data_YDH # _chem_comp.id YDH _chem_comp.name "1-[2-(cyclohexylmethyl)-1,3-dioxo-2,3-dihydro-1H-isoindol-4-yl]-N-[(4-methyl-1,2,5-oxadiazol-3-yl)methyl]piperidine-4-carboxamide" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C25 H31 N5 O4" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2023-06-13 _chem_comp.pdbx_modified_date 2024-12-13 _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 465.545 _chem_comp.one_letter_code ? _chem_comp.three_letter_code YDH _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 7G5G _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB _chem_comp.pdbx_pcm ? # 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.pdbx_backbone_atom_flag _chem_comp_atom.pdbx_n_terminal_atom_flag _chem_comp_atom.pdbx_c_terminal_atom_flag _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 YDH C02 C1 C 0 1 N N N N N N -12.089 7.642 44.653 -2.940 0.626 -0.613 C02 YDH 1 YDH C04 C2 C 0 1 N N N N N N -11.091 7.923 42.607 -4.050 1.783 0.920 C04 YDH 2 YDH C05 C3 C 0 1 Y N N N N N -10.772 9.080 43.422 -2.625 2.124 1.108 C05 YDH 3 YDH C06 C4 C 0 1 Y N N N N N -16.558 13.168 47.931 6.555 -0.589 0.411 C06 YDH 4 YDH C07 C5 C 0 1 Y N N N N N -11.208 9.943 45.622 -0.533 1.482 0.060 C07 YDH 5 YDH O08 O1 O 0 1 Y N N N N N -16.938 12.902 45.871 8.187 -2.018 0.728 O08 YDH 6 YDH N09 N1 N 0 1 Y N N N N N -16.861 12.244 47.071 7.605 -1.087 -0.171 N09 YDH 7 YDH C13 C6 C 0 1 N N N N N N -14.134 11.778 49.381 3.606 0.485 -1.545 C13 YDH 8 YDH C18 C7 C 0 1 N N N N N N -16.324 12.944 49.387 5.631 0.439 -0.191 C18 YDH 9 YDH C19 C8 C 0 1 N N N N N N -13.497 10.440 49.184 2.500 -0.212 -2.295 C19 YDH 10 YDH C20 C9 C 0 1 N N N N N N -11.360 10.890 47.934 0.918 1.651 -1.786 C20 YDH 11 YDH C21 C10 C 0 1 N N N N N N -12.948 9.077 47.137 1.059 -0.222 -0.255 C21 YDH 12 YDH C23 C11 C 0 1 N N N N N N -11.952 10.505 49.291 1.561 0.831 -2.907 C23 YDH 13 YDH C24 C12 C 0 1 N N N N N N -13.993 9.937 47.818 1.707 -1.098 -1.330 C24 YDH 14 YDH C25 C13 C 0 1 Y N N N N N -10.001 10.188 43.080 -1.934 2.953 1.974 C25 YDH 15 YDH C26 C14 C 0 1 Y N N N N N -10.397 11.052 45.306 0.145 2.318 0.950 C26 YDH 16 YDH C27 C15 C 0 1 N N N N N N -11.038 4.733 43.072 -5.716 -0.948 0.170 C27 YDH 17 YDH C28 C16 C 0 1 N N N N N N -16.037 15.692 47.938 5.314 -0.841 2.671 C28 YDH 18 YDH N01 N2 N 0 1 N N N N N N -11.867 7.035 43.404 -4.150 0.911 -0.099 N01 YDH 19 YDH C03 C17 C 0 1 Y N N N N N -11.380 8.929 44.669 -1.921 1.382 0.135 C03 YDH 20 YDH N10 N3 N 0 1 N N N N N N -11.768 9.907 46.901 0.170 0.758 -0.891 N10 YDH 21 YDH N11 N4 N 0 1 Y N N N N N -16.658 14.230 46.002 7.374 -2.013 1.891 N11 YDH 22 YDH C12 C18 C 0 1 Y N N N N N -16.415 14.398 47.272 6.412 -1.163 1.689 C12 YDH 23 YDH C14 C19 C 0 1 N N N N N N -12.257 5.676 42.996 -5.411 0.346 -0.586 C14 YDH 24 YDH N15 N5 N 0 1 N N N N N N -15.504 11.729 49.454 4.556 -0.238 -0.920 N15 YDH 25 YDH O16 O2 O 0 1 N N N N N N -12.653 6.990 45.505 -2.723 -0.133 -1.536 O16 YDH 26 YDH O17 O3 O 0 1 N N N N N N -10.796 7.673 41.450 -4.977 2.223 1.572 O17 YDH 27 YDH O22 O4 O 0 1 N N N N N