data_Y4J # _chem_comp.id Y4J _chem_comp.name "(1R,2S)-2-((S)-2-(((((1R,3R,5S)-bicyclo[3.3.1]non-6-en-3-yl)methoxy)carbonyl)amino)-4-methylpentanamido)-1-hydroxy-3-((S)-2-oxopyrrolidin-3-yl)propane-1-sulfonic acid" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C24 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 2021-02-03 _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 529.647 _chem_comp.one_letter_code ? _chem_comp.three_letter_code Y4J _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 7LKV _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 Y4J N11 N1 N 0 1 N N N N N N 10.147 20.344 27.463 2.352 -0.223 -0.222 N11 Y4J 1 Y4J C12 C1 C 0 1 N N N N N N 10.565 21.616 27.891 1.204 0.409 0.094 C12 Y4J 2 Y4J C14 C2 C 0 1 N N N N N N 13.041 21.945 28.388 0.037 0.197 -2.083 C14 Y4J 3 Y4J N18 N2 N 0 1 N N N N N N 11.795 23.597 27.032 -1.179 0.836 -0.061 N18 Y4J 4 Y4J C19 C3 C 0 1 N N N N N N 10.829 24.022 26.140 -2.446 0.377 -0.092 C19 Y4J 5 Y4J C21 C4 C 0 1 N N N N N N 9.337 25.767 25.420 -4.790 0.582 0.311 C21 Y4J 6 Y4J C22 C5 C 0 1 N N R N N N 8.150 26.233 26.327 -5.790 1.587 0.885 C22 Y4J 7 Y4J C23 C6 C 0 1 N N N N N N 6.846 26.530 25.515 -6.397 1.025 2.170 C23 Y4J 8 Y4J C24 C7 C 0 1 N N R N N N 6.728 27.911 24.867 -7.185 -0.245 1.892 C24 Y4J 9 Y4J C25 C8 C 0 1 N N N N N N 6.872 29.009 25.908 -8.260 -0.003 0.832 C25 Y4J 10 Y4J C26 C9 C 0 1 N N S N N N 8.250 28.866 26.541 -7.575 0.491 -0.449 C26 Y4J 11 Y4J C27 C10 C 0 1 N N N N N N 8.466 27.481 27.183 -6.904 1.839 -0.137 C27 Y4J 12 Y4J C02 C11 C 0 1 N N N N N N 6.587 20.988 24.876 2.934 -2.648 0.825 C02 Y4J 13 Y4J C04 C12 C 0 1 N N N N N N 5.649 22.709 26.262 4.640 -4.120 0.262 C04 Y4J 14 Y4J C05 C13 C 0 1 N N N N N N 6.671 21.924 27.106 5.249 -3.144 1.293 C05 Y4J 15 Y4J C06 C14 C 0 1 N N S N N N 7.476 21.053 26.125 4.217 -1.993 1.286 C06 Y4J 16 Y4J C07 C15 C 0 1 N N N N N N 7.827 19.691 26.722 4.643 -0.899 0.306 C07 Y4J 17 Y4J C08 C16 C 0 1 N N S N N N 8.854 19.771 27.914 3.623 0.242 0.340 C08 Y4J 18 Y4J C09 C17 C 0 1 N N R N N N 9.113 18.360 28.456 4.146 1.418 -0.487 C09 Y4J 19 Y4J C13 C18 C 0 1 N N S N N N 11.927 22.175 27.359 -0.086 0.005 -0.571 C13 Y4J 20 Y4J C15 C19 C 0 1 N N N N N N 14.402 22.478 27.971 -1.225 -0.330 -2.769 C15 Y4J 21 Y4J C16 C20 C 0 1 N N N N N N 15.457 22.174 29.035 -1.156 -0.026 -4.267 C16 