data_51G
#

_chem_comp.id                                   51G
_chem_comp.name                                 "gentamicin C1"
_chem_comp.type                                 NON-POLYMER
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C21 H43 N5 O7"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        
;(1S,2S,3R,4S,6R)-4,6-diamino-3-({(2R,3R,6S)-3-amino-6-[(1R)-1-(methylamino)ethyl]tetrahydro-2H-pyran-2-yl}oxy)-2-hydrox
ycyclohexyl 3-deoxy-4-C-methyl-3-(methylamino)-beta-L-arabinopyranoside
;

_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2015-07-09
_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                       477.595
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    51G
_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       5CFT
_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
51G  O6   O1   O  0  1  N  N  N  -12.555   -7.801   4.132   4.914  -1.477   1.133  O6   51G   1  
51G  C14  C1   C  0  1  N  N  R  -11.854   -8.273   2.979   4.668  -0.858  -0.131  C14  51G   2  
51G  C15  C2   C  0  1  N  N  R  -11.146   -9.591   3.288   4.891   0.653  -0.013  C15  51G   3  
51G  N    N1   N  0  1  N  N  N  -12.089  -10.625   3.718   6.297   0.917   0.321  N    51G   4  
51G  C19  C3   C  0  1  N  N  N  -11.666  -11.312   4.939   6.518   0.835   1.771  C19  51G   5  
51G  C16  C4   C  0  1  N  N  R  -10.427  -10.080   2.036   4.549   1.315  -1.351  C16  51G   6  
51G  C18  C5   C  0  1  N  N  N   -9.610  -11.334   2.318   4.694   2.832  -1.223  C18  51G   7  
51G  O5   O2   O  0  1  N  N  N  -11.471  -10.427   1.110   5.437   0.834  -2.362  O5   51G   8  
51G  C17  C6   C  0  1  N  N  N   -9.524   -8.974   1.494   3.107   0.969  -1.729  C17  51G   9  
51G  O4   O3   O  0  1  N  N  N  -10.208   -7.732   1.340   2.960  -0.451  -1.792  O4   51G  10  
51G  C13  C7   C  0  1  N  N  R  -10.848   -7.231   2.502   3.220  -1.120  -0.556  C13  51G  11  
51G  O3   O4   O  0  1  N  N  N   -9.855   -7.027   3.469   2.332  -0.628   0.449  O3   51G  12  
51G  C11  C8   C  0  1  N  N  S   -9.155   -5.762   3.508   0.983  -1.077   0.303  C11  51G  13  
51G  C10  C9   C  0  1  N  N  R   -8.689   -5.536   4.950   0.796  -2.388   1.068  C10  51G  14  
51G  N1   N2   N  0  1  N  N  N   -9.787   -5.547   5.938   1.711  -3.404   0.529  N1   51G  15  
51G  C9   C10  C  0  1  N  N  N   -7.898   -4.227   5.035  -0.648  -2.869   0.911  C9   51G  16  
51G  C8   C11  C  0  1  N  N  S   -6.684   -4.246   4.100  -1.601  -1.811   1.472  C8   51G  17  
51G  N2   N3   N  0  1  N  N  N   -5.941   -2.969   4.215  -2.987  -2.273   1.321  N2   51G  18  
51G  C12  C12  C  0  1  N  N  S   -7.949   -5.805   2.576   0.030  -0.019   0.863  C12  51G  19  
51G  O2   O5   O  0  1  N  N  N   -8.373   -5.892   1.208   0.205   1.206   0.149  O2   51G  20  
51G  C7   C13  C  0  1  N  N  R   -7.104   -4.544   2.677  -1.414  -0.500   0.707  C7   51G  21  
51G  O1   O6   O  0  1  N  N  N   -5.894   -4.788   1.935  -2.304   0.488   1.231  O1   51G  22  
51G  C6   C14  C  0  1  N  N  R   -5.401   -3.755   1.107  -2.692   1.483   0.281  C6   51G  23  
51G  C5   C15  C  0  1  N  N  R   -5.165   -4.287  -0.312  -3.391   2.636   1.006  C5   51G  24  
51G  N3   N4   N  0  1  N  N  N   -6.365   -4.941  -0.833  -2.492   3.190   2.027  N3   51G  25  
