data_RIO
#

_chem_comp.id                                   RIO
_chem_comp.name                                 RIBOSTAMYCIN
_chem_comp.type                                 NON-POLYMER
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C17 H34 N4 O10"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        
;5-AMINO-2-AMINOMETHYL-6-[4,6-DIAMINO-2-(3,4-DIHYDROXY-5-HYDROXYMETHYL-TETRAHYDRO-FURAN-2-YLOXY)-3-HYDROXY-CYCLOHEXYLOXY
]-TETRAHYDRO-PYRAN-3,4-DIOL; (1R,2R,3S,4R,6S)-4,6-diamino-3-hydroxy-2-(beta-D-ribofuranosyloxy)cyclohexyl
2,6-diamino-2,6-dideoxy-alpha-D-glucopyranoside
;

_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2002-07-08
_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                       454.473
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    RIO
_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       1M4G
_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
RIO  O1    O1    O  0  1  N  N  N  24.194  29.545  11.223  -2.539   2.965  -2.713  O1    RIO   1  
RIO  C1    C1    C  0  1  N  N  N  23.639  29.733   9.924  -3.088   3.041  -1.396  C1    RIO   2  
RIO  C2    C2    C  0  1  N  N  R  22.270  30.359  10.078  -3.564   1.653  -0.962  C2    RIO   3  
RIO  O2    O2    O  0  1  N  N  N  21.509  29.585  11.021  -2.437   0.773  -0.817  O2    RIO   4  
RIO  C3    C3    C  0  1  N  N  S  20.725  30.474  11.854  -2.741  -0.126   0.271  C3    RIO   5  
RIO  O3    O3    O  0  1  N  N  N  21.403  30.562  13.096  -1.543  -0.688   0.810  O3    RIO   6  
RIO  C4    C4    C  0  1  N  N  R  21.114  29.584  14.101  -0.851  -1.556  -0.090  C4    RIO   7  
RIO  C5    C5    C  0  1  N  N  S  21.571  28.179  13.689  -1.357  -2.988   0.093  C5    RIO   8  
RIO  O4    O4    O  0  1  N  N  N  22.987  28.206  13.417  -2.759  -3.037  -0.181  O4    RIO   9  
RIO  C6    C6    C  0  1  N  N  R  21.303  27.081  14.764  -0.617  -3.917  -0.871  C6    RIO  10  
RIO  N1    N1    N  0  1  N  N  N  21.626  25.763  14.126  -1.102  -5.293  -0.696  N1    RIO  11  
RIO  C7    C7    C  0  1  N  N  N  19.823  27.049  15.165   0.884  -3.865  -0.578  C7    RIO  12  
RIO  C8    C8    C  0  1  N  N  S  19.357  28.493  15.631   1.390  -2.433  -0.761  C8    RIO  13  
RIO  N2    N2    N  0  1  N  N  N  17.884  28.464  15.950   2.831  -2.382  -0.479  N2    RIO  14  
RIO  C9    C9    C  0  1  N  N  R  19.619  29.587  14.567   0.650  -1.503   0.203  C9    RIO  15  
RIO  O5    O5    O  0  1  N  N  N  19.242  30.771  15.224   1.122  -0.166   0.032  O5    RIO  16  
RIO  C10   C10   C  0  1  N  N  R  19.276  32.054  14.610   1.709   0.398   1.207  C10   RIO  17  
RIO  O6    O6    O  0  1  N  N  N  18.499  32.005  13.376   3.099   0.066   1.251  O6    RIO  18  
RIO  C11   C11   C  0  1  N  N  R  17.073  31.761  13.441   3.844   0.523   0.121  C11   RIO  19  
RIO  C12   C12   C  0  1  N  N  N  16.509  32.091  12.051   5.304   0.088   0.263  C12   RIO  20  
