data_Y3R # _chem_comp.id Y3R _chem_comp.name "ethyl 4-oxo-4-(2-{3-[2-({(1S)-1-[(3P)-3-(thiophen-3-yl)phenyl]ethyl}carbamoyl)phenyl]propanoyl}hydrazinyl)butanoate" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C28 H31 N3 O5 S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2023-11-17 _chem_comp.pdbx_modified_date 2024-03-29 _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 521.628 _chem_comp.one_letter_code ? _chem_comp.three_letter_code Y3R _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 8UVM _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.pdbx_n_terminal_atom_flag _chem_comp_atom.pdbx_backbone_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 Y3R C10 C1 C 0 1 Y N N N N N -30.056 -74.128 -9.139 6.202 1.673 -0.484 C10 Y3R 1 Y3R C15 C2 C 0 1 Y N N N N N -27.345 -74.497 -9.096 8.036 3.312 0.094 C15 Y3R 2 Y3R C17 C3 C 0 1 Y N N N N N -30.045 -71.949 -3.365 1.604 -3.611 0.109 C17 Y3R 3 Y3R C20 C4 C 0 1 N N N N N N -32.772 -72.466 -1.466 -1.518 -2.830 0.331 C20 Y3R 4 Y3R C21 C5 C 0 1 N N N N N N -34.023 -72.427 -0.483 -2.557 -1.907 0.913 C21 Y3R 5 Y3R C24 C6 C 0 1 N N N N N N -35.079 -73.282 2.863 -5.517 -0.113 -0.098 C24 Y3R 6 Y3R C26 C7 C 0 1 N N N N N N -37.451 -73.023 3.074 -7.566 1.190 -0.600 C26 Y3R 7 Y3R C02 C8 C 0 1 N N N N N N -31.052 -72.662 -4.332 1.726 -2.151 -0.089 C02 Y3R 8 Y3R C04 C9 C 0 1 N N R N N N -31.844 -74.812 -5.634 2.937 -0.195 -0.890 C04 Y3R 9 Y3R C05 C10 C 0 1 N N N N N N -31.649 -76.341 -5.435 2.215 0.208 -2.177 C05 Y3R 10 Y3R C06 C11 C 0 1 Y N N N N N -31.629 -74.388 -7.144 4.394 0.178 -0.994 C06 Y3R 11 Y3R C07 C12 C 0 1 Y N N N N N -32.673 -73.879 -7.920 5.266 -0.633 -1.697 C07 Y3R 12 Y3R C08 C13 C 0 1 Y N N N N N -32.447 -73.508 -9.250 6.605 -0.299 -1.792 C08 Y3R 13 Y3R C09 C14 C 0 1 Y N N N N N -31.181 -73.632 -9.827 7.076 0.852 -1.194 C09 Y3R 14 Y3R C11 C15 C 0 1 Y N N N N N -28.641 -74.273 -9.760 6.702 2.912 0.161 C11 Y3R 15 Y3R C12 C16 C 0 1 Y N N N N N -28.314 -74.217 -11.074 5.906 3.743 0.858 C12 Y3R 16 Y3R C14 C17 C 0 1 Y N N N N N -26.255 -74.586 -9.860 8.313 4.448 0.728 C14 Y3R 17 Y3R C16 C18 C 0 1 Y N N N N N -30.370 -74.483 -7.793 4.855 1.329 -0.387 C16 Y3R 18 Y3R C18 C19 C 0 1 Y N N N N N -30.357 -71.338 -2.108 0.531 -4.133 0.832 C18 Y3R 19 Y3R C19 C20 C 0 1 N N N N N N -31.761 -71.255 -1.455 -0.508 -3.210 1.415 C19 Y3R 20 Y3R C25 C21 C 0 1 N N N N N N -36.360 -73.568 3.563 -6.556 0.810 0.484 C25 Y3R 21 Y3R C27 C22 C 0 1 N N N N N N -38.821 -73.230 3.659 -8.605 2.114 -0.018 C27 Y3R 22 Y3R C29 C23 C 0 1 N N N N N N -41.123 -72.674 3.651 -10.563 3.464 -0.163 C29 Y3R 23 Y3R C30 C24 C 0 1 N N N N N N -42.227 -73.690 3.933 -11.612 3.888 -1.193 C30 Y3R 24 Y3R C34 C25 C 0 1 Y N N N N N -29.283 -70.747 -1.396 0.423 -5.497 1.013 C34 Y3R 25 Y3R C35 C26 C 0 1 Y N N N N N -27.968 -70.745 -1.865 1.376 -6.346 0.479 C35 Y3R 26 Y3R C36 C27 C 0 1 Y N N N N N -27.669 -71.334 -3.071 2.442 -5.835 -0.240 C36 Y3R 27 Y3R C37 C28 C 0 1 Y N N N N N -28.699 -71.931 -3.814 2.559 -4.474 -0.433 C37 Y3R 28 Y3R N03 N1 N 0 1 N N N N N N -30.949 -74.033 -4.698 2.817 -1.641 -0.695 N03 Y3R 29 Y3R N22 N2 N 0 1 N N N N N N -34.115 -73.464 0.527 -3.554 -1.439 0.137 N22 Y3R 30 Y3R N23 N3 N 0 1 N N N N N N -35.137 -73.599 1.470 -4.520 -0.581 0.678 N23 Y3R 31 Y3R O01 O1 O 0 1 N N N N N N -31.955 -72.003 -4.801 0.842 -1.410 0.296 O01 Y3R 32 Y3R O28 O2 O 0 1 N N N N N N -39.975 -73.204 2.984 -9.599 2.579 -0.791 O28 Y3R 33 Y3R O31 O3 O 0 1 N N N N N N -38.794 -73.451 4.860 -8.544 2.435 1.145 O31 Y3R 34 Y3R O32 O4 O 0 1 N N N N N N -34.111 -72.844 3.390 -5.579 -0.436 -1.266 O32 Y3R 35 Y3R O33 O5 O 0 1 N N N N N N -34.818 -71.588 -0.583 -2.495 -1.584 2.081 O33 Y3R 36 Y3R S13 S1 S 0 1 Y N N N N N -26.652 -74.409 -11.498 6.854 5.094 1.466 S13 Y3R 37 Y3R H151 H1 H 0 0 N N N N N N -27.279 -74.587 -8.022 8.788 2.739 -0.428 H151 Y3R 38 Y3R H202 H2 H 0 0 N N N N N N -33.167 -72.549 -2.489 -2.003 -3.731 -0.046 H202 Y3R 39 Y3R H201 H3 H 0 0 N N N N N N -32.196 -73.371 -1.221 -1.002 -2.326 -0.487 H201 Y3R 40 Y3R H261 H4 H 0 0 N N N N N N -37.278 -71.937 3.093 -7.050 1.694 -1.418 H261 Y3R 41 Y3R H041 H5 H 0 0 N N N N N N -32.888 -74.577 -5.378 2.489 0.325 -0.044 H041 Y3R 42 Y3R H051 H6 H 0 0 N N N N N N -32.309 -76.888 -6.125 2.305 1.285 -2.323 H051 Y3R 43 Y3R H053 H7 H 0 0 N N N N N N -30.602 -76.607 -5.641 2.664 -0.312 -3.024 H053 Y3R 44 Y3R H052 H8 H 0 0 N N N N N N -31.898 -76.610 -4.398 1.161 -0.062 -2.102 H052 Y3R 45 Y3R H071 H9 H 0 0 N N N N N N -33.659 -73.771 -7.492 4.900 -1.532 -2.171 H071 Y3R 46 Y3R H081 H10 H 0 0 N N N N N N -33.264 -73.120 -9.840 7.281 -0.936 -2.342 H081 Y3R 47 Y3R H091 H11 H 0 0 N N N N N N -31.058 -73.331 -10.857 8.120 1.116 -1.277 H091 Y3R 48 Y3R H121 H12 H 0 0 N N N N N N -29.068 -74.058 -11.830 4.847 3.602 