Y4J 22 Y4J C17 C21 C 0 1 N N N N N N 14.884 21.906 26.662 -1.326 -1.842 -2.560 C17 Y4J 23 Y4J C28 C22 C 0 1 N N N N N N 9.239 29.133 25.447 -6.492 -0.481 -0.836 C28 Y4J 24 Y4J C29 C23 C 0 1 N N N N N N 8.938 28.903 24.177 -5.927 -1.287 0.004 C29 Y4J 25 Y4J C30 C24 C 0 1 N N N N N N 7.761 28.098 23.739 -6.280 -1.390 1.457 C30 Y4J 26 Y4J N03 N3 N 0 1 N N N N N N 5.576 21.946 25.029 3.200 -3.839 0.261 N03 Y4J 27 Y4J O01 O1 O 0 1 N N N N N N 6.694 20.269 23.922 1.826 -2.170 0.951 O01 Y4J 28 Y4J O10 O2 O 0 1 N N N N N N 9.942 18.545 29.585 4.495 0.963 -1.795 O10 Y4J 29 Y4J O20 O3 O 0 1 N N N N N N 10.563 25.395 26.053 -3.451 1.140 0.377 O20 Y4J 30 Y4J O31 O4 O 0 1 N N N N N N 10.193 23.247 25.448 -2.681 -0.727 -0.544 O31 Y4J 31 Y4J O32 O5 O 0 1 N N N N N N 9.867 22.283 28.610 1.210 1.303 0.913 O32 Y4J 32 Y4J H1 H1 H 0 1 N N N N N N 10.730 19.817 26.845 2.336 -0.988 -0.818 H1 Y4J 33 Y4J H2 H2 H 0 1 N N N N N N 12.750 22.441 29.326 0.157 1.257 -2.307 H2 Y4J 34 Y4J H3 H3 H 0 1 N N N N N N 13.133 20.862 28.559 0.905 -0.352 -2.450 H3 Y4J 35 Y4J H4 H4 H 0 1 N N N N N N 12.407 24.264 27.457 -0.992 1.717 0.300 H4 Y4J 36 Y4J H5 H5 H 0 1 N N N N N N 9.564 26.593 24.729 -4.827 -0.340 0.891 H5 Y4J 37 Y4J H6 H6 H 0 1 N N N N N N 8.988 24.895 24.847 -5.044 0.368 -0.727 H6 Y4J 38 Y4J H7 H7 H 0 1 N N N N N N 7.923 25.407 27.018 -5.279 2.524 1.104 H7 Y4J 39 Y4J H8 H8 H 0 1 N N N N N N 5.994 26.412 26.201 -5.596 0.802 2.876 H8 Y4J 40 Y4J H9 H9 H 0 1 N N N N N N 6.777 25.781 24.713 -7.062 1.769 2.608 H9 Y4J 41 Y4J H10 H10 H 0 1 N N N N N N 5.725 27.992 24.422 -7.680 -0.548 2.815 H10 Y4J 42 Y4J H11 H11 H 0 1 N N N N N N 6.780 29.995 25.429 -8.792 -0.933 0.628 H11 Y4J 43 Y4J H12 H12 H 0 1 N N N N N N 6.093 28.901 26.677 -8.962 0.751 1.187 H12 Y4J 44 Y4J H13 H13 H 0 1 N N N N N N 8.362 29.633 27.321 -8.304 0.603 -1.252 H13 Y4J 45 Y4J H14 H14 H 0 1 N N N N N N 7.832 27.433 28.080 -7.638 2.529 0.280 H14 Y4J 46 Y4J H15 H15 H 0 1 N N N N N N 9.524 27.417 27.478 -6.479 2.259 -1.049 H15 Y4J 47 Y4J H16 H16 H 0 1 N N N N N N 6.000 23.734 26.071 5.061 -3.935 -0.726 H16 Y4J 48 Y4J H17 H17 H 0 1 N N N N N N 4.670 22.744 26.762 4.824 -5.151 0.564 H17 Y4J 49 Y4J H18 H18 H 0 1 N N N N N N 6.151 21.289 27.838 5.311 -3.607 2.279 H18 Y4J 50 Y4J H19 H19 H 0 1 N N N N N N 7.341 22.619 27.634 6.228 -2.793 0.967 H19 Y4J 51 Y4J