RIO  N3    N3    N  0  1  N  N  N  17.198  31.238  11.064   5.388  -1.376   0.189  N3    RIO  21  
RIO  C13   C13   C  0  1  N  N  S  16.388  32.628  14.526   3.771   2.051   0.047  C13   RIO  22  
RIO  O7    O7    O  0  1  N  N  N  15.072  32.122  14.687   4.468   2.507  -1.114  O7    RIO  23  
RIO  C14   C14   C  0  1  N  N  R  17.180  32.539  15.849   2.303   2.481  -0.034  C14   RIO  24  
RIO  O8    O8    O  0  1  N  N  N  16.552  33.398  16.846   2.222   3.907  -0.029  O8    RIO  25  
RIO  C15   C15   C  0  1  N  N  R  18.631  33.011  15.610   1.551   1.920   1.177  C15   RIO  26  
RIO  N4    N4    N  0  1  N  N  N  19.377  32.950  16.913   0.126   2.263   1.071  N4    RIO  27  
RIO  C16   C16   C  0  1  N  N  R  20.846  31.839  11.190  -3.433   0.789   1.313  C16   RIO  28  
RIO  O9    O9    O  0  1  N  N  N  19.857  31.990  10.220  -4.290   0.030   2.168  O9    RIO  29  
RIO  C17   C17   C  0  1  N  N  S  22.237  31.788  10.569  -4.254   1.743   0.413  C17   RIO  30  
RIO  O10   O10   O  0  1  N  N  N  22.233  32.707   9.446  -5.610   1.301   0.321  O10   RIO  31  
RIO  HO1   HO1   H  0  1  N  N  N  25.141  29.503  11.160  -2.216   3.811  -3.054  HO1   RIO  32  
RIO  H1    H1    H  0  1  N  N  N  24.288  30.395   9.332  -2.324   3.396  -0.704  H1    RIO  33  
RIO  H1A   H1A   H  0  1  N  N  N  23.557  28.767   9.404  -3.931   3.732  -1.393  H1A   RIO  34  
RIO  H2    H2    H  0  1  N  N  N  21.859  30.367   9.058  -4.256   1.251  -1.701  H2    RIO  35  
RIO  H3    H3    H  0  1  N  N  N  19.683  30.147  11.982  -3.418  -0.914  -0.061  H3    RIO  36  
RIO  H4    H4    H  0  1  N  N  N  21.707  29.885  14.978  -1.033  -1.234  -1.116  H4    RIO  37  
RIO  H5    H5    H  0  1  N  N  N  20.980  27.912  12.801  -1.176  -3.309   1.118  H5    RIO  38  
RIO  HO4   HO4   H  0  1  N  N  N  23.129  28.212  12.478  -3.148  -3.917  -0.085  HO4   RIO  39  
RIO  H6    H6    H  0  1  N  N  N  21.909  27.286  15.659  -0.798  -3.596  -1.897  H6    RIO  40  
RIO  HN1   HN1   H  0  1  N  N  N  21.698  25.880  13.136  -0.628  -5.926  -1.321  HN1   RIO  41  
RIO  HN1A  HN1A  H  0  0  N  N  N  22.495  25.423  14.485  -1.004  -5.591   0.263  HN1A  RIO  42  
RIO  H7    H7    H  0  1  N  N  N  19.219  26.733  14.302   1.066  -4.186   0.448  H7    RIO  43  
RIO  H7A   H7A   H  0  1  N  N  N  19.688  26.340  15.995   1.412  -4.527  -1.265  H7A   RIO  44  
RIO  H8    H8    H  0  1  N  N  N  19.952  28.750  16.520   1.209  -2.112  -1.787  H8    RIO  45  
RIO  HN2   HN2   H  0  1  N  N  N  17.757  28.458  16.942   3.353  -2.897  -1.173  HN2   RIO  46  
RIO  HN2A  HN2A  H  0  0  N  N  N  17.443  29.274  15.563   3.154  -1.429  -0.417  HN2A  RIO  47  
RIO  H9    H9    H  0  1  N  N  N  19.056  29.441  13.634   0.831  -1.824   1.229  H9    RIO  48  
RIO  H10   H10   H  0  1  N  N  N  20.297  32.376  14.359   1.212  -0.002   2.090  H10   RIO  49  
RIO  H11   H11   H  0  1  N  N  N  16.879  30.714  13.718   3.424   0.095  -0.789  H11   RIO  50  