1.019 H121 Y3R 49 Y3R H141 H13 H 0 0 N N N N N N -25.255 -74.749 -9.485 9.290 4.904 0.785 H141 Y3R 50 Y3R H161 H14 H 0 0 N N N N N N -29.555 -74.869 -7.199 4.173 1.962 0.162 H161 Y3R 51 Y3R H192 H15 H 0 0 N N N N N N -32.279 -70.420 -1.949 -0.023 -2.309 1.792 H192 Y3R 52 Y3R H191 H16 H 0 0 N N N N N N -31.592 -71.007 -0.397 -1.024 -3.714 2.232 H191 Y3R 53 Y3R H251 H17 H 0 0 N N N N N N -36.254 -73.220 4.601 -7.073 0.307 1.301 H251 Y3R 54 Y3R H291 H18 H 0 0 N N N N N N -40.795 -72.250 4.612 -10.052 4.347 0.219 H291 Y3R 55 Y3R H292 H19 H 0 0 N N N N N N -41.545 -71.876 3.023 -11.053 2.943 0.660 H292 Y3R 56 Y3R H302 H20 H 0 0 N N N N N N -43.063 -73.191 4.445 -12.336 4.553 -0.722 H302 Y3R 57 Y3R H301 H21 H 0 0 N N N N N N -42.582 -74.119 2.984 -11.123 4.410 -2.016 H301 Y3R 58 Y3R H303 H22 H 0 0 N N N N N N -41.832 -74.493 4.573 -12.124 3.005 -1.576 H303 Y3R 59 Y3R H341 H23 H 0 0 N N N N N N -29.492 -70.276 -0.447 -0.406 -5.903 1.573 H341 Y3R 60 Y3R H351 H24 H 0 0 N N N N N N -27.187 -70.281 -1.281 1.287 -7.413 0.623 H351 Y3R 61 Y3R H361 H25 H 0 0 N N N N N N -26.655 -71.337 -3.442 3.182 -6.503 -0.655 H361 Y3R 62 Y3R H371 H26 H 0 0 N N N N N N -28.459 -72.393 -4.760 3.389 -4.076 -0.998 H371 Y3R 63 Y3R H031 H27 H 0 0 N N N N N N -30.193 -74.543 -4.286 3.522 -2.233 -1.001 H031 Y3R 64 Y3R H221 H28 H 0 0 N N N N N N -33.381 -74.143 0.550 -3.603 -1.697 -0.797 H221 Y3R 65 Y3R H231 H29 H 0 0 N N N N N N -36.007 -73.958 1.133 -4.471 -0.323 1.612 H231 Y3R 66 Y3R H262 H30 H 0 1 N N N N N N -37.516 -73.366 2.031 -8.051 0.289 -0.977 H1 Y3R 67 Y3R H252 H31 H 0 1 N Y N N N N -36.504 -74.659 3.555 -6.071 1.711 0.861 H2 Y3R 68 # 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 Y3R C02 O01 DOUB N N 1 Y3R C04 N03 SING N N 2 Y3R C05 C04 SING N N 3 Y3R C06 C04 SING N N 4 Y3R C07 C06 DOUB Y N 5 Y3R C08 C07 SING Y N 6 Y3R C09 C08 DOUB Y N 7 Y3R C10 C09 SING Y N 8 Y3R C12 C11 DOUB Y N 9 Y3R S13 C12 SING Y N 10 Y3R C14 S13 SING Y N 11 Y3R C15 C14 DOUB Y N 12 Y3R C11 C10 SING N N 13 Y3R C16 C10 DOUB Y N 14 Y3R N03 C02 SING N N 15 Y3R C17 C02 SING N N 16 Y3R C18 C17 DOUB Y N 17 Y3R C20 C19 SING N N 18 Y3R C21 C20 SING N N 19 Y3R N23 N22 SING N N 20 Y3R C24 N23 SING N N 21 Y3R C26 C25 SING N N 22 Y3R C27 C26 SING N N 23 Y3R C29 O28 SING N N 24 Y3R C30 C29 SING N N 25 Y3R O28 C27 SING N N 26 Y3R O31 C27 DOUB N N 27 Y3R C25 C24 SING N N 28 Y3R O32 C24 DOUB