  0  1  N  N  N  26.817  -31.296  274.999  -0.085  -1.992   1.283  H3   ZD1  26  
ZD1  H4   H4   H  0  1  N  N  N  27.385  -30.700  276.595   0.113  -2.684  -0.345  H4   ZD1  27  
ZD1  H5   H5   H  0  1  N  N  N  24.568  -29.623  274.458   1.073  -0.350  -1.539  H5   ZD1  28  
ZD1  H6   H6   H  0  1  N  N  N  22.976  -30.769  272.943  -0.351   1.321  -1.722  H6   ZD1  29  
ZD1  H7   H7   H  0  1  N  N  N  22.770  -32.698  271.525  -2.421   2.441  -0.985  H7   ZD1  30  
ZD1  H8   H8   H  0  1  N  N  N  24.756  -34.186  273.380  -1.959   0.956   1.645  H8   ZD1  31  
ZD1  H9   H9   H  0  1  N  N  N  25.163  -33.078  270.507  -4.163   0.664  -0.450  H9   ZD1  32  
ZD1  H10  H10  H  0  1  N  N  N  26.363  -32.337  273.265  -1.904  -1.229   0.347  H10  ZD1  33  
ZD1  H11  H11  H  0  1  N  N  N  27.993  -32.052  271.249  -4.116  -2.273  -0.302  H11  ZD1  34  
ZD1  H12  H12  H  0  1  N  N  N  27.639  -30.533  272.140  -3.981  -1.451  -1.875  H12  ZD1  35  
ZD1  H13  H13  H  0  1  N  N  N  22.015  -30.278  274.992   2.265   1.368   0.678  H13  ZD1  36  
ZD1  H14  H14  H  0  1  N  N  N  21.544  -30.067  277.437   3.579  -0.085  -1.666  H14  ZD1  37  
ZD1  H15  H15  H  0  1  N  N  N  24.181  -30.297  280.003   4.591  -0.539   2.357  H15  ZD1  38  
ZD1  H16  H16  H  0  1  N  N  N  22.570  -30.428  279.770   5.045   0.801   1.482  H16  ZD1  39  
ZD1  H18  H18  H  0  1  N  N  N  27.894  -29.261  274.865   0.695  -4.301   1.247  H18  ZD1  40  
ZD1  H19  H19  H  0  1  N  N  N  21.575  -32.714  273.536  -0.337   3.418  -0.338  H19  ZD1  41  
ZD1  H20  H20  H  0  1  N  N  N  23.172  -35.438  272.189  -2.977   3.112   1.837  H20  ZD1  42  
ZD1  H21  H21  H  0  1  N  N  N  26.278  -35.076  271.025  -4.814   0.205   1.803  H21  ZD1  43  
ZD1  H22  H22  H  0  1  N  N  N  27.355  -30.311  269.836  -3.044  -3.615  -2.003  H22  ZD1  44  
ZD1  H23  H23  H  0  1  N  N  N  22.012  -28.230  276.149   2.569   2.802  -1.208  H23  ZD1  45  
ZD1  H24  H24  H  0  1  N  N  N  22.311  -32.232  277.862   5.493   1.159  -0.956  H24  ZD1  46  
#   #
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
ZD1  O18  C17  SING  N  N   1  
ZD1  O15  C14  SING  N  N   2  
ZD1  C17  C16  SING  N  N   3  
ZD1  C14  C16  SING  N  N   4  
ZD1  C14  C12  SING  N  N   5  
ZD1  O13  C12  SING  N  N   6  
ZD1  C16  O19  SING  N  N   7  
ZD1  O19  C09  SING  N  N   8  
ZD1  C12  C10  SING  N  N   9  
ZD1  C10  C09  SING  N  N  10  
ZD1  C10  O11  SING  N  N  11  
ZD1  C09  O08  SING  N  N  12  
ZD1  O08  C07  SING  N  N  13  
ZD1  C07  C20  SING  N  N  14  
ZD1  C07  C04  SING  N  N  15  