51G  C4   C16  C  0  1  N  N  N   -4.035   -5.301  -0.228  -4.665   2.111   1.676  C4   51G  26  
51G  C3   C17  C  0  1  N  N  N   -2.817   -4.601   0.336  -5.559   1.466   0.613  C3   51G  27  
51G  O    O7   O  0  1  N  N  N   -4.248   -3.139   1.639  -3.589   0.908  -0.672  O    51G  28  
51G  C2   C18  C  0  1  N  N  S   -3.098   -4.019   1.706  -4.776   0.358  -0.097  C2   51G  29  
51G  C1   C19  C  0  1  N  N  R   -1.974   -3.201   2.278  -5.642  -0.251  -1.202  C1   51G  30  
51G  C    C20  C  0  1  N  N  N   -1.552   -2.108   1.314  -5.915   0.804  -2.276  C    51G  31  
51G  N4   N5   N  0  1  N  N  N   -2.340   -2.615   3.575  -4.939  -1.392  -1.803  N4   51G  32  
51G  C20  C21  C  0  1  N  N  N   -1.201   -2.079   4.293  -5.888  -2.339  -2.403  C20  51G  33  
51G  H1   H1   H  0  1  N  N  N  -13.177   -8.460   4.417   4.791  -2.437   1.131  H1   51G  34  
51G  H2   H2   H  0  1  N  N  N  -12.571   -8.454   2.165   5.347  -1.269  -0.877  H2   51G  35  
51G  H3   H3   H  0  1  N  N  N  -10.402   -9.417   4.079   4.248   1.056   0.770  H3   51G  36  
51G  H4   H4   H  0  1  N  N  N  -12.977  -10.197   3.885   6.911   0.288  -0.174  H4   51G  37  
51G  H6   H6   H  0  1  N  N  N  -12.412  -12.073   5.209   5.894   1.573   2.276  H6   51G  38  
51G  H7   H7   H  0  1  N  N  N  -10.693  -11.797   4.769   6.257  -0.163   2.123  H7   51G  39  
51G  H8   H8   H  0  1  N  N  N  -11.574  -10.582   5.757   7.567   1.035   1.991  H8   51G  40  
51G  H9   H9   H  0  1  N  N  N   -8.803  -11.095   3.026   5.720   3.078  -0.948  H9   51G  41  
51G  H10  H10  H  0  1  N  N  N  -10.262  -12.106   2.753   4.451   3.303  -2.176  H10  51G  42  
51G  H11  H11  H  0  1  N  N  N   -9.176  -11.707   1.379   4.015   3.198  -0.453  H11  51G  43  
51G  H12  H12  H  0  1  N  N  N  -12.009  -11.116   1.482   5.277   1.211  -3.238  H12  51G  44  
51G  H13  H13  H  0  1  N  N  N   -9.135   -9.286   0.513   2.427   1.372  -0.978  H13  51G  45  
51G  H14  H14  H  0  1  N  N  N   -8.686   -8.830   2.192   2.872   1.402  -2.701  H14  51G  46  
51G  H15  H15  H  0  1  N  N  N  -11.378   -6.293   2.279   3.067  -2.192  -0.683  H15  51G  47  
51G  H16  H16  H  0  1  N  N  N   -9.822   -4.941   3.207   0.766  -1.238  -0.753  H16  51G  48  
51G  H17  H17  H  0  1  N  N  N   -7.997   -6.353   5.202   1.013  -2.227   2.124  H17  51G  49  
51G  H18  H18  H  0  1  N  N  N   -9.414   -5.395   6.853   1.607  -4.280   1.018  H18  51G  50  
51G  H19  H19  H  0  1  N  N  N  -10.440   -4.822   5.719   1.574  -3.525  -0.463  H19  51G  51  
51G  H21  H21  H  0  1  N  N  N   -7.551   -4.085   6.069  -0.865  -3.030  -0.145  H21  51G  52  
51G  H22  H22  H  0  1  N  N  N   -8.556   -3.392   4.751  -0.781  -3.803   1.456  H22  51G  53  
51G  H23  H23  H  0  1  N  N  N   -6.022   -5.059   4.432  -1.384  -1.650   2.528  H23  51G  54  
51G  H24  H24  H  0  1  N  N  N   -5.686   -2.816   5.170  -3.109  -3.190   1.723  H24  51G  55  
51G  H25  H25  H  0  1  N  N  N   -5.116   -3.012   3.652  -3.634  -1.612   1.726  H25  51G  56  
51G  H27  H27  H  0  1  N  N  N   -7.327   -6.674   2.837   0.247   0.142   1.919  H27  51G  57  
51G  H28  H28  H  0  1  N  N  N   -8.908   -6.668   1.091   1.075   1.610   0.267  H28  51G  58  
