data_YHJ # _chem_comp.id YHJ _chem_comp.name "benzyl (1S,3aR,6aS)-1-({(2S)-1-hydroxy-3-[(3S)-2-oxopyrrolidin-3-yl]propan-2-yl}carbamoyl)hexahydrocyclopenta[c]pyrrole-2(1H)-carboxylate" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C23 H31 N3 O5" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2021-03-08 _chem_comp.pdbx_modified_date 2024-09-27 _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 429.509 _chem_comp.one_letter_code ? _chem_comp.three_letter_code YHJ _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 7LYH _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB _chem_comp.pdbx_pcm Y # 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 YHJ C10 C1 C 0 1 Y N N N N N -21.193 5.415 16.227 5.816 1.392 -1.051 C10 YHJ 1 YHJ C13 C2 C 0 1 N N R N N N -21.009 -0.936 16.579 0.518 -3.226 0.353 C13 YHJ 2 YHJ C15 C3 C 0 1 N N N N N N -19.252 -1.815 18.174 -0.023 -4.663 -1.587 C15 YHJ 3 YHJ C17 C4 C 0 1 N N S N N N -20.219 -1.605 15.946 -0.760 -2.680 -0.357 C17 YHJ 4 YHJ C21 C5 C 0 1 N N S N N N -17.732 -2.028 11.956 -3.262 0.487 1.633 C21 YHJ 5 YHJ C22 C6 C 0 1 N N N N N N -16.641 -1.118 11.262 -4.486 1.204 1.060 C22 YHJ 6 YHJ C24 C7 C 0 1 N N N N N N -18.410 0.299 9.917 -5.243 3.133 -0.387 C24 YHJ 7 YHJ O01 O1 O 0 1 N N N N N N -18.218 1.837 14.235 0.925 1.264 -0.369 O01 YHJ 8 YHJ C02 C8 C 0 1 N N N N N N -19.140 1.920 14.977 1.572 0.241 -0.263 C02 YHJ 9 YHJ O03 O2 O 0 1 N N N N N N -19.635 3.138 15.541 2.909 0.302 -0.121 O03 YHJ 10 YHJ C04 C9 C 0 1 N N N N N N -19.615 4.188 14.614 3.511 1.624 -0.103 C04 YHJ 11 YHJ C05 C10 C 0 1 Y N N N N N -20.182 5.466 15.244 5.003 1.494 0.062 C05 YHJ 12 YHJ C06 C11 C 0 1 Y N N N N N -19.716 6.681 14.789 5.559 1.477 1.328 C06 YHJ 13 YHJ C07 C12 C 0 1 Y N N N N N -20.208 7.858 15.320 6.928 1.358 1.480 C07 YHJ 14 YHJ C08 C13 C 0 1 Y N N N N N -21.194 7.811 16.282 7.741 1.256 0.366 C08 YHJ 15 YHJ C09 C14 C 0 1 Y N N N N N -21.676 6.598 16.742 7.185 1.273 -0.899 C09 YHJ 16 YHJ N11 N1 N 0 1 N N N N N N -19.806 0.694 15.346 0.951 -0.954 -0.287 N11 YHJ 17 YHJ C12 C15 C 0 1 N N N N N N -21.021 0.549 15.875 1.610 -2.266 -0.169 C12 YHJ 18 YHJ C14 C16 C 0 1 N N N N N N -20.394 -0.884 18.143 0.737 -4.622 -0.251 C14 YHJ 19 YHJ C16 C17 C 0 1 N N N N N N -19.263 -2.486 17.037 -0.652 -3.271 -1.781 C16 YHJ 20 YHJ C18 C18 C 0 1 N N S N N N -19.202 -0.601 15.241 -0.496 -1.164 -0.436 C18 YHJ 21 YHJ C19 C19 C 0 1 N N N N N N -19.118 -0.974 13.827 -1.231 -0.459 0.675 C19 YHJ 22 YHJ N20 N2 N 0 1 N N N N N N -17.888 -1.567 13.377 -2.547 -0.198 0.553 N20 YHJ 23 YHJ C23 C20 C 0 1 N N S N N N -17.098 0.306 10.927 -4.030 2.312 0.109 C23 YHJ 24 YHJ C25 C21 C 0 1 N N N N N N -18.340 1.436 9.233 -5.585 2.420 -1.714 C25 YHJ 25 YHJ N26 N3 N 0 1 N N N N N N -16.819 1.785 9.182 -4.332 1.798 -2.158 N26 YHJ 26 YHJ C27 C22 C 0 1 N N N N N N -16.125 0.966 10.288 -3.443 1.719 -1.153 C27 YHJ 27 YHJ O28 O3 O 0 1 N N N N N N -14.967 0.996 10.551 -2.331 1.243 -1.244 O28 YHJ 28 YHJ C29 C23 C 0 1 N N N N N N -17.310 -3.516 12.054 -3.712 -0.537 2.676 C29 YHJ 29 YHJ O30 O4 O 0 1 N N N N N N -17.452 -4.078 10.810 -4.669 -1.423 2.092 O30 YHJ 30 YHJ O31 O5 O 0 1 N N N N N N -20.034 -0.798 13.083 -0.637 -0.127 1.680 O31 YHJ 31 YHJ H1 H1 H 0 1 N N N N N N -21.581 4.467 16.569 5.381 1.401 -2.040 H1 YHJ 32 YHJ H2 H2 H 0 1 N N N N N N -22.040 -1.318 16.622 0.437 -3.230 1.440 H2 YHJ 33 YHJ H3 H3 H 0 1 N N N N N N -18.311 -1.254 18.271 0.668 -4.877 -2.402 H3 YHJ 34 YHJ H4 H4 H 0 1 N N N N N N -19.354 -2.509 19.022 -0.803 -5.424 -1.549 H4 YHJ 35 YHJ H5 H5 H 0 1 N N N N N N -20.640 -2.299 15.204 -1.686 -2.931 0.159 H5 YHJ 36 YHJ H7 H7 H 0 1 N N N N N N -18.685 -1.942 11.413 -2.600 1.216 2.101 H7 YHJ 37 YHJ H8 H8 H 0 1 N N N N N N -15.776 -1.048 11.938 -5.103 0.489 0.515 H8 YHJ 38 YHJ H9 H9 H 0 1 N N N N N N -16.336 -1.607 10.325 -5.066 1.639 1.874 H9 YHJ 39 YHJ H10 H10 H 0 1 N N N N N N -18.365 -0.563 9.235 -6.073 3.066 0.317 H10 YHJ 40 YHJ H11 H11 H 0 1 N N N N N N -19.342 0.258 10.499 -4.966 4.172 -0.563 H11 YHJ 41 YHJ H12 H12 H 0 1 N N N N N N -18.578 4.370 14.295 3.293 2.135 -1.041 H12 YHJ 42 YHJ H13 H13 H 0 1 N N N N N N -20.225 3.913 13.741 3.102 2.198 0.728 H13 YHJ 43 YHJ H14 H14 H 0 1 N N N N N N -18.964 6.713 14.015 4.924 1.556 2.198 H14 YHJ 44 YHJ H15 H15 H 0 1 N N N N N N -19.822 8.809 14.983 7.363 1.345 2.468 H15 YHJ 45 YHJ H16 H16 H 0 1 N N N N N N -21.595 8.731 16.681 8.810 1.163 0.485 H16 YHJ 46 YHJ H17 H17 H 0 1 N N N N N N -22.436 6.579 17.510 7.820 1.193 -1.769 H17 YHJ 47 YHJ H18 H18 H 0 1 N N N N N N -21.791 0.598 15.091 2.435 -2.211 0.542 H18 YHJ 48 YHJ H19 H19 H 0 1 N N N N N N -21.211 1.330 16.626 1.970 -2.597 -1.142 H19 YHJ 49 YHJ H20 H20 