data_YD3
# 
_chem_comp.id                                    YD3 
_chem_comp.name                                  "8-[[(3R,4R)-3-[[1,1-bis(oxidanylidene)thian-4-yl]methoxy]piperidin-4-yl]amino]-3-methyl-5-(5-methylpyridin-3-yl)-1H-quinolin-2-one" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C27 H34 N4 O4 S" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2015-07-11 
_chem_comp.pdbx_modified_date                    2015-08-07 
_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                        510.648 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     YD3 
_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        5A83 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  EBI 
# 
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 
YD3 O3   O3   O 0 1 N N N -24.486 42.823 12.014 -0.765 1.979  3.681  O3   YD3 1  
YD3 C22  C22  C 0 1 N N N -25.276 43.694 11.655 -1.395 1.465  2.773  C22  YD3 2  
YD3 N3   N3   N 0 1 N N N -26.514 43.750 12.200 -0.887 0.395  2.134  N3   YD3 3  
YD3 C23  C23  C 0 1 N N N -24.979 44.719 10.678 -2.651 1.998  2.409  C23  YD3 4  
YD3 C24  C24  C 0 1 N N N -23.660 44.673 9.950  -3.200 3.194  3.144  C24  YD3 5  
YD3 C25  C25  C 0 1 N N N -25.908 45.685 10.393 -3.364 1.439  1.401  C25  YD3 6  
YD3 C26  C26  C 0 1 Y N N -27.210 45.733 11.020 -2.834 0.315  0.719  C26  YD3 7  
YD3 C6   C6   C 0 1 Y N N -28.166 46.722 10.759 -3.547 -0.294 -0.336 C6   YD3 8  
YD3 C4   C4   C 0 1 Y N N -27.879 47.921 9.921  -4.868 0.237  -0.747 C4   YD3 9  
YD3 C3   C3   C 0 1 Y N N -26.788 48.749 10.170 -5.861 0.478  0.202  C3   YD3 10 
YD3 N    N    N 0 1 Y N N -26.496 49.838 9.448  -7.035 0.950  -0.163 N    YD3 11 
YD3 C2   C2   C 0 1 Y N N -27.308 50.139 8.427  -7.319 1.212  -1.425 C2   YD3 12 
YD3 C5   C5   C 0 1 Y N N -28.699 48.277 8.854  -5.137 0.510  -2.092 C5   YD3 13 
YD3 C1   C1   C 0 1 Y N N -28.427 49.397 8.084  -6.388 1.000  -2.424 C1   YD3 14 
YD3 C    C    C 0 1 N N N -29.313 49.795 6.928  -6.729 1.304  -3.860 C    YD3 15 
YD3 C21  C21  C 0 1 Y N N -27.493 44.699 11.934 -1.585 -0.200 1.102  C21  YD3 16 
YD3 C9   C9   C 0 1 Y N N -28.747 44.619 12.563 -1.062 -1.312 0.435  C9   YD3 17 
YD3 C8   C8   C 0 1 Y N N -29.691 45.601 12.251 -1.775 -1.899 -0.598 C8   YD3 18 
YD3 C7   C7   C 0 1 Y N N -29.411 46.631 11.373 -3.004 -1.394 -0.986 C7   YD3 19 
YD3 N1   N1   N 0 1 N N N -29.012 43.582 13.455 0.179  -1.832 0.811  N1   YD3 20 
