data_R7Y
#

_chem_comp.id                                   R7Y
_chem_comp.name                                 
;(1S,2S,3R,4S,6R)-3-{[2-(acetylamino)-6-amino-2,3,6-trideoxy-alpha-D-ribo-hexopyranosyl]oxy}-4,6-diamino-2-hydroxycycloh
exyl 3-amino-3-deoxy-alpha-D-glucopyranoside
;

_chem_comp.type                                 non-polymer
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C20 H39 N5 O10"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        acetylated-tobramycin
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2020-02-07
_chem_comp.pdbx_modified_date                   2021-05-28
_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                       509.551
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    R7Y
_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       6VR2
_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
R7Y  C01  C1   C  0  1  N  N  N  -14.157  14.298  21.609  -2.503   4.610   2.177  C01  R7Y   1  
R7Y  C02  C2   C  0  1  N  N  N  -12.666  13.994  21.530  -3.174   3.740   1.145  C02  R7Y   2  
R7Y  C05  C3   C  0  1  N  N  R  -10.668  13.225  20.274  -3.436   1.615  -0.018  C05  R7Y   3  
R7Y  C06  C4   C  0  1  N  N  N   -9.862  14.434  20.018  -4.702   0.996   0.581  C06  R7Y   4  
R7Y  C07  C5   C  0  1  N  N  S   -8.422  14.091  20.033  -5.333   0.054  -0.450  C07  R7Y   5  
R7Y  C09  C6   C  0  1  N  N  R   -8.099  12.928  19.099  -4.305  -1.005  -0.858  C09  R7Y   6  
R7Y  C10  C7   C  0  1  N  N  N   -6.715  12.355  19.373  -4.907  -1.914  -1.932  C10  R7Y   7  
R7Y  C13  C8   C  0  1  N  N  R  -10.412  12.170  19.214  -2.481   0.497  -0.444  C13  R7Y   8  
R7Y  C15  C9   C  0  1  N  N  R  -10.410  11.991  16.788  -0.980  -1.128   0.480  C15  R7Y   9  
R7Y  C16  C10  C  0  1  N  N  S  -10.738  12.932  15.616  -1.091  -2.346   1.399  C16  R7Y  10  
R7Y  C18  C11  C  0  1  N  N  N  -10.396  12.313  14.251   0.099  -3.277   1.158  C18  R7Y  11  
R7Y  C19  C12  C  0  1  N  N  R  -11.037  10.933  14.077   1.400  -2.529   1.456  C19  R7Y  12  
R7Y  C21  C13  C  0  1  N  N  S  -10.660   9.988  15.224   1.511  -1.311   0.537  C21  R7Y  13  
R7Y  C23  C14  C  0  1  N  N  S  -10.456   7.737  14.583   3.845  -1.067   0.052  C23  R7Y  14  
R7Y  C25  C15  C  0  1  N  N  R  -10.777   6.402  16.578   3.571   0.747  -1.493  C25  R7Y  15  
R7Y  C26  C16  C  0  1  N  N  N  -10.025   5.708  17.717   3.378   1.056  -2.979  C26  R7Y  16  
R7Y  C28  C17  C  0  1  N  N  S  -11.602   5.389  15.783   4.845   1.431  -0.991  C28  R7Y  17  
