data_LN0
#

_chem_comp.id                                   LN0
_chem_comp.name                                 "methyl 6,8-dideoxy-6-{[(4R)-1-methyl-4-propyl-L-prolyl]amino}-1-thio-D-glycero-alpha-D-galacto-octopyranosid-7-ulose"
_chem_comp.type                                 NON-POLYMER
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C18 H32 N2 O6 S"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        "lincomycin, oxidized form"
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2012-03-29
_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                       404.521
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    LN0
_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       4E8J
_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
LN0  C4   C4   C  0  1  N  N  R  -22.641  -11.983  -16.635   1.972   0.180   0.091  C4   LN0   1  
LN0  C14  C14  C  0  1  N  N  N  -19.955   -6.918  -13.016  -5.119  -1.108   0.291  C14  LN0   2  
LN0  C5   C5   C  0  1  N  N  R  -24.334  -13.504  -17.534   4.360   0.352   0.235  C5   LN0   3  
LN0  C6   C6   C  0  1  N  N  N  -23.061  -14.076  -20.095   4.504   2.995  -0.793  C6   LN0   4  
LN0  C11  C11  C  0  1  N  N  S  -20.126   -8.780  -14.256  -2.805  -0.778  -0.071  C11  LN0   5  
LN0  C7   C7   C  0  1  N  N  S  -21.322  -12.040  -15.970   0.685   0.490   0.858  C7   LN0   6  
LN0  C8   C8   C  0  1  N  N  N  -20.389  -12.710  -16.995   0.572   1.979   1.067  C8   LN0   7  
LN0  C9   C9   C  0  1  N  N  N  -19.766  -14.074  -16.686   1.311   2.638   2.202  C9   LN0   8  
LN0  C10  C10  C  0  1  N  N  N  -20.791  -10.114  -14.420  -1.619  -0.290   0.720  C10  LN0   9  
LN0  C12  C12  C  0  1  N  N  N  -18.779   -8.874  -13.603  -3.531   0.416  -0.718  C12  LN0  10  
LN0  C13  C13  C  0  1  N  N  R  -18.708   -7.698  -12.721  -4.969   0.369  -0.154  C13  LN0  11  
LN0  N1   N1   N  0  1  N  N  N  -20.709  -10.771  -15.730  -0.468   0.016   0.089  N1   LN0  12  
LN0  N2   N2   N  0  1  N  N  N  -20.928   -7.906  -13.432  -3.775  -1.438   0.830  N2   LN0  13  
LN0  C3   C3   C  0  1  N  N  R  -23.674  -11.169  -15.962   2.049  -1.323  -0.190  C3   LN0  14  
LN0  C18  C18  C  0  1  N  N  N  -15.253   -8.135  -13.596  -8.421   1.000  -1.740  C18  LN0  15  
LN0  C17  C17  C  0  1  N  N  N  -16.199   -7.546  -12.557  -7.401   0.656  -0.652  C17  LN0  16  
LN0  C16  C16  C  0  1  N  N  N  -17.476   -6.929  -13.033  -5.989   0.712  -1.241  C16  LN0  17  
LN0  C15  C15  C  0  1  N  N  N  -22.176   -7.128  -13.630  -3.562  -2.891   0.859  C15  LN0  18  
LN0  O9   O9   O  0  1  N  N  N  -21.410  -10.677  -13.489  -1.699  -0.174   1.924  O9   LN0  19  
LN0  O8   O8   O  0  1  N  N  N  -20.174  -12.133  -18.102  -0.112   2.642   0.325  O8   LN0  20  
LN0  O5   O5   O  0  1  N  N  N  -23.109  -13.398  -16.828   3.100   0.576   0.873  O5   LN0  21  
LN0  O7   O7   O  0  1  N  N  N  -23.751  -11.604  -14.614   1.993  -2.043   1.044  O7   LN0  22  
LN0  C2   C2   C  0  1  N  N  S  -24.989  -11.290  -16.609   3.368  -1.635  -0.904  C2   LN0  23  
LN0  O6   O6   O  0  1  N  N  N  -25.964  -10.603  -15.807   3.482  -3.045  -1.105  O6   LN0  24  
LN0  C1   C1   C  0  1  N  N  R  -25.401  -12.698  -16.842   4.533  -1.144  -0.039  C1   LN0  25  
LN0  O4   O4   O  0  1  N  N  N  -26.556  -12.785  -17.601   5.765  -1.364  -0.729  O4   LN0  26  
LN0  S1   S1   S  0  1  N  N  N  -24.135  -12.959  -19.250   4.415   1.265  -1.331  S1   LN0  27  