H20 H20 H 0 1 N N N N N N 8.407 21.579 25.869 4.096 -1.580 2.288 H20 Y4J 52 Y4J H21 H21 H 0 1 N N N N N N 6.902 19.224 27.091 5.623 -0.517 0.590 H21 Y4J 53 Y4J H22 H22 H 0 1 N N N N N N 8.263 19.065 25.929 4.692 -1.312 -0.702 H22 Y4J 54 Y4J H23 H23 H 0 1 N N N N N N 8.424 20.394 28.712 3.469 0.561 1.370 H23 Y4J 55 Y4J H44 H44 H 0 1 N N N N N N 8.145 17.958 28.791 3.371 2.182 -0.562 H44 Y4J 56 Y4J S1 S1 S 0 1 N Y N N N N 9.622 17.744 27.700 5.610 2.121 0.321 S1 Y4J 57 Y4J H26 H26 H 0 1 N N N N N N 12.184 21.619 26.445 -0.294 -1.043 -0.353 H26 Y4J 58 Y4J H27 H27 H 0 1 N N N N N N 14.327 23.570 27.866 -2.101 0.156 -2.339 H27 Y4J 59 Y4J H28 H28 H 0 1 N N N N N N 15.130 22.581 30.003 -0.280 -0.511 -4.697 H28 Y4J 60 Y4J H29 H29 H 0 1 N N N N N N 15.588 21.085 29.121 -2.056 -0.401 -4.755 H29 Y4J 61 Y4J H30 H30 H 0 1 N N N N N N 16.412 22.637 28.747 -1.084 1.052 -4.416 H30 Y4J 62 Y4J H31 H31 H 0 1 N N N N N N 15.869 22.329 26.417 -1.375 -2.059 -1.493 H31 Y4J 63 Y4J H32 H32 H 0 1 N N N N N N 14.966 20.812 26.748 -2.226 -2.217 -3.048 H32 Y4J 64 Y4J H33 H33 H 0 1 N N N N N N 14.168 22.159 25.866 -0.450 -2.328 -2.990 H33 Y4J 65 Y4J H34 H34 H 0 1 N N N N N N 10.215 29.520 25.698 -6.170 -0.507 -1.866 H34 Y4J 66 Y4J H35 H35 H 0 1 N N N N N N 9.581 29.322 23.417 -5.146 -1.932 -0.369 H35 Y4J 67 Y4J H36 H36 H 0 1 N N N N N N 7.275 28.611 22.896 -5.365 -1.365 2.049 H36 Y4J 68 Y4J H37 H37 H 0 1 N N N N N N 8.111 27.108 23.413 -6.792 -2.336 1.633 H37 Y4J 69 Y4J H38 H38 H 0 1 N N N N N N 4.862 22.092 24.344 2.526 -4.435 -0.101 H38 Y4J 70 Y4J H39 H39 H 0 1 N N N N N N 10.853 18.509 29.319 3.759 0.575 -2.286 H39 Y4J 71 Y4J O2 O6 O 0 1 N Y N N N N 9.799 16.737 28.106 5.941 3.378 -0.253 O2 Y4J 72 Y4J O3 O7 O 0 1 N Y N N N N 8.992 17.671 26.801 5.141 2.463 1.728 O3 Y4J 73 Y4J O1 O8 O 0 1 N Y N N N N 10.584 18.208 27.437 6.601 1.121 0.515 O1 Y4J 74 Y4J H24 H24 H 0 1 N Y N N N N 8.782 16.760 26.634 5.826 2.853 2.287 H24 Y4J 75 # 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 Y4J C30 C29 SING N N 1 Y4J C30 C24 SING N N 2 Y4J O01 C02 DOUB N N 3 Y4J C29 C28 DOUB N N 4 Y4J C24 C23 SING N N 5 Y4J C24 C25 SING N N 6 Y4J C02 N03 SING N N 7 Y4J C02 C06 SING N N 8 Y4J N03 C04 SING N N 9 Y4J C21 O20 SING N N 10 Y4J C21 C22 SING N N 11 Y4J C28 C26 SING N N 12 Y4J O31 C19 DOUB N N 13 Y4J C23 C22 SING N N 14 Y4J C25 C26 