R7Y  C30  C18  C  0  1  N  N  S  -12.266   6.062  14.657   5.063   1.069   0.482  C30  R7Y  18  
R7Y  C32  C19  C  0  1  N  N  R  -11.307   6.745  13.782   5.130  -0.455   0.616  C32  R7Y  19  
R7Y  C34  C20  C  0  1  N  N  S  -11.059  10.604  16.575   0.321  -0.380   0.778  C34  R7Y  20  
R7Y  N04  N1   N  0  1  N  N  N  -12.098  13.511  20.290  -2.783   2.461   0.985  N04  R7Y  21  
R7Y  N11  N2   N  0  1  N  N  N   -6.386  11.520  18.232  -3.966  -3.000  -2.237  N11  R7Y  22  
R7Y  N17  N3   N  0  1  N  N  N  -10.043  14.213  15.794  -2.340  -3.064   1.113  N17  R7Y  23  
R7Y  N20  N4   N  0  1  N  N  N  -10.700  10.374  12.770   2.543  -3.423   1.225  N20  R7Y  24  
R7Y  N31  N5   N  0  1  N  N  N  -13.035   5.101  13.887   6.322   1.662   0.952  N31  R7Y  25  
R7Y  O03  O1   O  0  1  N  N  N  -11.966  14.137  22.481  -4.067   4.192   0.459  O03  R7Y  26  
R7Y  O08  O2   O  0  1  N  N  N   -7.650  15.175  19.597  -6.476  -0.584   0.123  O08  R7Y  27  
R7Y  O12  O3   O  0  1  N  N  N   -9.007  11.791  19.223  -3.140  -0.361  -1.378  O12  R7Y  28  
R7Y  O14  O4   O  0  1  N  N  N  -10.824  12.671  17.963  -2.092  -0.259   0.705  O14  R7Y  29  
R7Y  O22  O5   O  0  1  N  N  N  -11.314   8.740  15.074   2.726  -0.613   0.815  O22  R7Y  30  
R7Y  O24  O6   O  0  1  N  N  N   -9.812   7.072  15.710   3.687  -0.665  -1.311  O24  R7Y  31  
R7Y  O27  O7   O  0  1  N  N  N   -8.958   4.980  17.168   2.141   0.497  -3.425  O27  R7Y  32  
R7Y  O29  O8   O  0  1  N  N  N  -12.565   4.800  16.618   4.708   2.848  -1.118  O29  R7Y  33  
R7Y  O33  O9   O  0  1  N  N  N  -12.003   7.435  12.783   5.261  -0.808   1.995  O33  R7Y  34  
R7Y  O35  O10  O  0  1  N  N  N  -10.703   9.698  17.591   0.424   0.757  -0.081  O35  R7Y  35  
R7Y  H1   H1   H  0  1  N  N  N  -14.409  14.639  22.624  -3.032   4.521   3.126  H1   R7Y  36  
R7Y  H2   H2   H  0  1  N  N  N  -14.409  15.086  20.884  -1.469   4.289   2.305  H2   R7Y  37  
R7Y  H3   H3   H  0  1  N  N  N  -14.729  13.388  21.375  -2.523   5.648   1.846  H3   R7Y  38  
R7Y  H4   H4   H  0  1  N  N  N  -10.377  12.808  21.249  -3.701   2.219  -0.886  H4   R7Y  39  
R7Y  H5   H5   H  0  1  N  N  N  -10.067  15.181  20.799  -4.444   0.433   1.478  H5   R7Y  40  
R7Y  H6   H6   H  0  1  N  N  N  -10.128  14.848  19.034  -5.410   1.785   0.834  H6   R7Y  41  
R7Y  H7   H7   H  0  1  N  N  N   -8.132  13.807  21.055  -5.636   0.625  -1.327  H7   R7Y  42  
R7Y  H8   H8   H  0  1  N  N  N   -8.122  13.299  18.064  -4.033  -1.602   0.012  H8   R7Y  43  
