data_YMY # _chem_comp.id YMY _chem_comp.name "(1R,2S)-1-hydroxy-2-((S)-4-methyl-2-(((((1s,4S)-4-propylcyclohexyl)methoxy)carbonyl)amino)pentanamido)-3-((S)-2-oxopyrrolidin-3-yl)propane-1-sulfonic acid" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C24 H43 N3 O8 S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2021-03-12 _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 533.679 _chem_comp.one_letter_code ? _chem_comp.three_letter_code YMY _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag Y _chem_comp.pdbx_ideal_coordinates_details Corina _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 7LZT _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 YMY C13 C1 C 0 1 N N S N N N 10.330 4.940 22.099 0.766 0.129 0.998 C13 YMY 1 YMY C15 C2 C 0 1 N N N N N N 12.434 4.525 23.423 -0.162 -0.932 3.061 C15 YMY 2 YMY C21 C3 C 0 1 N N N N N N 9.071 9.700 22.147 -4.003 0.789 0.756 C21 YMY 3 YMY C22 C4 C 0 1 N N N N N N 9.811 10.995 22.592 -5.209 0.520 -0.147 C22 YMY 4 YMY C24 C5 C 0 1 N N N N N N 9.727 13.503 22.444 -6.641 -1.257 -1.163 C24 YMY 5 YMY C01 C6 C 0 1 N N R N N N 7.587 2.008 19.521 4.057 1.553 -1.411 C01 YMY 6 YMY C03 C7 C 0 1 N N S N N N 7.461 3.463 19.967 4.286 0.358 -0.484 C03 YMY 7 YMY C04 C8 C 0 1 N N N N N N 6.957 4.378 18.823 4.359 -0.925 -1.314 C04 YMY 8 YMY C05 C9 C 0 1 N N S N N N 6.812 5.881 19.276 4.683 -2.107 -0.398 C05 YMY 9 YMY C09 C10 C 0 1 N N N N N N 5.819 6.044 20.194 6.098 -1.952 0.206 C09 YMY 10 YMY C12 C11 C 0 1 N N N N N N 8.919 4.436 21.768 1.915 0.119 0.024 C12 YMY 11 YMY C19 C12 C 0 1 N N N N N N 9.890 7.413 21.962 -1.645 0.422 0.797 C19 YMY 12 YMY C23 C13 C 0 1 N N N N N N 9.068 12.190 22.010 -5.435 -0.988 -0.260 C23 YMY 13 YMY C25 C14 C 0 1 N N N N N N 9.729 13.605 23.966 -7.884 -0.598 -0.562 C25 YMY 14 YMY C06 C15 C 0 1 N N N N N N 6.469 6.814 18.021 4.759 -3.390 -1.196 C06 YMY 15 YMY C08 C16 C 0 1 N N N N N N 5.111 7.406 19.860 6.594 -3.415 0.228 C08 YMY 16 YMY C14 C17 C 0 1 N N N N N N 11.056 3.963 22.974 0.935 -1.016 1.998 C14 YMY 17 YMY C16 C18 C 0 1 N N N N N N 13.353 4.890 22.222 -0.069 -2.146 3.988 C16 YMY 18 YMY C17 C19 C 0 1 N N N N N N 13.121 3.503 24.372 0.018 0.349 3.879 C17 YMY 19 YMY C26 C20 C 0 1 N N N N N N 10.470 14.900 24.406 -9.090 -0.867 -1.464 C26 YMY 20 YMY C27 C21 C 0 1 N N N N N N 9.610 16.194 24.111 -10.355 -0.316 -0.802 C27 YMY 21 YMY C28 C22 C 0 1 N N N N N N 10.232 17.471 24.792 -11.561 -0.584 -1.704 C28 YMY 22 YMY C29 C23 C 0 1 N N N N N N 10.387 12.405 24.646 -7.658 0.911 -0.448 C29 YMY 23 YMY C30 C24 C 0 1 N N N N N N 9.921 11.034 24.111 -6.452 1.179 0.454 C30 YMY 24 YMY N07 N1 N 0 1 N N N N N N 5.486 7.698 18.375 5.840 -4.100 -0.829 N07 YMY 25 YMY N11 N2 N 0 1 N N N N N N 8.739 3.956 20.413 3.179 0.261 0.470 N11 YMY 26 YMY N18 N3 N 0 1 N N N N N N 10.181 6.218 22.764 -0.494 -0.040 0.270 N18 YMY 27 YMY O02 O1 O 0 1 N N N N N N 7.931 1.259 20.658 5.126 1.634 -2.357 O02 YMY 28 YMY O10 O2 O 0 1 N N N N N N 6.988 6.763 16.948 3.960 -3.729 -2.043 O10 YMY 29 YMY O20 O3 O 0 1 N N N N N N 9.835 8.619 22.713 -2.802 0.266 0.127 O20 YMY 30 YMY O31 O4 O 0 1 N N N N N N 9.730 7.386 20.782 -1.638 0.979 1.877 O31 YMY 31 YMY O32 O5 O 0 1 N N N N N N 8.020 4.453 22.565 1.703 -0.016 -1.163 O32 YMY 32 YMY H1 H1 H 0 1 N N N N N N 10.888 5.069 21.160 0.751 1.079 1.533 H1 YMY 33 YMY H2 H2 H 0 1 N N N N N N 12.250 5.445 23.997 -1.138 -0.919 2.576 H2 YMY 34 YMY H3 H3 H 0 1 N N N N N N 8.042 9.690 22.535 -3.895 1.862 0.908 H3 YMY 35 YMY H4 H4 H 0 1 N N N N N N 9.050 9.625 21.050 -4.152 0.298 1.717 H4 YMY 36 YMY H5 H5 H 0 1 N N N N N N 10.826 10.973 22.168 -5.021 0.935 -1.137 H5 YMY 37 YMY H6 H6 H 0 1 N N N N N N 10.763 13.530 22.075 -6.453 -0.842 -2.153 H6 YMY 38 YMY H7 H7 H 0 1 N N N N N N 9.165 14.350 22.023 -6.802 -2.332 -1.243 H7 YMY 39 YMY S1 S1 S 0 1 N Y N N N N 8.334 1.908 18.762 4.001 3.078 -0.430 S1 YMY 40 YMY H9 H9 H 0 1 N N N N N N 6.583 1.693 19.200 3.113 1.426 -1.940 H9 YMY 41 YMY H10 H10 H 0 1 N N N N N N 6.736 3.514 20.793 5.222 0.493 0.059 H10 YMY 42 YMY H11 H11 H 0 1 N N N N N N 5.975 4.014 18.486 3.400 -1.097 -1.802 H11 YMY 43 YMY H12 H12 H 0 1 N N N N N N 7.673 4.328 17.989 5.139 -0.826 -2.069 H12 YMY 44 YMY H13 H13 H 0 1 N N N N N N 7.781 6.209 19.682 3.938 -2.191 0.393 H13 YMY 45 YMY H14 H14 H 0 1 N N N N N N 5.099 5.216 20.124 6.730 -1.336 -0.435 H14 YMY 46 YMY H15 H15 H 0 1 N N N N N N 6.243 6.076 21.209 6.050 -1.540 1.214 H15 YMY 47 YMY H16 H16 H 0 1 N N N N N N 8.027 12.175 22.364 -4.549 -1.458 -0.688 H16 YMY 48 YMY H17 H17 H 0 1 N N N N N N 9.083 12.124 20.912 -5.623 -1.403 0.730 H17 YMY 49 YMY H18 H18 H 0 1 N N N N N N 8.687 13.673 24.312 -8.072 -1.013 0.429 H18 YMY 50 YMY H19 H19 H 0 1 N N N N N N 5.481 8.206 20.517 7.662 -3.455 0.016 H19 YMY 51 YMY H20 H20 H 0 1 N N N N N N 4.021 7.314 19.973 6.385 -3.869 1.197 H20 YMY 52 YMY H21 H21 H 0 1 N N N N N N 10.445 3.757 23.865 0.861 -1.969 1.474 H21 YMY 53 YMY H22 H22 H 0 1 N N N N N N 11.215 3.029 22.414 1.911 -0.940 2.477 H22 YMY 54 YMY H23 H23 H 0 1 N N N N N N 14.310 5.281 22.598 -0.851 -2.085 4.745 H23 YMY 55 YMY H24 H24 H 0 1 N N N N N N 13.537 3.991 21.615 -0.197 -3.058 3.405 H24 YMY 56 YMY H25 H25 H 0 1 N N N N N N 12.862 5.656 21.604 0.907 -2.159 4.473 H25 YMY 57 YMY H26 H26 H 0 1 N N N N N N 12.446 3.267 25.208 -0.048 1.214 3.219 H26 YMY 58 YMY H27 H27 H 0 1 N N