data_YMV # _chem_comp.id YMV _chem_comp.name "(1S,2S)-1-hydroxy-2-((S)-4-methyl-2-(((((1r,4S)-4-phenylcyclohexyl)oxy)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 "C26 H39 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 553.668 _chem_comp.one_letter_code ? _chem_comp.three_letter_code YMV _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 7LZZ _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 YMV C02 C1 C 0 1 N N N N N N 10.405 7.576 22.255 1.872 -1.126 0.142 C02 YMV 1 YMV C04 C2 C 0 1 N N S N N N 10.814 5.133 22.031 -0.482 -1.350 -0.444 C04 YMV 2 YMV C05 C3 C 0 1 N N N N N N 11.461 4.009 22.829 -0.637 -2.743 -1.059 C05 YMV 3 YMV C06 C4 C 0 1 N N N N N N 12.943 4.290 23.059 -1.679 -2.693 -2.179 C06 YMV 4 YMV C07 C5 C 0 1 N N N N N N 13.498 3.421 24.183 -1.150 -1.835 -3.329 C07 YMV 5 YMV C08 C6 C 0 1 N N N N N N 13.739 4.046 21.787 -1.952 -4.111 -2.684 C08 YMV 6 YMV C09 C7 C 0 1 N N N N N N 9.393 4.762 21.656 -1.767 -0.956 0.238 C09 YMV 7 YMV C11 C8 C 0 1 N N S N N N 7.851 3.618 20.049 -3.996 0.027 0.189 C11 YMV 8 YMV C12 C9 C 0 1 N N N N N N 7.392 4.537 18.924 -4.615 1.162 -0.630 C12 YMV 9 YMV C13 C10 C 0 1 N N S N N N 7.168 5.912 19.373 -3.633 2.333 -0.704 C13 YMV 10 YMV C14 C11 C 0 1 N N N N N N 6.802 6.795 18.106 -4.219 3.465 -1.518 C14 YMV 11 YMV C16 C12 C 0 1 N N N N N N 5.423 7.272 19.983 -3.288 4.450 0.368 C16 YMV 12 YMV C17 C13 C 0 1 N N N N N N 5.936 6.023 20.248 -3.416 2.946 0.698 C17 YMV 13 YMV C19 C14 C 0 1 N N S N N N 7.920 2.150 19.618 -5.003 -1.117 0.319 C19 YMV 14 YMV C23 C15 C 0 1 N N N N N N 9.886 9.883 22.616 4.196 -0.780 0.560 C23 YMV 15 YMV C24 C16 C 0 1 N N N N N N 11.129 10.766 22.738 5.222 -1.425 1.494 C24 YMV 16 YMV C25 C17 C 0 1 N N N N N N 10.811 12.254 22.557 6.633 -1.148 0.971 C25 YMV 17 YMV C26 C18 C 0 1 N N N N N N 9.692 12.689 23.504 6.871 0.362 0.918 C26 YMV 18 YMV C27 C19 C 0 1 Y N N N N N 9.406 14.201 23.396 8.260 0.634 0.403 C27 YMV 19 YMV C28 C20 C 0 1 Y N N N N N 8.424 14.688 22.541 8.628 0.199 -0.857 C28 YMV 20 YMV C29 C21 C 0 1 Y N N N N N 8.174 16.050 22.466 9.903 0.448 -1.329 C29 YMV 21 YMV C30 C22 C 0 1 Y N N N N N 8.909 16.929 23.244 10.810 1.133 -0.542 C30 YMV 22 YMV C31 C23 C 0 1 Y N N N N N 9.887 16.448 24.102 10.442 1.570 0.716 C31 YMV 23 YMV C32 C24 C 0 1 Y N N N N N 10.134 15.085 24.180 9.165 1.325 1.187 C32 YMV 24 YMV C33 C25 C 0 1 N N N N N N 8.432 11.877 23.190 5.845 1.007 -0.017 C33 YMV 25 YMV C34 C26 C 0 1 N N N N N N 8.685 10.392 23.413 4.434 0.731 0.506 C34 YMV 26 YMV N03 N1 N 0 1 N N N N N N 10.770 