R7Y  H9   H9   H  0  1  N  N  N   -6.727  11.754  20.294  -5.843  -2.336  -1.567  H9   R7Y  44  
R7Y  H10  H10  H  0  1  N  N  N   -5.980  13.167  19.475  -5.097  -1.333  -2.834  H10  R7Y  45  
R7Y  H11  H11  H  0  1  N  N  N  -11.016  11.286  19.467  -1.596   0.931  -0.910  H11  R7Y  46  
R7Y  H12  H12  H  0  1  N  N  N   -9.319  11.851  16.812  -0.981  -1.457  -0.560  H12  R7Y  47  
R7Y  H13  H13  H  0  1  N  N  N  -11.822  13.119  15.634  -1.091  -2.017   2.439  H13  R7Y  48  
R7Y  H14  H14  H  0  1  N  N  N   -9.304  12.211  14.170   0.020  -4.144   1.813  H14  R7Y  49  
R7Y  H15  H15  H  0  1  N  N  N  -10.763  12.979  13.456   0.099  -3.605   0.119  H15  R7Y  50  
R7Y  H16  H16  H  0  1  N  N  N  -12.127  11.073  14.117   1.400  -2.201   2.496  H16  R7Y  51  
R7Y  H17  H17  H  0  1  N  N  N   -9.569   9.846  15.215   1.510  -1.640  -0.503  H17  R7Y  52  
R7Y  H18  H18  H  0  1  N  N  N   -9.694   8.170  13.919   3.905  -2.154   0.106  H18  R7Y  53  
R7Y  H19  H19  H  0  1  N  N  N  -11.460   7.147  17.012   2.713   1.117  -0.931  H19  R7Y  54  
R7Y  H20  H20  H  0  1  N  N  N   -9.638   6.461  18.419   3.364   2.135  -3.127  H20  R7Y  55  
R7Y  H21  H21  H  0  1  N  N  N  -10.705   5.026  18.249   4.199   0.622  -3.550  H21  R7Y  56  
R7Y  H22  H22  H  0  1  N  N  N  -10.921   4.619  15.391   5.697   1.093  -1.580  H22  R7Y  57  
R7Y  H23  H23  H  0  1  N  N  N  -12.957   6.814  15.065   4.235   1.452   1.078  H23  R7Y  58  
R7Y  H24  H24  H  0  1  N  N  N  -10.636   6.000  13.330   5.988  -0.833   0.060  H24  R7Y  59  
R7Y  H25  H25  H  0  1  N  N  N  -12.150  10.742  16.572   0.321  -0.052   1.817  H25  R7Y  60  
R7Y  H26  H26  H  0  1  N  N  N  -12.664  13.379  19.476  -2.070   2.099   1.534  H26  R7Y  61  
R7Y  H27  H27  H  0  1  N  N  N   -5.480  11.117  18.363  -3.723  -3.513  -1.404  H27  R7Y  62  
R7Y  H28  H28  H  0  1  N  N  N   -7.065  10.791  18.145  -4.341  -3.615  -2.944  H28  R7Y  63  
R7Y  H30  H30  H  0  1  N  N  N  -10.278  14.599  16.686  -2.381  -3.936   1.619  H30  R7Y  64  
R7Y  H31  H31  H  0  1  N  N  N   -9.055  14.066  15.744  -3.143  -2.489   1.319  H31  R7Y  65  
R7Y  H33  H33  H  0  1  N  N  N  -11.125   9.474  12.672   2.493  -4.235   1.821  H33  R7Y  66  
R7Y  H34  H34  H  0  1  N  N  N  -11.037  10.982  12.051   2.602  -3.690   0.254  H34  R7Y  67  
R7Y  H36  H36  H  0  1  N  N  N  -13.687   4.638  14.487   6.488   1.436   1.922  H36  R7Y  68  
R7Y  H37  H37  H  0  1  N  N  N  -13.530   5.577  13.160   7.097   1.370   0.375  H37  R7Y  69  
R7Y  H39  H39  H  0  1  N  N  N   -7.818  15.928  20.152  -7.167   0.029   0.408  H39  R7Y  70  