YD3 C10  C10  C 0 1 N N R -30.301 43.253 14.049 0.728  -2.997 0.112  C10  YD3 21 
YD3 C14  C14  C 0 1 N N R -31.008 42.175 13.237 2.254  -2.995 0.234  C14  YD3 22 
YD3 C13  C13  C 0 1 N N N -32.351 41.805 13.869 2.816  -4.246 -0.445 C13  YD3 23 
YD3 N2   N2   N 0 1 N N N -32.172 41.412 15.264 2.257  -5.444 0.193  N2   YD3 24 
YD3 C12  C12  C 0 1 N N N -31.448 42.373 16.104 0.797  -5.492 0.047  C12  YD3 25 
YD3 C11  C11  C 0 1 N N N -30.125 42.780 15.491 0.174  -4.278 0.741  C11  YD3 26 
YD3 O    O    O 0 1 N N N -31.246 42.729 11.936 2.782  -1.829 -0.401 O    YD3 27 
YD3 C15  C15  C 0 1 N N N -31.449 41.765 10.898 3.999  -1.353 0.177  C15  YD3 28 
YD3 C16  C16  C 0 1 N N N -31.345 42.506 9.588  4.470  -0.109 -0.578 C16  YD3 29 
YD3 C20  C20  C 0 1 N N N -31.713 41.581 8.431  5.831  0.322  -0.038 C20  YD3 30 
YD3 C19  C19  C 0 1 N N N -31.697 42.296 7.077  6.435  1.400  -0.941 C19  YD3 31 
YD3 S    S    S 0 1 N N N -30.069 42.866 6.700  5.373  2.873  -0.894 S    YD3 32 
YD3 O1   O1   O 0 1 N N N -30.118 43.702 5.533  5.784  3.763  -1.923 O1   YD3 33 
YD3 O2   O2   O 0 1 N N N -29.170 41.743 6.694  5.306  3.343  0.445  O2   YD3 34 
YD3 C18  C18  C 0 1 N N N -29.735 43.867 8.114  3.762  2.166  -1.346 C18  YD3 35 
YD3 C17  C17  C 0 1 N N N -29.934 43.040 9.372  3.444  1.006  -0.400 C17  YD3 36 
YD3 H3   H3   H 0 1 N N N -26.747 43.036 12.861 -0.024 0.040  2.400  H3   YD3 37 
YD3 H241 H241 H 0 0 N N N -23.598 45.519 9.250  -2.494 3.502  3.915  H241 YD3 38 
YD3 H242 H242 H 0 0 N N N -22.837 44.738 10.677 -3.354 4.013  2.442  H242 YD3 39 
YD3 H243 H243 H 0 0 N N N -23.582 43.728 9.392  -4.151 2.930  3.608  H243 YD3 40 
YD3 H25  H25  H 0 1 N N N -25.656 46.445 9.668  -4.325 1.845  1.121  H25  YD3 41 
YD3 H7   H7   H 0 1 N N N -30.167 47.373 11.161 -3.546 -1.863 -1.793 H7   YD3 42 
YD3 HA   HA   H 0 1 N N N -26.138 48.498 10.995 -5.666 0.276  1.245  HA   YD3 43 
YD3 H5   H5   H 0 1 N N N -29.562 47.670 8.622  -4.389 0.339  -2.852 H5   YD3 44 
YD3 H2   H2   H 0 1 N N N -27.077 51.012 7.835  -8.295 1.597  -1.681 H2   YD3 45 
YD3 HC1  HC1  H 0 1 N N N -28.952 49.315 6.007  -6.464 2.337  -4.086 HC1  YD3 46 
YD3 HC2  HC2  H 0 1 N N N -30.345 49.473 7.129  -6.173 0.635  -4.516 HC2  YD3 47 
YD3 HC3  HC3  H 0 1 N N N -29.287 50.888 6.806  -7.798 1.161  -4.018 HC3  YD3 48 
YD3 H8   H8   H 0 1 N N N -30.668 45.554 12.709 -1.364 -2.757 -1.110 H8   YD3 49 
YD3 H1   H1   H 0 1 N N N -28.727 42.751 12.978 0.678  -1.421 1.534  H1   YD3 50 