6.314 22.844 0.606 -1.367 0.536 N03 YMV 27 YMV N10 N2 N 0 1 N N N N N N 9.184 4.003 20.450 -2.789 -0.459 -0.486 N10 YMV 28 YMV N15 N3 N 0 1 N N N N N N 5.764 7.578 18.473 -4.016 4.637 -0.892 N15 YMV 29 YMV O01 O1 O 0 1 N N N N N N 10.313 7.702 21.076 2.124 -0.979 -1.038 O01 YMV 30 YMV O18 O2 O 0 1 N N N N N N 7.343 6.742 17.059 -4.789 3.334 -2.580 O18 YMV 31 YMV O20 O3 O 0 1 N N N N N N 6.654 1.680 19.237 -4.383 -2.225 0.975 O20 YMV 32 YMV O21 O4 O 0 1 N N N N N N 8.484 5.105 22.329 -1.881 -1.087 1.438 O21 YMV 33 YMV O22 O5 O 0 1 N N N N N N 10.178 8.619 23.147 2.857 -1.042 1.056 O22 YMV 34 YMV H1 H1 H 0 1 N N N N N N 11.398 5.314 21.117 -0.252 -0.630 -1.230 H1 YMV 35 YMV H2 H2 H 0 1 N N N N N N 10.956 3.921 23.802 0.320 -3.068 -1.467 H2 YMV 36 YMV H3 H3 H 0 1 N N N N N N 11.355 3.065 22.274 -0.962 -3.444 -0.291 H3 YMV 37 YMV H4 H4 H 0 1 N N N N N N 13.057 5.346 23.346 -2.602 -2.259 -1.796 H4 YMV 38 YMV H5 H5 H 0 1 N N N N N N 12.922 3.598 25.103 -0.263 -2.304 -3.755 H5 YMV 39 YMV H6 H6 H 0 1 N N N N N N 13.419 2.361 23.900 -1.917 -1.744 -4.098 H6 YMV 40 YMV H7 H7 H 0 1 N N N N N N 14.554 3.677 24.357 -0.892 -0.844 -2.955 H7 YMV 41 YMV H8 H8 H 0 1 N N N N N N 14.803 4.254 21.974 -2.329 -4.722 -1.864 H8 YMV 42 YMV H9 H9 H 0 1 N N N N N N 13.620 2.998 21.475 -2.694 -4.075 -3.482 H9 YMV 43 YMV H10 H10 H 0 1 N N N N N N 13.370 4.710 20.991 -1.029 -4.545 -3.066 H10 YMV 44 YMV H11 H11 H 0 1 N N N N N N 7.157 3.711 20.897 -3.734 0.396 1.181 H11 YMV 45 YMV H12 H12 H 0 1 N N N N N N 6.451 4.144 18.511 -4.833 0.806 -1.637 H12 YMV 46 YMV H13 H13 H 0 1 N N N N N N 8.163 4.544 18.139 -5.538 1.492 -0.153 H13 YMV 47 YMV H14 H14 H 0 1 N N N N N N 8.052 6.327 19.880 -2.683 2.007 -1.129 H14 YMV 48 YMV H15 H15 H 0 1 N N N N N N 5.889 8.022 20.639 -3.740 5.050 1.158 H15 YMV 49 YMV H16 H16 H 0 1 N N N N N N 4.334 7.277 20.136 -2.239 4.721 0.243 H16 YMV 50 YMV H17 H17 H 0 1 N N N N N N 5.206 5.242 19.989 -4.275 2.760 1.343 H17 YMV 51 YMV H18 H18 H 0 1 N N N N N N 6.207 5.934 21.310 -2.500 2.568 1.153 H18 YMV 52 YMV S1 S1 S 0 1 N Y N N N N 8.611 2.038 18.809 -6.429 -0.558 1.292 S1 YMV 53 YMV H20 H20 H 0 1 N N N N N N 8.219 1.589 20.516 -5.337 -1.421 -0.673 H20 YMV 54 YMV H21 H21 H 0 1 N N N N N N 9.605 9.805 21.555 4.302 -1.200 -0.441 H21 YMV 55 YMV H22 H22 H 0 1 N N N N N N 11.854 10.464 21.968 5.117 -1.005 2.494 H22 YMV 56 YMV H23 H23 H 0 1 N N N N N N 11.570 10.618 23.735 5.053 -2.501 1.532 H23 YMV 57 YMV H24 H24 H 0 1 N N N N N N 11.714 12.844 22.771 7.364 -1.608 1.637 H24 YMV 58 YMV H25 H25 