R7Y  H40  H40  H  0  1  N  N  N   -8.481   4.543  17.864   1.953   0.654  -4.361  H40  R7Y  71  
R7Y  H41  H41  H  0  1  N  N  N  -12.132   4.366  17.344   4.562   3.149  -2.026  H41  R7Y  72  
R7Y  H42  H42  H  0  1  N  N  N  -12.532   6.823  12.284   5.305  -1.760   2.155  H42  R7Y  73  
R7Y  H43  H43  H  0  1  N  N  N  -10.941  10.060  18.436   1.194   1.315   0.096  H43  R7Y  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
R7Y  N20  C19  SING  N  N   1  
R7Y  O33  C32  SING  N  N   2  
R7Y  C32  C23  SING  N  N   3  
R7Y  C32  C30  SING  N  N   4  
R7Y  N31  C30  SING  N  N   5  
R7Y  C19  C18  SING  N  N   6  
R7Y  C19  C21  SING  N  N   7  
R7Y  C18  C16  SING  N  N   8  
R7Y  C23  O22  SING  N  N   9  
R7Y  C23  O24  SING  N  N  10  
R7Y  C30  C28  SING  N  N  11  
R7Y  O22  C21  SING  N  N  12  
R7Y  C21  C34  SING  N  N  13  
R7Y  C16  N17  SING  N  N  14  
R7Y  C16  C15  SING  N  N  15  
R7Y  O24  C25  SING  N  N  16  
R7Y  C28  C25  SING  N  N  17  
R7Y  C28  O29  SING  N  N  18  
R7Y  C34  C15  SING  N  N  19  
R7Y  C34  O35  SING  N  N  20  
R7Y  C25  C26  SING  N  N  21  
R7Y  C15  O14  SING  N  N  22  
R7Y  O27  C26  SING  N  N  23  
R7Y  O14  C13  SING  N  N  24  
R7Y  N11  C10  SING  N  N  25  
R7Y  C09  O12  SING  N  N  26  
R7Y  C09  C10  SING  N  N  27  
R7Y  C09  C07  SING  N  N  28  
R7Y  C13  O12  SING  N  N  29  
R7Y  C13  C05  SING  N  N  30  
R7Y  O08  C07  SING  N  N  31  
R7Y  C06  C07  SING  N  N  32  
R7Y  C06  C05  SING  N  N  33  
R7Y  C05  N04  SING  N  N  34  
R7Y  N04  C02  SING  N  N  35  
R7Y  C02  C01  SING  N  N  36  
R7Y  C02  O03  DOUB  N  N  37  
R7Y  C01  H1   SING  N  N  38  
R7Y  C01  H2   SING  N  N  39  
R7Y  C01  H3   SING  N  N  40  
R7Y  C05  H4   SING  N  N  41  
R7Y  C06  H5   SING  N  N  42  
R7Y  C06  H6   SING  N  N  43  
R7Y  C07  H7   SING  N  N  44  
R7Y  C09  H8   SING  N  N  45  
R7Y  C10  H9   SING  N  N  46  
R7Y  C10  H10  SING  N  N  47  
R7Y  C13  H11  SING  N  N  48  
R7Y  C15  H12  SING  N  N  49  
R7Y  C16  H13  SING  N  N  50  
R7Y  C18  H14  SING  N  N  51  
R7Y  C18  H15  SING  N  N  52  
R7Y  C19  H16  SING  N  N  53  
R7Y  C21  H17  SING  N  N  54  
R7Y  C23  H18  SING  N  N  55  
R7Y  C25  H19  SING  N  N  56  
R7Y  C26  H20  SING  N  N  57  
R7Y  C26  H21  SING  N  N  58  
R7Y  C28  H22  SING  N  N  59  
R7Y  C30  H23  SING  N  N  60  
R7Y  C32  H24  SING  N  N  61  
R7Y  C34  H25  SING  N  N  62  
R7Y  N04  H26  SING  N  N  63  
R7Y  N11  H27  SING  N  N  64  
R7Y  N11  H28  SING  N  N  65  