51G  H29  H29  H  0  1  N  N  N   -7.657   -3.689   2.261  -1.631  -0.661  -0.349  H29  51G  59  
51G  H30  H30  H  0  1  N  N  N   -6.185   -2.988   1.024  -1.808   1.859  -0.233  H30  51G  60  
51G  H31  H31  H  0  1  N  N  N   -4.866   -3.456  -0.968  -3.651   3.414   0.288  H31  51G  61  
51G  H32  H32  H  0  1  N  N  N   -7.110   -4.276  -0.889  -2.933   3.950   2.523  H32  51G  62  
51G  H33  H33  H  0  1  N  N  N   -6.176   -5.307  -1.744  -2.184   2.472   2.665  H33  51G  63  
51G  H35  H35  H  0  1  N  N  N   -4.327   -6.131   0.432  -4.401   1.369   2.429  H35  51G  64  
51G  H36  H36  H  0  1  N  N  N   -3.809   -5.692  -1.231  -5.196   2.938   2.147  H36  51G  65  
51G  H37  H37  H  0  1  N  N  N   -1.993   -5.326   0.417  -6.442   1.040   1.089  H37  51G  66  
51G  H38  H38  H  0  1  N  N  N   -2.524   -3.788  -0.345  -5.863   2.220  -0.114  H38  51G  67  
51G  H39  H39  H  0  1  N  N  N   -3.315   -4.847   2.397  -4.508  -0.415   0.622  H39  51G  68  
51G  H40  H40  H  0  1  N  N  N   -1.112   -3.867   2.429  -6.587  -0.590  -0.777  H40  51G  69  
51G  H41  H41  H  0  1  N  N  N   -0.730   -1.526   1.756  -6.532   0.370  -3.063  H41  51G  70  
51G  H42  H42  H  0  1  N  N  N   -1.214   -2.562   0.371  -6.438   1.650  -1.830  H42  51G  71  
51G  H43  H43  H  0  1  N  N  N   -2.406   -1.444   1.116  -4.970   1.143  -2.701  H43  51G  72  
51G  H44  H44  H  0  1  N  N  N   -2.995   -1.876   3.418  -4.260  -1.081  -2.482  H44  51G  73  
51G  H46  H46  H  0  1  N  N  N   -1.537   -1.656   5.251  -6.564  -2.712  -1.634  H46  51G  74  
51G  H47  H47  H  0  1  N  N  N   -0.475   -2.884   4.482  -6.463  -1.835  -3.179  H47  51G  75  
51G  H48  H48  H  0  1  N  N  N   -0.726   -1.290   3.691  -5.340  -3.174  -2.841  H48  51G  76  
#   #
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
51G  N3   C5   SING  N  N   1  
51G  C5   C4   SING  N  N   2  
51G  C5   C6   SING  N  N   3  
51G  C4   C3   SING  N  N   4  
51G  C3   C2   SING  N  N   5  
51G  C6   O    SING  N  N   6  
51G  C6   O1   SING  N  N   7  
51G  O5   C16  SING  N  N   8  
51G  O2   C12  SING  N  N   9  
51G  C    C1   SING  N  N  10  
51G  O4   C17  SING  N  N  11  
51G  O4   C13  SING  N  N  12  
51G  C17  C16  SING  N  N  13  
51G  O    C2   SING  N  N  14  
51G  C2   C1   SING  N  N  15  
51G  O1   C7   SING  N  N  16  
51G  C16  C18  SING  N  N  17  
51G  C16  C15  SING  N  N  18  
51G  C1   N4   SING  N  N  19  
51G  C13  C14  SING  N  N  20  
51G  C13  O3   SING  N  N  21  
51G  C12  C7   SING  N  N  22  
51G  C12  C11  SING  N  N  23  
51G  C7   C8   SING  N  N  24  
51G  C14  C15  SING  N  N  25  
51G  C14  O6   SING  N  N  26  
51G  C15  N    SING  N  N  27  
51G  O3   C11  SING  N  N  28  
51G  C11  C10  SING  N  N  29  
51G  N4   C20  SING  N  N  30  
51G  N    C19  SING  N  N  31  
51G  C8   N2   SING  N  N  32  
51G  C8   C9   SING  N  N  33  
51G  C10  C9   SING  N  N  34  
51G  C10  N1   SING  N  N  35  
51G  O6   H1   SING  N  N  36  
51G  C14  H2   SING  N  N  37  
51G  C15  H3   SING  N  N  38  
51G  N    H4   SING  N  N  39  
51G  C19  H6   SING  N  N  40  
51G  C19  H7   SING  N  N  41  
51G  C19  H8   SING  N  N  42  
51G  C18  H9   SING  N  N  43  
51G  C18  H10  SING  N  N  44  
51G  C18  H11  SING  N  N  45  
51G  O5   H12  SING  N  N  46  