H 0 1 N N N N N N -20.060 0.135 18.386 1.800 -4.789 -0.424 H20 YHJ 50 YHJ H21 H21 H 0 1 N N N N N N -21.162 -1.200 18.864 0.344 -5.383 0.422 H21 YHJ 51 YHJ H22 H22 H 0 1 N N N N N N -18.239 -2.584 16.647 -0.009 -2.648 -2.402 H22 YHJ 52 YHJ H23 H23 H 0 1 N N N N N N -19.693 -3.486 17.193 -1.641 -3.362 -2.229 H23 YHJ 53 YHJ H25 H25 H 0 1 N N N N N N -18.221 -0.648 15.737 -0.827 -0.781 -1.401 H25 YHJ 54 YHJ H26 H26 H 0 1 N N N N N N -17.128 -1.674 14.018 -3.022 -0.463 -0.251 H26 YHJ 55 YHJ H27 H27 H 0 1 N N N N N N -17.397 0.814 11.856 -3.306 2.961 0.601 H27 YHJ 56 YHJ H28 H28 H 0 1 N N N N N N -18.740 1.301 8.217 -6.346 1.658 -1.548 H28 YHJ 57 YHJ H29 H29 H 0 1 N N N N N N -18.902 2.231 9.746 -5.929 3.143 -2.453 H29 YHJ 58 YHJ H30 H30 H 0 1 N N N N N N -16.377 2.421 8.550 -4.166 1.483 -3.060 H30 YHJ 59 YHJ H31 H31 H 0 1 N N N N N N -16.261 -3.586 12.378 -2.850 -1.109 3.020 H31 YHJ 60 YHJ H32 H32 H 0 1 N N N N N N -17.953 -4.040 12.776 -4.165 -0.019 3.522 H32 YHJ 61 YHJ H33 H33 H 0 1 N N N N N N -17.199 -4.993 10.845 -4.999 -2.101 2.698 H33 YHJ 62 # 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 YHJ C10 C05 DOUB Y N 1 YHJ C10 C09 SING Y N 2 YHJ C13 C17 SING N N 3 YHJ C13 C12 SING N N 4 YHJ C13 C14 SING N N 5 YHJ C15 C14 SING N N 6 YHJ C15 C16 SING N N 7 YHJ C17 C18 SING N N 8 YHJ C21 C22 SING N N 9 YHJ C21 N20 SING N N 10 YHJ C21 C29 SING N N 11 YHJ C22 C23 SING N N 12 YHJ C24 C23 SING N N 13 YHJ C24 C25 SING N N 14 YHJ O01 C02 DOUB N N 15 YHJ C02 O03 SING N N 16 YHJ C02 N11 SING N N 17 YHJ O03 C04 SING N N 18 YHJ C04 C05 SING N N 19 YHJ C05 C06 SING Y N 20 YHJ C06 C07 DOUB Y N 21 YHJ C07 C08 SING Y N 22 YHJ C08 C09 DOUB Y N 23 YHJ N11 C12 SING N N 24 YHJ N11 C18 SING N N 25 YHJ C18 C19 SING N N 26 YHJ C19 N20 SING N N 27 YHJ C19 O31 DOUB N N 28 YHJ C23 C27 SING N N 29 YHJ C25 N26 SING N N 30 YHJ N26 C27 SING N N 31 YHJ C27 O28 DOUB N N 32 YHJ C29 O30 SING N N 33 YHJ C10 H1 SING N N 34 YHJ C13 H2 SING N N 35 YHJ C15 H3 SING N N 36 YHJ C15 H4 SING N N 37 YHJ C17 H5 SING N N 38 YHJ C21 H7 SING N N 39 YHJ C22 H8 SING N N 40 YHJ C22 H9 SING N N 41 YHJ C24 H10 SING N N 42 YHJ C24 H11 SING N N 43 YHJ C04 H12 SING N N 44 YHJ C04 H13 SING N N 45 YHJ C06 H14 SING N N 46 YHJ C07 H15 SING N N 47 YHJ C08 H16 SING N N 48 YHJ C09 H17 SING N N 49 YHJ C12 H18 SING N N 50 YHJ C12 H19 SING N