R7Y  N17  H30  SING  N  N  66  
R7Y  N17  H31  SING  N  N  67  
R7Y  N20  H33  SING  N  N  68  
R7Y  N20  H34  SING  N  N  69  
R7Y  N31  H36  SING  N  N  70  
R7Y  N31  H37  SING  N  N  71  
R7Y  O08  H39  SING  N  N  72  
R7Y  O27  H40  SING  N  N  73  
R7Y  O29  H41  SING  N  N  74  
R7Y  O33  H42  SING  N  N  75  
R7Y  O35  H43  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
R7Y  SMILES            ACDLabs               12.01  "CC(=O)NC1CC(C(OC1OC2C(N)CC(C(C2O)OC3OC(CO)C(O)C(C3O)N)N)CN)O"  
R7Y  InChI             InChI                 1.03   "InChI=1S/C20H39N5O10/c1-6(27)25-9-3-10(28)11(4-21)32-19(9)34-17-7(22)2-8(23)18(16(17)31)35-20-15(30)13(24)14(29)12(5-26)33-20/h7-20,26,28-31H,2-5,21-24H2,1H3,(H,25,27)/t7-,8+,9+,10-,11+,12+,13-,14+,15+,16-,17+,18-,19+,20+/m0/s1"  
R7Y  InChIKey          InChI                 1.03   DMDYSSAQCCMAGB-VMNCQBCKSA-N  
R7Y  SMILES_CANONICAL  CACTVS                3.385  "CC(=O)N[C@@H]1C[C@H](O)[C@@H](CN)O[C@@H]1O[C@@H]2[C@@H](N)C[C@@H](N)[C@H](O[C@H]3O[C@H](CO)[C@@H](O)[C@H](N)[C@H]3O)[C@H]2O"  
R7Y  SMILES            CACTVS                3.385  "CC(=O)N[CH]1C[CH](O)[CH](CN)O[CH]1O[CH]2[CH](N)C[CH](N)[CH](O[CH]3O[CH](CO)[CH](O)[CH](N)[CH]3O)[CH]2O"  
R7Y  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "CC(=O)N[C@@H]1C[C@@H]([C@H](O[C@@H]1O[C@@H]2[C@H](C[C@H]([C@@H]([C@H]2O)O[C@@H]3[C@@H]([C@H]([C@@H]([C@H](O3)CO)O)N)O)N)N)CN)O"  
R7Y  SMILES            "OpenEye OEToolkits"  2.0.7  "CC(=O)NC1CC(C(OC1OC2C(CC(C(C2O)OC3C(C(C(C(O3)CO)O)N)O)N)N)CN)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
R7Y  "SYSTEMATIC NAME"  ACDLabs               12.01  "(1S,2S,3R,4S,6R)-3-{[2-(acetylamino)-6-amino-2,3,6-trideoxy-alpha-D-ribo-hexopyranosyl]oxy}-4,6-diamino-2-hydroxycyclohexyl 3-amino-3-deoxy-alpha-D-glucopyranoside"  
R7Y  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  2.0.7  "~{N}-[(2~{R},3~{R},5~{S},6~{R})-6-(aminomethyl)-2-[(1~{R},2~{S},3~{S},4~{R},6~{S})-4,6-bis(azanyl)-3-[(2~{S},3~{R},4~{S},5~{S},6~{R})-4-azanyl-6-(hydroxymethyl)-3,5-bis(oxidanyl)oxan-2-yl]oxy-2-oxidanyl-cyclohexyl]oxy-5-oxidanyl-oxan-3-yl]ethanamide"  
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     R7Y
_pdbx_chem_comp_synonyms.name        acetylated-tobramycin
_pdbx_chem_comp_synonyms.provenance  ?
_pdbx_chem_comp_synonyms.type        ?
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
R7Y  "Create component"  2020-02-07  RCSB  
R7Y  "Modify synonyms"   2020-02-07  RCSB  
R7Y  "Modify synonyms"   2020-06-05  PDBE  
R7Y  "Initial release"   2021-06-02  RCSB  
##
