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 ? ##