H 0 1 N N N N N N 10.494 12.431 21.519 6.739 -1.568 -0.029 H25 YMV 59 YMV H26 H26 H 0 1 N N N N N N 10.002 12.468 24.536 6.765 0.782 1.918 H26 YMV 60 YMV H27 H27 H 0 1 N N N N N N 7.853 14.002 21.932 7.920 -0.337 -1.471 H27 YMV 61 YMV H28 H28 H 0 1 N N N N N N 7.408 16.424 21.803 10.191 0.107 -2.312 H28 YMV 62 YMV H29 H29 H 0 1 N N N N N N 8.720 17.991 23.183 11.807 1.327 -0.911 H29 YMV 63 YMV H30 H30 H 0 1 N N N N N N 10.457 17.135 24.710 11.150 2.105 1.331 H30 YMV 64 YMV H31 H31 H 0 1 N N N N N N 10.893 14.712 24.851 8.876 1.669 2.169 H31 YMV 65 YMV H32 H32 H 0 1 N N N N N N 8.147 12.042 22.140 6.014 2.083 -0.055 H32 YMV 66 YMV H33 H33 H 0 1 N N N N N N 7.615 12.208 23.848 5.950 0.587 -1.017 H33 YMV 67 YMV H34 H34 H 0 1 N N N N N N 7.791 9.830 23.104 3.703 1.190 -0.159 H34 YMV 68 YMV H35 H35 H 0 1 N N N N N N 8.873 10.222 24.483 4.328 1.151 1.507 H35 YMV 69 YMV H36 H36 H 0 1 N N N N N N 10.992 6.261 23.818 0.416 -1.553 1.469 H36 YMV 70 YMV H37 H37 H 0 1 N N N N N N 9.967 3.741 19.886 -2.726 -0.423 -1.453 H37 YMV 71 YMV H38 H38 H 0 1 N N N N N N 5.293 8.238 17.888 -4.314 5.497 -1.230 H38 YMV 72 YMV H39 H39 H 0 1 N N N N N N 6.720 0.769 18.974 -3.612 -2.576 0.509 H39 YMV 73 YMV O1 O6 O 0 1 N Y N N N N ? ? ? -7.403 -1.589 1.385 O1 YMV 74 YMV O2 O7 O 0 1 N Y N N N N ? ? ? -5.998 0.149 2.447 O2 YMV 75 YMV O3 O8 O 0 1 N Y N N N N ? ? ? -7.088 0.504 0.425 O3 YMV 76 YMV H19 H19 H 0 1 N Y N N N N ? ? ? -7.877 0.901 0.820 H19 YMV 77 # 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 YMV O18 C14 DOUB N N 1 YMV C14 N15 SING N N 2 YMV C14 C13 SING N N 3 YMV N15 C16 SING N N 4 YMV C12 C13 SING N N 5 YMV C12 C11 SING N N 6 YMV O20 C19 SING N N 7 YMV C13 C17 SING N N 8 YMV C19 C11 SING N N 9 YMV C16 C17 SING N N 10 YMV C11 N10 SING N N 11 YMV N10 C09 SING N N 12 YMV O01 C02 DOUB N N 13 YMV C09 C04 SING N N 14 YMV C09 O21 DOUB N N 15 YMV C08 C06 SING N N 16 YMV C04 C05 SING N N 17 YMV C04 N03 SING N N 18 YMV C02 N03 SING N N 19 YMV C02 O22 SING N N 20 YMV C29 C28 DOUB Y N 21 YMV C29 C30 SING Y N 22 YMV C28 C27 SING Y N 23 YMV C25 C24 SING N N 24 YMV C25 C26 SING N N 25 YMV C23 C24 SING N N 26 YMV C23 O22 SING N N 27 YMV C23 C34 SING N N 28 YMV C05 C06 SING N N 29 YMV C06 C07 SING N N 30 YMV C33 C34 SING N N 31 YMV C33 C26 SING N N 32 YMV C30 C31 DOUB Y N 33 YMV C27 C26 SING N N 34 YMV C27 C32 DOUB Y N 35 YMV C31 C32 SING Y N 36 YMV C04 H1 SING N N 37 YMV C05 H2 SING N N 38 YMV C05 H3 SING N N 39 YMV C06 H4 SING N N 40 YMV C07 H5 SING N N 41 YMV C07 H6 SING N N 42 YMV C07 H7 SING N N 43 