N -13.512 12.848 49.473 3.640 1.696 -1.503 O22 YDH 28 YDH C29 C20 C 0 1 Y N N N N N -9.815 11.177 44.046 -0.552 3.052 1.885 C29 YDH 29 YDH C30 C21 C 0 1 N N N N N N -10.855 4.168 44.489 -7.091 -1.472 -0.249 C30 YDH 30 YDH C31 C22 C 0 1 N N N N N N -11.225 3.583 42.069 -4.650 -1.995 -0.160 C31 YDH 31 YDH C32 C23 C 0 1 N N N N N N -10.185 2.461 42.178 -4.955 -3.289 0.596 C32 YDH 32 YDH C33 C24 C 0 1 N N N N N N -9.688 3.175 44.488 -7.396 -2.767 0.507 C33 YDH 33 YDH C34 C25 C 0 1 N N N N N N -10.009 1.964 43.611 -6.330 -3.813 0.177 C34 YDH 34 YDH H38 H1 H 0 1 N N N N N N -15.789 13.797 49.829 5.202 1.051 0.603 H38 YDH 35 YDH H39 H2 H 0 1 N N N N N N -17.278 12.797 49.914 6.192 1.074 -0.877 H39 YDH 36 YDH H40 H3 H 0 1 N N N N N N -13.866 9.753 49.960 2.928 -0.826 -3.087 H40 YDH 37 YDH H42 H4 H 0 1 N N N N N N -10.263 10.906 48.007 1.694 2.165 -1.220 H42 YDH 38 YDH H41 H5 H 0 1 N N N N N N -11.723 11.889 47.649 0.237 2.385 -2.218 H41 YDH 39 YDH H44 H6 H 0 1 N N N N N N -13.339 8.702 46.180 0.482 -0.849 0.424 H44 YDH 40 YDH H43 H7 H 0 1 N N N N N N -12.684 8.227 47.784 1.836 0.301 0.303 H43 YDH 41 YDH H45 H8 H 0 1 N N N N N N -11.668 11.258 50.041 2.128 1.492 -3.562 H45 YDH 42 YDH H46 H9 H 0 1 N N N N N N -11.564 9.521 49.594 0.783 0.328 -3.482 H46 YDH 43 YDH H47 H10 H 0 1 N N N N N N -14.907 9.342 47.965 0.932 -1.632 -1.880 H47 YDH 44 YDH H48 H11 H 0 1 N N N N N N -14.218 10.802 47.177 2.379 -1.816 -0.859 H48 YDH 45 YDH H49 H12 H 0 1 N N N N N N -9.561 10.279 42.098 -2.470 3.523 2.719 H49 YDH 46 YDH H50 H13 H 0 1 N N N N N N -10.224 11.815 46.051 1.221 2.400 0.897 H50 YDH 47 YDH H51 H14 H 0 1 N N N N N N -10.136 5.299 42.797 -5.713 -0.752 1.242 H51 YDH 48 YDH H52 H15 H 0 1 N N N N N N -15.994 16.493 47.186 4.472 -1.513 2.506 H52 YDH 49 YDH H54 H16 H 0 1 N N N N N N -16.789 15.945 48.700 5.687 -0.968 3.687 H54 YDH 50 YDH H53 H17 H 0 1 N N N N N N -15.052 15.584 48.416 4.990 0.190 2.528 H53 YDH 51 YDH H35 H18 H 0 1 N N N N N N -13.046 5.306 43.667 -5.326 0.133 -1.652 H35 YDH 52 YDH H36 H19 H 0 1 N N N N N N -12.635 5.700 41.963 -6.217 1.061 -0.422 H36 YDH 53 YDH H37 H20 H 0 1 N N N N N N -15.955 10.842 49.555 4.529 -1.207 -0.954 H37 YDH 54 YDH H55 H21 H 0 1 N N N N N N -9.216 12.046 43.816 -0.018 3.701 2.564 H55 YDH 55 YDH H56 H22 H 0 1 N N N N N N -10.639 4.990 45.188 -7.851 -0.726 -0.014 H56 YDH 56 YDH H57 H23 H 0 1 N N N N N N -11.776 3.654 44.802 -7.094 -1.668 -1.321 H57 YDH 57 YDH H58 H24 H 0 1 N N N N N N -12.220 3.144 42.233 -4.653 -2.191 -1.232 H58 YDH 58 YDH H59 H25 H 0 1 N N N N N N -11.171 4.002 41.053 -3.670 -1.622 0.138 H59 YDH 59 YDH H61 H26 H 0 1 N N N N N N -10.508 1.618 41.549 -4.195 -4.035 0.361 H61 YDH 60 YDH H60 H27 H 0 1 N N N N N N -9.218 2.840 41.815 -4.952 -3.093 1.668 H60 YDH 61 YDH H63 H28 H 0 1 N N N N N N -8.789 3.675 44.098 -7.393 -2.571 1.579 H63 YDH 62 YDH H62 H29 H 0 1 N N N N N N -9.502 2.836 45.518 -8.376 -3.140 0.208 H62 YDH 63 YDH H65 H30 H 0 1 N N N N N N -10.937 1.486 43.958 -6.333 -4.009 -0.895 H65 YDH 64 YDH H64 H31 H 0 1 N N N N N N -9.183 1.239 43.657 -6.547 -4.735 0.715 H64 YDH 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 YDH N01 C02 SING N N 1 YDH N01 C04 SING N N 2 YDH N01 C14 SING N N 3 YDH C02 C03 SING N N 4 YDH C02 O16 DOUB N N 5 YDH C03 C05 DOUB Y N 6 YDH C03 C07 SING Y N 7 YDH C04 C05 SING N N 8 YDH C04 O17 DOUB N N 9 YDH C05 C25 SING Y N 10 YDH C06 N09 DOUB Y N 11 YDH C06 C12 SING Y N 12 YDH C06 C18 SING N N 13 YDH C07 N10 SING N N 14 YDH C07 C26 DOUB Y N 15 YDH O08 N09 SING Y N 16 YDH O08 N11 SING Y N 17 YDH N10 C20 SING N N 18 YDH N10 C21 SING N N 19 YDH N11 C12 DOUB Y N 20 YDH C12 C28 SING N N 21 YDH C13 N15 SING N N 22 YDH C13 C19 SING N N 23 YDH C13 O22 DOUB N N 24 YDH C14 C27 SING N N 25 YDH N15 C18 SING N N 26 YDH C19 C23 SING N N 27 YDH C19 C24 SING N N 28 YDH C20 C23 SING N N 29 YDH C21 C24 SING N N 30 YDH C25 C29 DOUB Y N 31 YDH C26 C29 SING Y N 32 YDH C27 C30 SING N N 33 YDH C27 C31 SING N N 34 YDH C30 C33 SING N N 35 YDH C31 C32 SING N N 36 YDH C32 C34 SING N N 37 YDH C33 C34 SING N N 38 YDH C18 H38 SING N N 39 YDH C18 H39 SING N N 40 YDH C19 H40 SING N N 41 YDH C20 H42 SING N N 42 YDH C20 H41 SING N N 43 YDH C21 H44 SING N N 44 YDH C21 H43 SING N N 45 YDH C23 H45 SING N N 46 YDH C23 H46 SING N N 47 YDH C24 H47 SING N N 48 YDH C24 H48 SING N N 49 YDH C25 H49 SING N N 50 YDH C26 H50 SING N N 51 YDH C27 H51 SING N N 52 YDH C28 H52 SING N N 53 YDH C28 H54 SING N N 54 YDH C28 H53 SING N N 55 YDH C14 H35 SING N N 56 YDH C14 H36 SING N N 57 YDH N15 H37 SING N N 58 YDH C29 H55 SING N N 59 YDH C30 H56 SING N N 60 YDH C30 H57 SING N N 61 YDH C31 H58 SING N N 62 YDH C31 H59 SING N N 63 YDH C32 H61 SING N N 64 YDH C32 H60 SING N N 65 YDH C33 H63 SING N N 66 YDH C33 H62 SING N N 67 YDH C34 H65 SING N N 68 YDH C34 H64 SING N N 69 # 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 YDH SMILES ACDLabs 12.01 "O=C(NCc1nonc1C)C1CCN(CC1)c1cccc2C(=O)N(CC3CCCCC3)C(=O)c21" YDH InChI InChI 1.06 "InChI=1S/C25H31N5O4/c1-16-20(28-34-27-16)14-26-23(31)18-10-12-29(13-11-18)21-9-5-8-19-22(21)25(33)30(24(19)32)15-17-6-3-2-4-7-17/h5,8-9,17-18H,2-4,6-7,10-15H2,1H3,(H,26,31)" YDH InChIKey InChI 1.06 LIYHDVZZLXQJCD-UHFFFAOYSA-N YDH SMILES_CANONICAL CACTVS 3.385 "Cc1nonc1CNC(=O)C2CCN(CC2)c3cccc4C(=O)N(CC5CCCCC5)C(=O)c34" YDH SMILES CACTVS 3.385 "Cc1nonc1CNC(=O)C2CCN(CC2)c3cccc4C(=O)N(CC5CCCCC5)C(=O)c34" YDH SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "Cc1c(non1)CNC(=O)C2CCN(CC2)c3cccc4c3C(=O)N(C4=O)CC5CCCCC5" YDH SMILES "OpenEye OEToolkits" 2.0.7 "Cc1c(non1)CNC(=O)C2CCN(CC2)c3cccc4c3C(=O)N(C4=O)CC5CCCCC5" # 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 YDH "SYSTEMATIC NAME" ACDLabs 12.01 "1-[2-(cyclohexylmethyl)-1,3-dioxo-2,3-dihydro-1H-isoindol-4-yl]-N-[(4-methyl-1,2,5-oxadiazol-3-yl)methyl]piperidine-4-carboxamide" YDH "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "1-[2-(cyclohexylmethyl)-1,3-bis(oxidanylidene)isoindol-4-yl]-~{N}-[(4-methyl-1,2,5-oxadiazol-3-yl)methyl]piperidine-4-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 YDH "Create component" 2023-06-13 RCSB YDH "Initial release" 2024-12-18 RCSB #