N 51 YHJ C14 H20 SING N N 52 YHJ C14 H21 SING N N 53 YHJ C16 H22 SING N N 54 YHJ C16 H23 SING N N 55 YHJ C18 H25 SING N N 56 YHJ N20 H26 SING N N 57 YHJ C23 H27 SING N N 58 YHJ C25 H28 SING N N 59 YHJ C25 H29 SING N N 60 YHJ N26 H30 SING N N 61 YHJ C29 H31 SING N N 62 YHJ C29 H32 SING N N 63 YHJ O30 H33 SING N N 64 YHJ C17 C16 SING N N 65 # 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 YHJ SMILES ACDLabs 12.01 "O=C1NCCC1CC(CO)NC(=O)C1C2CCCC2CN1C(=O)OCc1ccccc1" YHJ InChI InChI 1.03 "InChI=1S/C23H31N3O5/c27-13-18(11-16-9-10-24-21(16)28)25-22(29)20-19-8-4-7-17(19)12-26(20)23(30)31-14-15-5-2-1-3-6-15/h1-3,5-6,16-20,27H,4,7-14H2,(H,24,28)(H,25,29)/t16-,17-,18-,19-,20-/m0/s1" YHJ InChIKey InChI 1.03 BQHAUUUZCGWWEE-HVTWWXFQSA-N YHJ SMILES_CANONICAL CACTVS 3.385 "OC[C@H](C[C@@H]1CCNC1=O)NC(=O)[C@@H]2[C@H]3CCC[C@H]3CN2C(=O)OCc4ccccc4" YHJ SMILES CACTVS 3.385 "OC[CH](C[CH]1CCNC1=O)NC(=O)[CH]2[CH]3CCC[CH]3CN2C(=O)OCc4ccccc4" YHJ SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1ccc(cc1)COC(=O)N2C[C@@H]3CCCC3[C@H]2C(=O)N[C@@H](C[C@@H]4CCNC4=O)CO" YHJ SMILES "OpenEye OEToolkits" 2.0.7 "c1ccc(cc1)COC(=O)N2CC3CCCC3C2C(=O)NC(CC4CCNC4=O)CO" # 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 YHJ "SYSTEMATIC NAME" ACDLabs 12.01 "benzyl (1S,3aR,6aS)-1-({(2S)-1-hydroxy-3-[(3S)-2-oxopyrrolidin-3-yl]propan-2-yl}carbamoyl)hexahydrocyclopenta[c]pyrrole-2(1H)-carboxylate" YHJ "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "(phenylmethyl) (3~{S},6~{a}~{R})-3-[[(2~{S})-1-oxidanyl-3-[(3~{S})-2-oxidanylidenepyrrolidin-3-yl]propan-2-yl]carbamoyl]-3,3~{a},4,5,6,6~{a}-hexahydro-1~{H}-cyclopenta[c]pyrrole-2-carboxylate" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site YHJ "Create component" 2021-03-08 RCSB YHJ "Initial release" 2021-03-17 RCSB YHJ "Modify PCM" 2024-09-27 PDBE # _pdbx_chem_comp_pcm.pcm_id 1 _pdbx_chem_comp_pcm.comp_id YHJ _pdbx_chem_comp_pcm.modified_residue_id CYS _pdbx_chem_comp_pcm.type None _pdbx_chem_comp_pcm.category "Covalent chemical modification" _pdbx_chem_comp_pcm.position "Amino-acid side chain" _pdbx_chem_comp_pcm.polypeptide_position "Any position" _pdbx_chem_comp_pcm.comp_id_linking_atom C29 _pdbx_chem_comp_pcm.modified_residue_id_linking_atom SG _pdbx_chem_comp_pcm.uniprot_specific_ptm_accession ? _pdbx_chem_comp_pcm.uniprot_generic_ptm_accession ? #