YD3 H10  H10  H 0 1 N N N -30.935 44.152 14.056 0.446  -2.956 -0.941 H10  YD3 51 
YD3 H14  H14  H 0 1 N N N -30.371 41.281 13.174 2.535  -2.996 1.287  H14  YD3 52 
YD3 H111 H111 H 0 0 N N N -29.444 41.916 15.504 0.422  -4.299 1.803  H111 YD3 53 
YD3 H112 H112 H 0 0 N N N -29.692 43.598 16.086 -0.909 -4.305 0.619  H112 YD3 54 
YD3 H131 H131 H 0 0 N N N -33.024 42.674 13.822 2.547  -4.238 -1.502 H131 YD3 55 
YD3 H132 H132 H 0 0 N N N -32.794 40.967 13.311 3.902  -4.255 -0.348 H132 YD3 56 
YD3 HB   HB   H 0 1 N N N -33.078 41.275 15.664 2.685  -6.282 -0.173 HB   YD3 57 
YD3 H121 H121 H 0 0 N N N -32.070 43.271 16.233 0.537  -5.478 -1.011 H121 YD3 58 
YD3 H122 H122 H 0 0 N N N -31.258 41.914 17.085 0.416  -6.406 0.503  H122 YD3 59 
YD3 H151 H151 H 0 0 N N N -30.678 40.982 10.952 3.830  -1.101 1.224  H151 YD3 60 
YD3 H152 H152 H 0 0 N N N -32.444 41.307 10.996 4.761  -2.129 0.110  H152 YD3 61 
YD3 H16  H16  H 0 1 N N N -32.046 43.353 9.600  4.563  -0.345 -1.638 H16  YD3 62 
YD3 H201 H201 H 0 0 N N N -30.991 40.752 8.400  5.711  0.720  0.970  H201 YD3 63 
YD3 H202 H202 H 0 0 N N N -32.723 41.182 8.607  6.498  -0.540 -0.008 H202 YD3 64 
YD3 H171 H171 H 0 0 N N N -29.673 43.669 10.236 2.449  0.620  -0.622 H171 YD3 65 
YD3 H172 H172 H 0 0 N N N -29.250 42.180 9.324  3.471  1.362  0.630  H172 YD3 66 
YD3 H191 H191 H 0 0 N N N -32.026 41.597 6.294  7.432  1.658  -0.585 H191 YD3 67 
YD3 H192 H192 H 0 0 N N N -32.382 43.156 7.113  6.496  1.027  -1.964 H192 YD3 68 
YD3 H181 H181 H 0 0 N N N -28.697 44.228 8.072  2.990  2.931  -1.258 H181 YD3 69 
YD3 H182 H182 H 0 0 N N N -30.422 44.726 8.127  3.799  1.800  -2.372 H182 YD3 70 
# 
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 
YD3 O3  C22  DOUB N N 1  
YD3 C22 N3   SING N N 2  
YD3 C22 C23  SING N N 3  
YD3 N3  C21  SING N N 4  
YD3 C23 C24  SING N N 5  
YD3 C23 C25  DOUB N N 6  
YD3 C25 C26  SING N N 7  
YD3 C26 C6   DOUB Y N 8  
YD3 C26 C21  SING Y N 9  
YD3 C6  C4   SING N N 10 
YD3 C6  C7   SING Y N 11 
YD3 C4  C3   SING Y N 12 
YD3 C4  C5   DOUB Y N 13 
YD3 C3  N    DOUB Y N 14 
YD3 N   C2   SING Y N 15 
YD3 C2  C1   DOUB Y N 16 
YD3 C5  C1   SING Y N 17 
YD3 C1  C    SING N N 18 
YD3 C21 C9   DOUB Y N 19 
YD3 C9  C8   SING Y N 20 
YD3 C9  N1   SING N N 21 
YD3 C8  C7   DOUB Y N 22 
YD3 N1  C10  SING N N 23 
YD3 C10 C14  SING N N 24 
YD3 C10 C11  SING N N 25 
YD3 C14 C13  SING N N 26 
YD3 C14 O    SING N N 27 
YD3 C13 N2   SING N N 28 
YD3 N2  C12  SING N N 29 