N N N N 13.350 2.582 23.815 -0.763 0.409 4.636 H27 YMY 59 YMY H28 H28 H 0 1 N N N N N N 14.053 3.936 24.764 0.994 0.336 4.364 H28 YMY 60 YMY H29 H29 H 0 1 N N N N N N 10.673 14.845 25.486 -8.941 -0.376 -2.426 H29 YMY 61 YMY H30 H30 H 0 1 N N N N N N 11.421 14.971 23.857 -9.198 -1.940 -1.617 H30 YMY 62 YMY H31 H31 H 0 1 N N N N N N 9.568 16.354 23.024 -10.505 -0.807 0.160 H31 YMY 63 YMY H32 H32 H 0 1 N N N N N N 8.592 16.042 24.499 -10.248 0.758 -0.649 H32 YMY 64 YMY H33 H33 H 0 1 N N N N N N 9.609 18.348 24.565 -12.462 -0.192 -1.233 H33 YMY 65 YMY H34 H34 H 0 1 N N N N N N 10.273 17.322 25.881 -11.412 -0.094 -2.666 H34 YMY 66 YMY H35 H35 H 0 1 N N N N N N 11.249 17.634 24.405 -11.669 -1.658 -1.857 H35 YMY 67 YMY H36 H36 H 0 1 N N N N N N 11.475 12.480 24.499 -7.470 1.325 -1.439 H36 YMY 68 YMY H37 H37 H 0 1 N N N N N N 10.158 12.451 25.721 -8.544 1.380 -0.020 H37 YMY 69 YMY H38 H38 H 0 1 N N N N N N 8.934 10.807 24.540 -6.640 0.764 1.445 H38 YMY 70 YMY H39 H39 H 0 1 N N N N N N 10.644 10.269 24.430 -6.291 2.254 0.535 H39 YMY 71 YMY H40 H40 H 0 1 N N N N N N 5.083 8.401 17.789 6.090 -4.954 -1.214 H40 YMY 72 YMY H41 H41 H 0 1 N N N N N N 9.512 3.967 19.779 3.355 0.298 1.423 H41 YMY 73 YMY H42 H42 H 0 1 N N N N N N 10.275 6.286 23.757 -0.499 -0.485 -0.592 H42 YMY 74 YMY H43 H43 H 0 1 N N N N N N 8.019 0.344 20.420 5.215 0.851 -2.917 H43 YMY 75 YMY O1 O6 O 0 1 N Y N N N N ? ? ? 5.128 3.159 0.431 O1 YMY 76 YMY O2 O7 O 0 1 N Y N N N N ? ? ? 3.619 4.180 -1.242 O2 YMY 77 YMY O3 O8 O 0 1 N Y N N N N ? ? ? 2.822 2.880 0.512 O3 YMY 78 YMY H8 H8 H 0 1 N Y N N N N ? ? ? 2.665 3.625 1.108 H8 YMY 79 # 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 YMY O10 C06 DOUB N N 1 YMY C06 N07 SING N N 2 YMY C06 C05 SING N N 3 YMY N07 C08 SING N N 4 YMY C04 C05 SING N N 5 YMY C04 C03 SING N N 6 YMY C05 C09 SING N N 7 YMY C01 C03 SING N N 8 YMY C01 O02 SING N N 9 YMY C08 C09 SING N N 10 YMY C03 N11 SING N N 11 YMY N11 C12 SING N N 12 YMY O31 C19 DOUB N N 13 YMY C12 C13 SING N N 14 YMY C12 O32 DOUB N N 15 YMY C19 O20 SING N N 16 YMY C19 N18 SING N N 17 YMY C23 C24 SING N N 18 YMY C23 C22 SING N N 19 YMY C13 N18 SING N N 20 YMY C13 C14 SING N N 21 YMY C21 C22 SING N N 22 YMY C21 O20 SING N N 23 YMY C16 C15 SING N N 24 YMY C24 C25 SING N N 25 YMY C22 C30 SING N N 26 YMY C14 C15 SING N N 27 YMY C15 C17 SING N N 28 YMY C25 C26 SING N N 29 YMY C25 C29 SING N N 30 YMY C30 C29 SING N N 31 YMY C27 C26 SING N N 32 YMY C27 C28 SING N N 33 YMY C13 H1 SING N N 34 YMY C15 H2 SING N N 35 YMY C21 H3 SING N N 36 YMY C21 H4 SING N N 37 YMY C22 H5 SING N N 38 YMY C24 H6 SING N N 39 YMY C24 H7 SING N N 40 YMY C01 S1 SING N N 41 YMY C01 H9 SING