RIO  H12   H12   H  0  1  N  N  N  15.427  31.893  12.028   5.894   0.527  -0.542  H12   RIO  51  
RIO  H12A  H12A  H  0  0  N  N  N  16.672  33.153  11.816   5.692   0.427   1.224  H12A  RIO  52  
RIO  HN3   HN3   H  0  1  N  N  N  17.354  31.758  10.224   5.027  -1.716  -0.690  HN3   RIO  53  
RIO  HN3A  HN3A  H  0  0  N  N  N  18.076  30.938  11.438   6.335  -1.692   0.337  HN3A  RIO  54  
RIO  H13   H13   H  0  1  N  N  N  16.358  33.688  14.233   4.229   2.480   0.939  H13   RIO  55  
RIO  HO7   HO7   H  0  1  N  N  N  14.887  32.009  15.612   4.462   3.467  -1.224  HO7   RIO  56  
RIO  H14   H14   H  0  1  N  N  N  17.184  31.499  16.207   1.860   2.093  -0.951  H14   RIO  57  
RIO  HO8   HO8   H  0  1  N  N  N  16.415  32.906  17.647   2.684   4.330  -0.766  HO8   RIO  58  
RIO  H15   H15   H  0  1  N  N  N  18.653  34.040  15.222   1.962   2.347   2.091  H15   RIO  59  
RIO  HN4   HN4   H  0  1  N  N  N  20.361  32.936  16.734  -0.393   1.900   1.857  HN4   RIO  60  
RIO  HN4A  HN4A  H  0  0  N  N  N  19.150  33.752  17.465  -0.000   3.261   0.985  HN4A  RIO  61  
RIO  H16   H16   H  0  1  N  N  N  20.719  32.687  11.879  -2.695   1.341   1.896  H16   RIO  62  
RIO  HO9   HO9   H  0  1  N  N  N  19.005  32.024  10.639  -3.831  -0.645   2.687  HO9   RIO  63  
RIO  H17   H17   H  0  1  N  N  N  23.082  32.051  11.223  -4.210   2.762   0.797  H17   RIO  64  
RIO  HO10  HO10  H  0  0  N  N  N  22.232  33.601   9.768  -6.093   1.336   1.158  HO10  RIO  65  
#   #
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
RIO  O1   C1    SING  N  N   1  
RIO  C1   C2    SING  N  N   2  
RIO  C2   O2    SING  N  N   3  
RIO  C2   C17   SING  N  N   4  
RIO  O2   C3    SING  N  N   5  
RIO  C3   O3    SING  N  N   6  
RIO  C3   C16   SING  N  N   7  
RIO  O3   C4    SING  N  N   8  
RIO  C4   C5    SING  N  N   9  
RIO  C4   C9    SING  N  N  10  
RIO  C5   O4    SING  N  N  11  
RIO  C5   C6    SING  N  N  12  
RIO  C6   N1    SING  N  N  13  
RIO  C6   C7    SING  N  N  14  
RIO  C7   C8    SING  N  N  15  
RIO  C8   N2    SING  N  N  16  
RIO  C8   C9    SING  N  N  17  
RIO  C9   O5    SING  N  N  18  
RIO  O5   C10   SING  N  N  19  
RIO  C10  O6    SING  N  N  20  
RIO  C10  C15   SING  N  N  21  
RIO  O6   C11   SING  N  N  22  
RIO  C11  C12   SING  N  N  23  
RIO  C11  C13   SING  N  N  24  
RIO  C12  N3    SING  N  N  25  
RIO  C13  O7    SING  N  N  26  
RIO  C13  C14   SING  N  N  27  
RIO  C14  O8    SING  N  N  28  
RIO  C14  C15   SING  N  N  29  
RIO  C15  N4    SING  N  N  30  
RIO  C16  O9    SING  N  N  31  
RIO  C16  C17   SING  N  N  32  
RIO  C17  O10   SING  N  N  33  
RIO  O1   HO1   SING  N  N  34  
RIO  C1   H1    SING  N  N  35  
RIO  C1   H1A   SING  N  N  36  
RIO  C2   H2    SING  N  N  37  
RIO  C3   H3    SING  N  N  38  
RIO  C4   H4    SING  N  N  39  
RIO  C5   H5    SING  N  N  40  
RIO  O4   HO4   SING  N  N  41  
RIO  C6   H6    SING  N  N  42  
RIO  N1   HN1   SING  N  N  43  