YD3 C12 C11  SING N N 30 
YD3 O   C15  SING N N 31 
YD3 C15 C16  SING N N 32 
YD3 C16 C20  SING N N 33 
YD3 C16 C17  SING N N 34 
YD3 C20 C19  SING N N 35 
YD3 C19 S    SING N N 36 
YD3 S   O1   DOUB N N 37 
YD3 S   O2   DOUB N N 38 
YD3 S   C18  SING N N 39 
YD3 C18 C17  SING N N 40 
YD3 N3  H3   SING N N 41 
YD3 C24 H241 SING N N 42 
YD3 C24 H242 SING N N 43 
YD3 C24 H243 SING N N 44 
YD3 C25 H25  SING N N 45 
YD3 C7  H7   SING N N 46 
YD3 C3  HA   SING N N 47 
YD3 C5  H5   SING N N 48 
YD3 C2  H2   SING N N 49 
YD3 C   HC1  SING N N 50 
YD3 C   HC2  SING N N 51 
YD3 C   HC3  SING N N 52 
YD3 C8  H8   SING N N 53 
YD3 N1  H1   SING N N 54 
YD3 C10 H10  SING N N 55 
YD3 C14 H14  SING N N 56 
YD3 C11 H111 SING N N 57 
YD3 C11 H112 SING N N 58 
YD3 C13 H131 SING N N 59 
YD3 C13 H132 SING N N 60 
YD3 N2  HB   SING N N 61 
YD3 C12 H121 SING N N 62 
YD3 C12 H122 SING N N 63 
YD3 C15 H151 SING N N 64 
YD3 C15 H152 SING N N 65 
YD3 C16 H16  SING N N 66 
YD3 C20 H201 SING N N 67 
YD3 C20 H202 SING N N 68 
YD3 C17 H171 SING N N 69 
YD3 C17 H172 SING N N 70 
YD3 C19 H191 SING N N 71 
YD3 C19 H192 SING N N 72 
YD3 C18 H181 SING N N 73 
YD3 C18 H182 SING N N 74 
# 
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 
YD3 InChI            InChI                1.03  
"InChI=1S/C27H34N4O4S/c1-17-11-20(14-29-13-17)21-3-4-24(26-22(21)12-18(2)27(32)31-26)30-23-5-8-28-15-25(23)35-16-19-6-9-36(33,34)10-7-19/h3-4,11-14,19,23,25,28,30H,5-10,15-16H2,1-2H3,(H,31,32)/t23-,25-/m1/s1" 
YD3 InChIKey         InChI                1.03  KXXIBIBXJMYWNL-ILBGXUMGSA-N 
YD3 SMILES_CANONICAL CACTVS               3.385 "Cc1cncc(c1)c2ccc(N[C@@H]3CCNC[C@H]3OCC4CC[S](=O)(=O)CC4)c5NC(=O)C(=Cc25)C" 
YD3 SMILES           CACTVS               3.385 "Cc1cncc(c1)c2ccc(N[CH]3CCNC[CH]3OCC4CC[S](=O)(=O)CC4)c5NC(=O)C(=Cc25)C" 
YD3 SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 "Cc1cc(cnc1)c2ccc(c3c2C=C(C(=O)N3)C)N[C@@H]4CCNC[C@H]4OCC5CCS(=O)(=O)CC5" 
YD3 SMILES           "OpenEye OEToolkits" 1.7.6 "Cc1cc(cnc1)c2ccc(c3c2C=C(C(=O)N3)C)NC4CCNCC4OCC5CCS(=O)(=O)CC5" 
# 
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 
YD3 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 "8-[[(3R,4R)-3-[[1,1-bis(oxidanylidene)thian-4-yl]methoxy]piperidin-4-yl]amino]-3-methyl-5-(5-methylpyridin-3-yl)-1H-quinolin-2-one" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
YD3 "Create component" 2015-07-11 EBI  
YD3 "Initial release"  2015-08-12 RCSB 
# 