51G  C17  H13  SING  N  N  47  
51G  C17  H14  SING  N  N  48  
51G  C13  H15  SING  N  N  49  
51G  C11  H16  SING  N  N  50  
51G  C10  H17  SING  N  N  51  
51G  N1   H18  SING  N  N  52  
51G  N1   H19  SING  N  N  53  
51G  C9   H21  SING  N  N  54  
51G  C9   H22  SING  N  N  55  
51G  C8   H23  SING  N  N  56  
51G  N2   H24  SING  N  N  57  
51G  N2   H25  SING  N  N  58  
51G  C12  H27  SING  N  N  59  
51G  O2   H28  SING  N  N  60  
51G  C7   H29  SING  N  N  61  
51G  C6   H30  SING  N  N  62  
51G  C5   H31  SING  N  N  63  
51G  N3   H32  SING  N  N  64  
51G  N3   H33  SING  N  N  65  
51G  C4   H35  SING  N  N  66  
51G  C4   H36  SING  N  N  67  
51G  C3   H37  SING  N  N  68  
51G  C3   H38  SING  N  N  69  
51G  C2   H39  SING  N  N  70  
51G  C1   H40  SING  N  N  71  
51G  C    H41  SING  N  N  72  
51G  C    H42  SING  N  N  73  
51G  C    H43  SING  N  N  74  
51G  N4   H44  SING  N  N  75  
51G  C20  H46  SING  N  N  76  
51G  C20  H47  SING  N  N  77  
51G  C20  H48  SING  N  N  78  
#   #
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
51G  SMILES            ACDLabs               12.01  "OC1C(NC)C(C)(O)COC1OC2C(CC(N)C(C2O)OC3OC(CCC3N)C(NC)C)N"  
51G  InChI             InChI                 1.03   "InChI=1S/C21H43N5O7/c1-9(25-3)13-6-5-10(22)19(31-13)32-16-11(23)7-12(24)17(14(16)27)33-20-15(28)18(26-4)21(2,29)8-30-20/h9-20,25-29H,5-8,22-24H2,1-4H3/t9-,10-,11+,12-,13+,14+,15-,16-,17+,18-,19-,20-,21+/m1/s1"  
51G  InChIKey          InChI                 1.03   CEAZRRDELHUEMR-CAMVTXANSA-N  
51G  SMILES_CANONICAL  CACTVS                3.385  "CN[C@H](C)[C@@H]1CC[C@@H](N)[C@H](O1)O[C@@H]2[C@@H](N)C[C@@H](N)[C@H](O[C@H]3OC[C@](C)(O)[C@H](NC)[C@H]3O)[C@H]2O"  
51G  SMILES            CACTVS                3.385  "CN[CH](C)[CH]1CC[CH](N)[CH](O1)O[CH]2[CH](N)C[CH](N)[CH](O[CH]3OC[C](C)(O)[CH](NC)[CH]3O)[CH]2O"  
51G  SMILES_CANONICAL  "OpenEye OEToolkits"  1.9.2  "C[C@H]([C@@H]1CC[C@H]([C@H](O1)O[C@@H]2[C@H](C[C@H]([C@@H]([C@H]2O)O[C@@H]3[C@@H]([C@H]([C@@](CO3)(C)O)NC)O)N)N)N)NC"  
51G  SMILES            "OpenEye OEToolkits"  1.9.2  "CC(C1CCC(C(O1)OC2C(CC(C(C2O)OC3C(C(C(CO3)(C)O)NC)O)N)N)N)NC"  
#   #
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
51G  "SYSTEMATIC NAME"  ACDLabs               12.01  "(1S,2S,3R,4S,6R)-4,6-diamino-3-({(2R,3R,6S)-3-amino-6-[(1R)-1-(methylamino)ethyl]tetrahydro-2H-pyran-2-yl}oxy)-2-hydroxycyclohexyl 3-deoxy-4-C-methyl-3-(methylamino)-beta-L-arabinopyranoside"  
51G  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  1.9.2  "(2R,3R,4R,5R)-2-[(1S,2S,3R,4S,6R)-4,6-bis(azanyl)-3-[(2R,3R,6S)-3-azanyl-6-[(1R)-1-(methylamino)ethyl]oxan-2-yl]oxy-2-oxidanyl-cyclohexyl]oxy-5-methyl-4-(methylamino)oxane-3,5-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
51G  "Create component"  2015-07-09  RCSB  
51G  "Initial release"   2016-03-16  RCSB  
51G  "Modify synonyms"   2020-06-05  PDBE  
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     51G
_pdbx_chem_comp_synonyms.name        "(1S,2S,3R,4S,6R)-4,6-diamino-3-({(2R,3R,6S)-3-amino-6-[(1R)-1-(methylamino)ethyl]tetrahydro-2H-pyran-2-yl}oxy)-2-hydroxycyclohexyl 3-deoxy-4-C-methyl-3-(methylamino)-beta-L-arabinopyranoside"
_pdbx_chem_comp_synonyms.provenance  ?
_pdbx_chem_comp_synonyms.type        ?
##