N N 29 Y3R N22 C21 SING N N 30 Y3R O33 C21 DOUB N N 31 Y3R C19 C18 SING N N 32 Y3R C34 C18 SING Y N 33 Y3R C35 C34 DOUB Y N 34 Y3R C36 C35 SING Y N 35 Y3R C37 C36 DOUB Y N 36 Y3R C06 C16 SING Y N 37 Y3R C11 C15 SING Y N 38 Y3R C17 C37 SING Y N 39 Y3R C15 H151 SING N N 40 Y3R C20 H202 SING N N 41 Y3R C20 H201 SING N N 42 Y3R C26 H261 SING N N 43 Y3R C04 H041 SING N N 44 Y3R C05 H051 SING N N 45 Y3R C05 H053 SING N N 46 Y3R C05 H052 SING N N 47 Y3R C07 H071 SING N N 48 Y3R C08 H081 SING N N 49 Y3R C09 H091 SING N N 50 Y3R C12 H121 SING N N 51 Y3R C14 H141 SING N N 52 Y3R C16 H161 SING N N 53 Y3R C19 H192 SING N N 54 Y3R C19 H191 SING N N 55 Y3R C25 H251 SING N N 56 Y3R C29 H291 SING N N 57 Y3R C29 H292 SING N N 58 Y3R C30 H302 SING N N 59 Y3R C30 H301 SING N N 60 Y3R C30 H303 SING N N 61 Y3R C34 H341 SING N N 62 Y3R C35 H351 SING N N 63 Y3R C36 H361 SING N N 64 Y3R C37 H371 SING N N 65 Y3R N03 H031 SING N N 66 Y3R N22 H221 SING N N 67 Y3R N23 H231 SING N N 68 Y3R C26 H262 SING N N 69 Y3R C25 H252 SING N N 70 # 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 Y3R SMILES ACDLabs 12.01 "O=C(OCC)CCC(=O)NNC(=O)CCc1ccccc1C(=O)NC(C)c1cccc(c1)c1ccsc1" Y3R InChI InChI 1.06 "InChI=1S/C28H31N3O5S/c1-3-36-27(34)14-13-26(33)31-30-25(32)12-11-20-7-4-5-10-24(20)28(35)29-19(2)21-8-6-9-22(17-21)23-15-16-37-18-23/h4-10,15-19H,3,11-14H2,1-2H3,(H,29,35)(H,30,32)(H,31,33)" Y3R InChIKey InChI 1.06 VCEOCCSGIGLDNU-UHFFFAOYSA-N Y3R SMILES_CANONICAL CACTVS 3.385 "CCOC(=O)CCC(=O)NNC(=O)CCc1ccccc1C(=O)N[C@H](C)c2cccc(c2)c3cscc3" Y3R SMILES CACTVS 3.385 "CCOC(=O)CCC(=O)NNC(=O)CCc1ccccc1C(=O)N[CH](C)c2cccc(c2)c3cscc3" Y3R SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CCOC(=O)CCC(=O)NNC(=O)CCc1ccccc1C(=O)N[C@H](C)c2cccc(c2)c3ccsc3" Y3R SMILES "OpenEye OEToolkits" 2.0.7 "CCOC(=O)CCC(=O)NNC(=O)CCc1ccccc1C(=O)NC(C)c2cccc(c2)c3ccsc3" # 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 Y3R "SYSTEMATIC NAME" ACDLabs 12.01 "ethyl 4-oxo-4-(2-{3-[2-({(1S)-1-[(3P)-3-(thiophen-3-yl)phenyl]ethyl}carbamoyl)phenyl]propanoyl}hydrazinyl)butanoate" Y3R "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "ethyl 4-oxidanylidene-4-[2-[3-[2-[[(1~{R})-1-(3-thiophen-3-ylphenyl)ethyl]carbamoyl]phenyl]propanoyl]hydrazinyl]butanoate" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site Y3R "Create component" 2023-11-17 RCSB Y3R "Initial release" 2024-04-03 RCSB #