LN0  H1   H1   H  0  1  N  N  N  -22.486  -11.555  -17.636   1.974   0.726  -0.853  H1   LN0  28  
LN0  H2   H2   H  0  1  N  N  N  -19.774   -6.191  -13.821  -5.878  -1.201   1.067  H2   LN0  29  
LN0  H3   H3   H  0  1  N  N  N  -20.302   -6.389  -12.116  -5.361  -1.744  -0.561  H3   LN0  30  
LN0  H4   H4   H  0  1  N  N  N  -24.655  -14.555  -17.589   5.163   0.697   0.886  H4   LN0  31  
LN0  H5   H5   H  0  1  N  N  N  -22.937  -13.749  -21.138   4.542   3.646  -1.666  H5   LN0  32  
LN0  H6   H6   H  0  1  N  N  N  -22.081  -14.090  -19.596   3.623   3.236  -0.198  H6   LN0  33  
LN0  H7   H7   H  0  1  N  N  N  -23.495  -15.086  -20.077   5.400   3.142  -0.190  H7   LN0  34  
LN0  H8   H8   H  0  1  N  N  N  -20.001   -8.327  -15.251  -2.480  -1.477  -0.841  H8   LN0  35  
LN0  H9   H9   H  0  1  N  N  N  -21.371  -12.646  -15.053   0.708  -0.012   1.825  H9   LN0  36  
LN0  H10  H10  H  0  1  N  N  N  -19.159  -14.403  -17.543   2.266   3.020   1.841  H10  LN0  37  
LN0  H11  H11  H  0  1  N  N  N  -19.127  -13.992  -15.794   0.715   3.462   2.594  H11  LN0  38  
LN0  H12  H12  H  0  1  N  N  N  -20.564  -14.808  -16.499   1.488   1.909   2.993  H12  LN0  39  
LN0  H13  H13  H  0  1  N  N  N  -18.695   -9.802  -13.019  -3.045   1.351  -0.438  H13  LN0  40  
LN0  H14  H14  H  0  1  N  N  N  -17.979   -8.842  -14.357  -3.546   0.306  -1.803  H14  LN0  41  
LN0  H15  H15  H  0  1  N  N  N  -18.702   -8.011  -11.666  -5.071   1.040   0.699  H15  LN0  42  
LN0  H16  H16  H  0  1  N  N  N  -20.213  -10.320  -16.472  -0.404  -0.077  -0.875  H16  LN0  43  
LN0  H18  H18  H  0  1  N  N  N  -23.363  -10.114  -15.989   1.212  -1.619  -0.822  H18  LN0  44  
LN0  H19  H19  H  0  1  N  N  N  -14.366   -8.547  -13.093  -9.426   0.960  -1.320  H19  LN0  45  
LN0  H20  H20  H  0  1  N  N  N  -15.767   -8.936  -14.147  -8.224   2.004  -2.118  H20  LN0  46  
LN0  H21  H21  H  0  1  N  N  N  -14.943   -7.347  -14.298  -8.338   0.282  -2.555  H21  LN0  47  
LN0  H22  H22  H  0  1  N  N  N  -16.467   -8.357  -11.863  -7.483   1.375   0.163  H22  LN0  48  
LN0  H23  H23  H  0  1  N  N  N  -15.643   -6.767  -12.014  -7.597  -0.347  -0.274  H23  LN0  49  
LN0  H24  H24  H  0  1  N  N  N  -17.413   -6.817  -14.125  -5.793   1.716  -1.619  H24  LN0  50  
LN0  H25  H25  H  0  1  N  N  N  -17.568   -5.937  -12.568  -5.907  -0.006  -2.057  H25  LN0  51  
LN0  H26  H26  H  0  1  N  N  N  -22.426   -6.592  -12.702  -2.553  -3.104   1.215  H26  LN0  52  
LN0  H27  H27  H  0  1  N  N  N  -22.031   -6.403  -14.444  -4.288  -3.352   1.529  H27  LN0  53  
LN0  H28  H28  H  0  1  N  N  N  -22.997   -7.812  -13.890  -3.686  -3.297  -0.145  H28  LN0  54  
LN0  H29  H29  H  0  1  N  N  N  -22.974  -11.324  -14.145   1.940  -3.002   0.937  H29  LN0  55  
LN0  H30  H30  H  0  1  N  N  N  -24.932  -10.791  -17.588   3.389  -1.126  -1.868  H30  LN0  56  
LN0  H31  H31  H  0  1  N  N  N  -25.685   -9.706  -15.668   4.295  -3.314  -1.553  H31  LN0  57  
LN0  H32  H32  H  0  1  N  N  N  -25.580  -13.161  -15.861   4.540  -1.689   0.905  H32  LN0  58  
LN0  H33  H33  H  0  1  N  N  N  -27.247  -12.283  -17.185   6.547  -1.071  -0.240  H33  LN0  59  
#   #
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
LN0  C6   S1   SING  N  N   1  
LN0  S1   C5   SING  N  N   2  
LN0  O8   C8   DOUB  N  N   3  
LN0  O4   C1   SING  N  N   4  
LN0  C5   C1   SING  N  N   5  
LN0  C5   O5   SING  N  N   6  
LN0  C8   C9   SING  N  N   7  
LN0  C8   C7   SING  N  N   8  