N N 42 YMY C03 H10 SING N N 43 YMY C04 H11 SING N N 44 YMY C04 H12 SING N N 45 YMY C05 H13 SING N N 46 YMY C09 H14 SING N N 47 YMY C09 H15 SING N N 48 YMY C23 H16 SING N N 49 YMY C23 H17 SING N N 50 YMY C25 H18 SING N N 51 YMY C08 H19 SING N N 52 YMY C08 H20 SING N N 53 YMY C14 H21 SING N N 54 YMY C14 H22 SING N N 55 YMY C16 H23 SING N N 56 YMY C16 H24 SING N N 57 YMY C16 H25 SING N N 58 YMY C17 H26 SING N N 59 YMY C17 H27 SING N N 60 YMY C17 H28 SING N N 61 YMY C26 H29 SING N N 62 YMY C26 H30 SING N N 63 YMY C27 H31 SING N N 64 YMY C27 H32 SING N N 65 YMY C28 H33 SING N N 66 YMY C28 H34 SING N N 67 YMY C28 H35 SING N N 68 YMY C29 H36 SING N N 69 YMY C29 H37 SING N N 70 YMY C30 H38 SING N N 71 YMY C30 H39 SING N N 72 YMY N07 H40 SING N N 73 YMY N11 H41 SING N N 74 YMY N18 H42 SING N N 75 YMY O02 H43 SING N N 76 YMY S1 O1 DOUB N N 77 YMY S1 O2 DOUB N N 78 YMY S1 O3 SING N N 79 YMY O3 H8 SING N N 80 # 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 YMY SMILES ACDLabs 12.01 "CC(C)CC(NC(=O)OCC1CCC(CCC)CC1)C(=O)NC(CC1CCNC1=O)C(O)S(=O)(=O)O" YMY InChI InChI 1.03 "InChI=1S/C24H43N3O8S/c1-4-5-16-6-8-17(9-7-16)14-35-24(31)27-19(12-15(2)3)22(29)26-20(23(30)36(32,33)34)13-18-10-11-25-21(18)28/h15-20,23,30H,4-14H2,1-3H3,(H,25,28)(H,26,29)(H,27,31)(H,32,33,34)/t16-,17-,18-,19-,20-,23+/m0/s1" YMY InChIKey InChI 1.03 ZJKUZJJPWZXFHP-LLQGSFPOSA-N YMY SMILES_CANONICAL CACTVS 3.385 "CCC[C@H]1CC[C@@H](CC1)COC(=O)N[C@@H](CC(C)C)C(=O)N[C@@H](C[C@@H]2CCNC2=O)[C@H](O)[S](O)(=O)=O" YMY SMILES CACTVS 3.385 "CCC[CH]1CC[CH](CC1)COC(=O)N[CH](CC(C)C)C(=O)N[CH](C[CH]2CCNC2=O)[CH](O)[S](O)(=O)=O" YMY SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CCCC1CCC(CC1)COC(=O)N[C@@H](CC(C)C)C(=O)N[C@@H](C[C@@H]2CCNC2=O)C(O)S(=O)(=O)O" YMY SMILES "OpenEye OEToolkits" 2.0.7 "CCCC1CCC(CC1)COC(=O)NC(CC(C)C)C(=O)NC(CC2CCNC2=O)C(O)S(=O)(=O)O" # 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 YMY "SYSTEMATIC NAME" ACDLabs 12.01 "(1R,2S)-1-hydroxy-3-[(3S)-2-oxopyrrolidin-3-yl]-2-{[N-({[(1s,4S)-4-propylcyclohexyl]methoxy}carbonyl)-L-leucyl]amino}propane-1-sulfonic acid" YMY "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "(2~{S})-2-[[(2~{S})-4-methyl-2-[(4-propylcyclohexyl)methoxycarbonylamino]pentanoyl]amino]-1-oxidanyl-3-[(3~{S})-2-oxidanylidenepyrrolidin-3-yl]propane-1-sulfonic acid" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site YMY "Create component" 2021-03-12 RCSB YMY "Initial release" 2021-03-24 RCSB YMY "Modify PCM" 2024-09-27 PDBE # _pdbx_chem_comp_pcm.pcm_id 1 _pdbx_chem_comp_pcm.comp_id YMY _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 C01 _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 ? #