ZD1  O06  C05  SING  N  N  16  
ZD1  C20  O21  SING  N  N  17  
ZD1  C20  C22  SING  N  N  18  
ZD1  C05  C04  SING  N  N  19  
ZD1  C04  C03  DOUB  N  N  20  
ZD1  O23  C22  SING  N  N  21  
ZD1  C22  C02  SING  N  N  22  
ZD1  C03  C02  SING  N  N  23  
ZD1  C02  N01  SING  N  N  24  
ZD1  C02  H1   SING  N  N  25  
ZD1  C03  H2   SING  N  N  26  
ZD1  C05  H3   SING  N  N  27  
ZD1  C05  H4   SING  N  N  28  
ZD1  C07  H5   SING  N  N  29  
ZD1  C09  H6   SING  N  N  30  
ZD1  C10  H7   SING  N  N  31  
ZD1  C12  H8   SING  N  N  32  
ZD1  C14  H9   SING  N  N  33  
ZD1  C16  H10  SING  N  N  34  
ZD1  C17  H11  SING  N  N  35  
ZD1  C17  H12  SING  N  N  36  
ZD1  C20  H13  SING  N  N  37  
ZD1  C22  H14  SING  N  N  38  
ZD1  N01  H15  SING  N  N  39  
ZD1  N01  H16  SING  N  N  40  
ZD1  O06  H18  SING  N  N  41  
ZD1  O11  H19  SING  N  N  42  
ZD1  O13  H20  SING  N  N  43  
ZD1  O15  H21  SING  N  N  44  
ZD1  O18  H22  SING  N  N  45  
ZD1  O21  H23  SING  N  N  46  
ZD1  O23  H24  SING  N  N  47  
#   #
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
ZD1  SMILES            ACDLabs               12.01  "OCC1=CC(N)C(O)C(O)C1OC1OC(CO)C(O)C(O)C1O"  
ZD1  InChI             InChI                 1.03   "InChI=1S/C13H23NO9/c14-5-1-4(2-15)12(10(20)7(5)17)23-13-11(21)9(19)8(18)6(3-16)22-13/h1,5-13,15-21H,2-3,14H2/t5-,6+,7-,8+,9-,10+,11+,12+,13+/m0/s1"  
ZD1  InChIKey          InChI                 1.03   UINFOZNGFLXUEC-QHWKHWDXSA-N  
ZD1  SMILES_CANONICAL  CACTVS                3.385  "N[C@H]1C=C(CO)[C@@H](O[C@H]2O[C@H](CO)[C@@H](O)[C@H](O)[C@H]2O)[C@H](O)[C@H]1O"  
ZD1  SMILES            CACTVS                3.385  "N[CH]1C=C(CO)[CH](O[CH]2O[CH](CO)[CH](O)[CH](O)[CH]2O)[CH](O)[CH]1O"  
ZD1  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "C1=C([C@H]([C@@H]([C@H]([C@H]1N)O)O)O[C@@H]2[C@@H]([C@H]([C@@H]([C@H](O2)CO)O)O)O)CO"  
ZD1  SMILES            "OpenEye OEToolkits"  2.0.7  "C1=C(C(C(C(C1N)O)O)OC2C(C(C(C(O2)CO)O)O)O)CO"  
#   #
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
ZD1  "SYSTEMATIC NAME"  ACDLabs               12.01  "(1R,4S,5S,6R)-4-amino-5,6-dihydroxy-2-(hydroxymethyl)cyclohex-2-en-1-yl alpha-D-glucopyranoside"  
ZD1  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  2.0.7  "(2~{S},3~{R},4~{S},5~{S},6~{R})-2-[(1~{R},4~{S},5~{S},6~{R})-4-azanyl-2-(hydroxymethyl)-5,6-bis(oxidanyl)cyclohex-2-en-1-yl]oxy-6-(hydroxymethyl)oxane-3,4,5-triol"  
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
ZD1  "Create component"  2021-04-14  RCSB  
ZD1  "Initial release"   2021-07-14  RCSB  
##