LN0  C1   C2   SING  N  N   9  
LN0  O5   C4   SING  N  N  10  
LN0  C4   C7   SING  N  N  11  
LN0  C4   C3   SING  N  N  12  
LN0  C2   C3   SING  N  N  13  
LN0  C2   O6   SING  N  N  14  
LN0  C7   N1   SING  N  N  15  
LN0  C3   O7   SING  N  N  16  
LN0  N1   C10  SING  N  N  17  
LN0  C10  C11  SING  N  N  18  
LN0  C10  O9   DOUB  N  N  19  
LN0  C11  C12  SING  N  N  20  
LN0  C11  N2   SING  N  N  21  
LN0  C15  N2   SING  N  N  22  
LN0  C12  C13  SING  N  N  23  
LN0  C18  C17  SING  N  N  24  
LN0  N2   C14  SING  N  N  25  
LN0  C16  C13  SING  N  N  26  
LN0  C16  C17  SING  N  N  27  
LN0  C14  C13  SING  N  N  28  
LN0  C4   H1   SING  N  N  29  
LN0  C14  H2   SING  N  N  30  
LN0  C14  H3   SING  N  N  31  
LN0  C5   H4   SING  N  N  32  
LN0  C6   H5   SING  N  N  33  
LN0  C6   H6   SING  N  N  34  
LN0  C6   H7   SING  N  N  35  
LN0  C11  H8   SING  N  N  36  
LN0  C7   H9   SING  N  N  37  
LN0  C9   H10  SING  N  N  38  
LN0  C9   H11  SING  N  N  39  
LN0  C9   H12  SING  N  N  40  
LN0  C12  H13  SING  N  N  41  
LN0  C12  H14  SING  N  N  42  
LN0  C13  H15  SING  N  N  43  
LN0  N1   H16  SING  N  N  44  
LN0  C3   H18  SING  N  N  45  
LN0  C18  H19  SING  N  N  46  
LN0  C18  H20  SING  N  N  47  
LN0  C18  H21  SING  N  N  48  
LN0  C17  H22  SING  N  N  49  
LN0  C17  H23  SING  N  N  50  
LN0  C16  H24  SING  N  N  51  
LN0  C16  H25  SING  N  N  52  
LN0  C15  H26  SING  N  N  53  
LN0  C15  H27  SING  N  N  54  
LN0  C15  H28  SING  N  N  55  
LN0  O7   H29  SING  N  N  56  
LN0  C2   H30  SING  N  N  57  
LN0  O6   H31  SING  N  N  58  
LN0  C1   H32  SING  N  N  59  
LN0  O4   H33  SING  N  N  60  
#   #
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
LN0  SMILES            ACDLabs               12.01  "O=C(C)C(NC(=O)C1N(C)CC(CCC)C1)C2OC(SC)C(O)C(O)C2O"  
LN0  InChI             InChI                 1.03   "InChI=1S/C18H32N2O6S/c1-5-6-10-7-11(20(3)8-10)17(25)19-12(9(2)21)16-14(23)13(22)15(24)18(26-16)27-4/h10-16,18,22-24H,5-8H2,1-4H3,(H,19,25)/t10-,11+,12-,13+,14-,15-,16-,18-/m1/s1"  
LN0  InChIKey          InChI                 1.03   YZRHYYDECCEWRG-DWVYNAINSA-N  
LN0  SMILES_CANONICAL  CACTVS                3.370  "CCC[C@@H]1C[C@H](N(C)C1)C(=O)N[C@@H]([C@H]2O[C@H](SC)[C@H](O)[C@@H](O)[C@H]2O)C(C)=O"  
LN0  SMILES            CACTVS                3.370  "CCC[CH]1C[CH](N(C)C1)C(=O)N[CH]([CH]2O[CH](SC)[CH](O)[CH](O)[CH]2O)C(C)=O"  
LN0  SMILES_CANONICAL  "OpenEye OEToolkits"  1.7.6  "CCC[C@@H]1C[C@H](N(C1)C)C(=O)N[C@@H]([C@@H]2[C@@H]([C@@H]([C@H]([C@H](O2)SC)O)O)O)C(=O)C"  
LN0  SMILES            "OpenEye OEToolkits"  1.7.6  "CCCC1CC(N(C1)C)C(=O)NC(C2C(C(C(C(O2)SC)O)O)O)C(=O)C"  
#   #
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
LN0  "SYSTEMATIC NAME"  ACDLabs               12.01  "methyl 6,8-dideoxy-6-{[(4R)-1-methyl-4-propyl-L-prolyl]amino}-1-thio-D-glycero-alpha-D-galacto-octopyranosid-7-ulose"  
LN0  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  1.7.6  "(2S,4R)-1-methyl-N-[(1S)-1-[(2R,3R,4S,5R,6R)-6-methylsulfanyl-3,4,5-tris(oxidanyl)oxan-2-yl]-2-oxidanylidene-propyl]-4-propyl-pyrrolidine-2-carboxamide"  
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
LN0  "Create component"  2012-03-29  RCSB  
LN0  "Modify synonyms"   2020-06-05  PDBE  
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     LN0
_pdbx_chem_comp_synonyms.name        "lincomycin, oxidized form"
_pdbx_chem_comp_synonyms.provenance  ?
_pdbx_chem_comp_synonyms.type        ?
##