RIO  N1   HN1A  SING  N  N  44  
RIO  C7   H7    SING  N  N  45  
RIO  C7   H7A   SING  N  N  46  
RIO  C8   H8    SING  N  N  47  
RIO  N2   HN2   SING  N  N  48  
RIO  N2   HN2A  SING  N  N  49  
RIO  C9   H9    SING  N  N  50  
RIO  C10  H10   SING  N  N  51  
RIO  C11  H11   SING  N  N  52  
RIO  C12  H12   SING  N  N  53  
RIO  C12  H12A  SING  N  N  54  
RIO  N3   HN3   SING  N  N  55  
RIO  N3   HN3A  SING  N  N  56  
RIO  C13  H13   SING  N  N  57  
RIO  O7   HO7   SING  N  N  58  
RIO  C14  H14   SING  N  N  59  
RIO  O8   HO8   SING  N  N  60  
RIO  C15  H15   SING  N  N  61  
RIO  N4   HN4   SING  N  N  62  
RIO  N4   HN4A  SING  N  N  63  
RIO  C16  H16   SING  N  N  64  
RIO  O9   HO9   SING  N  N  65  
RIO  C17  H17   SING  N  N  66  
RIO  O10  HO10  SING  N  N  67  
#   #
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
RIO  SMILES            ACDLabs               10.04  "O(C2C(OC1OC(CN)C(O)C(O)C1N)C(N)CC(N)C2O)C3OC(C(O)C3O)CO"  
RIO  SMILES_CANONICAL  CACTVS                3.341  "NC[C@H]1O[C@H](O[C@@H]2[C@@H](N)C[C@@H](N)[C@H](O)[C@H]2O[C@@H]3O[C@H](CO)[C@@H](O)[C@H]3O)[C@H](N)[C@@H](O)[C@@H]1O"  
RIO  SMILES            CACTVS                3.341  "NC[CH]1O[CH](O[CH]2[CH](N)C[CH](N)[CH](O)[CH]2O[CH]3O[CH](CO)[CH](O)[CH]3O)[CH](N)[CH](O)[CH]1O"  
RIO  SMILES_CANONICAL  "OpenEye OEToolkits"  1.5.0  "C1[C@H]([C@@H]([C@H]([C@@H]([C@H]1N)O[C@@H]2[C@@H]([C@H]([C@@H]([C@H](O2)CN)O)O)N)O[C@H]3[C@@H]([C@@H]([C@H](O3)CO)O)O)O)N"  
RIO  SMILES            "OpenEye OEToolkits"  1.5.0  "C1C(C(C(C(C1N)OC2C(C(C(C(O2)CN)O)O)N)OC3C(C(C(O3)CO)O)O)O)N"  
RIO  InChI             InChI                 1.03   "InChI=1S/C17H34N4O10/c18-2-6-10(24)12(26)8(21)16(28-6)30-14-5(20)1-4(19)9(23)15(14)31-17-13(27)11(25)7(3-22)29-17/h4-17,22-27H,1-3,18-21H2/t4-,5+,6-,7-,8-,9+,10-,11-,12-,13-,14-,15-,16-,17+/m1/s1"  
RIO  InChIKey          InChI                 1.03   NSKGQURZWSPSBC-VVPCINPTSA-N  
#   #
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
RIO  "SYSTEMATIC NAME"  ACDLabs               10.04  "(1R,2R,3S,4R,6S)-4,6-diamino-3-hydroxy-2-(beta-D-ribofuranosyloxy)cyclohexyl 2,6-diamino-2,6-dideoxy-alpha-D-glucopyranoside"  
RIO  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  1.5.0  "(2R,3S,4R,5R,6R)-5-amino-2-(aminomethyl)-6-[(1R,2R,3S,4R,6S)-4,6-diamino-2-[(2S,3R,4S,5R)-3,4-dihydroxy-5-(hydroxymethyl)oxolan-2-yl]oxy-3-hydroxy-cyclohexyl]oxy-oxane-3,4-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
RIO  "Create component"   2002-07-08  RCSB  
RIO  "Modify descriptor"  2011-06-04  RCSB  
RIO  "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  RIO  "5-AMINO-2-AMINOMETHYL-6-[4,6-DIAMINO-2-(3,4-DIHYDROXY-5-HYDROXYMETHYL-TETRAHYDRO-FURAN-2-YLOXY)-3-HYDROXY-CYCLOHEXYLOXY]-TETRAHYDRO-PYRAN-3,4-DIOL"  ?  ?  
2  RIO  "(1R,2R,3S,4R,6S)-4,6-diamino-3-hydroxy-2-(beta-D-ribofuranosyloxy)cyclohexyl 2,6-diamino-2,6-dideoxy-alpha-D-glucopyranoside"                        ?  ?  
##