YMV C08 H8 SING N N 44 YMV C08 H9 SING N N 45 YMV C08 H10 SING N N 46 YMV C11 H11 SING N N 47 YMV C12 H12 SING N N 48 YMV C12 H13 SING N N 49 YMV C13 H14 SING N N 50 YMV C16 H15 SING N N 51 YMV C16 H16 SING N N 52 YMV C17 H17 SING N N 53 YMV C17 H18 SING N N 54 YMV C19 S1 SING N N 55 YMV C19 H20 SING N N 56 YMV C23 H21 SING N N 57 YMV C24 H22 SING N N 58 YMV C24 H23 SING N N 59 YMV C25 H24 SING N N 60 YMV C25 H25 SING N N 61 YMV C26 H26 SING N N 62 YMV C28 H27 SING N N 63 YMV C29 H28 SING N N 64 YMV C30 H29 SING N N 65 YMV C31 H30 SING N N 66 YMV C32 H31 SING N N 67 YMV C33 H32 SING N N 68 YMV C33 H33 SING N N 69 YMV C34 H34 SING N N 70 YMV C34 H35 SING N N 71 YMV N03 H36 SING N N 72 YMV N10 H37 SING N N 73 YMV N15 H38 SING N N 74 YMV O20 H39 SING N N 75 YMV S1 O1 DOUB N N 76 YMV S1 O2 DOUB N N 77 YMV S1 O3 SING N N 78 YMV O3 H19 SING N N 79 # 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 YMV SMILES ACDLabs 12.01 "CC(C)CC(NC(=O)OC1CCC(CC1)c1ccccc1)C(=O)NC(CC1CCNC1=O)C(O)S(=O)(=O)O" YMV InChI InChI 1.03 "InChI=1S/C26H39N3O8S/c1-16(2)14-21(24(31)28-22(25(32)38(34,35)36)15-19-12-13-27-23(19)30)29-26(33)37-20-10-8-18(9-11-20)17-6-4-3-5-7-17/h3-7,16,18-22,25,32H,8-15H2,1-2H3,(H,27,30)(H,28,31)(H,29,33)(H,34,35,36)/t18-,19-,20-,21-,22-,25-/m0/s1" YMV InChIKey InChI 1.03 GQBZOCZYIKJBAR-GAJBLSCZSA-N YMV SMILES_CANONICAL CACTVS 3.385 "CC(C)C[C@H](NC(=O)O[C@@H]1CC[C@H](CC1)c2ccccc2)C(=O)N[C@@H](C[C@@H]3CCNC3=O)[C@@H](O)[S](O)(=O)=O" YMV SMILES CACTVS 3.385 "CC(C)C[CH](NC(=O)O[CH]1CC[CH](CC1)c2ccccc2)C(=O)N[CH](C[CH]3CCNC3=O)[CH](O)[S](O)(=O)=O" YMV SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CC(C)C[C@@H](C(=O)N[C@@H](C[C@@H]1CCNC1=O)C(O)S(=O)(=O)O)NC(=O)OC2CCC(CC2)c3ccccc3" YMV SMILES "OpenEye OEToolkits" 2.0.7 "CC(C)CC(C(=O)NC(CC1CCNC1=O)C(O)S(=O)(=O)O)NC(=O)OC2CCC(CC2)c3ccccc3" # 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 YMV "SYSTEMATIC NAME" ACDLabs 12.01 "(1S,2S)-1-hydroxy-3-[(3S)-2-oxopyrrolidin-3-yl]-2-{[N-({[(1r,4S)-4-phenylcyclohexyl]oxy}carbonyl)-L-leucyl]amino}propane-1-sulfonic acid" YMV "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "(2~{S})-2-[[(2~{S})-4-methyl-2-[(4-phenylcyclohexyl)oxycarbonylamino]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 YMV "Create component" 2021-03-12 RCSB YMV "Initial release" 2021-03-24 RCSB YMV "Modify PCM" 2024-09-27 PDBE # _pdbx_chem_comp_pcm.pcm_id 1 _pdbx_chem_comp_pcm.comp_id YMV _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 C19 _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 ? #