SING N N 15 Y4J O20 C19 SING N N 16 Y4J C06 C07 SING N N 17 Y4J C06 C05 SING N N 18 Y4J C19 N18 SING N N 19 Y4J C04 C05 SING N N 20 Y4J C22 C27 SING N N 21 Y4J C26 C27 SING N N 22 Y4J C17 C15 SING N N 23 Y4J C07 C08 SING N N 24 Y4J N18 C13 SING N N 25 Y4J C13 C12 SING N N 26 Y4J C13 C14 SING N N 27 Y4J N11 C12 SING N N 28 Y4J N11 C08 SING N N 29 Y4J C12 O32 DOUB N N 30 Y4J C08 C09 SING N N 31 Y4J C15 C14 SING N N 32 Y4J C15 C16 SING N N 33 Y4J C09 O10 SING N N 34 Y4J N11 H1 SING N N 35 Y4J C14 H2 SING N N 36 Y4J C14 H3 SING N N 37 Y4J N18 H4 SING N N 38 Y4J C21 H5 SING N N 39 Y4J C21 H6 SING N N 40 Y4J C22 H7 SING N N 41 Y4J C23 H8 SING N N 42 Y4J C23 H9 SING N N 43 Y4J C24 H10 SING N N 44 Y4J C25 H11 SING N N 45 Y4J C25 H12 SING N N 46 Y4J C26 H13 SING N N 47 Y4J C27 H14 SING N N 48 Y4J C27 H15 SING N N 49 Y4J C04 H16 SING N N 50 Y4J C04 H17 SING N N 51 Y4J C05 H18 SING N N 52 Y4J C05 H19 SING N N 53 Y4J C06 H20 SING N N 54 Y4J C07 H21 SING N N 55 Y4J C07 H22 SING N N 56 Y4J C08 H23 SING N N 57 Y4J C09 H44 SING N N 58 Y4J C09 S1 SING N N 59 Y4J C13 H26 SING N N 60 Y4J C15 H27 SING N N 61 Y4J C16 H28 SING N N 62 Y4J C16 H29 SING N N 63 Y4J C16 H30 SING N N 64 Y4J C17 H31 SING N N 65 Y4J C17 H32 SING N N 66 Y4J C17 H33 SING N N 67 Y4J C28 H34 SING N N 68 Y4J C29 H35 SING N N 69 Y4J C30 H36 SING N N 70 Y4J C30 H37 SING N N 71 Y4J N03 H38 SING N N 72 Y4J O10 H39 SING N N 73 Y4J S1 O2 DOUB N N 74 Y4J S1 O3 SING N N 75 Y4J S1 O1 DOUB N N 76 Y4J O3 H24 SING N N 77 # 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 Y4J SMILES ACDLabs 12.01 "N(C(=O)C(CC(C)C)NC(OCC1CC2CC(C1)CC=C2)=O)C(CC3C(NCC3)=O)C(O)S(=O)(O)=O" Y4J InChI InChI 1.03 "InChI=1S/C24H39N3O8S/c1-14(2)8-19(27-24(31)35-13-17-10-15-4-3-5-16(9-15)11-17)22(29)26-20(23(30)36(32,33)34)12-18-6-7-25-21(18)28/h3-4,14-20,23,30H,5-13H2,1-2H3,(H,25,28)(H,26,29)(H,27,31)(H,32,33,34)/t15-,16+,17-,18-,19-,20-,23+/m0/s1" Y4J InChIKey InChI 1.03 ZIWRGXZFSGDQST-ZDCSSWJMSA-N Y4J SMILES_CANONICAL CACTVS 3.385 "CC(C)C[C@H](NC(=O)OC[C@@H]1C[C@@H]2CC=C[C@H](C1)C2)C(=O)N[C@@H](C[C@@H]3CCNC3=O)[C@H](O)[S](O)(=O)=O" Y4J SMILES CACTVS 3.385 "CC(C)C[CH](NC(=O)OC[CH]1C[CH]2CC=C[CH](C1)C2)C(=O)N[CH](C[CH]3CCNC3=O)[CH](O)[S](O)(=O)=O" Y4J SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CC(C)C[C@@H](C(=O)N[C@@H](C[C@@H]1CCNC1=O)[C@H](O)S(=O)(=O)O)NC(=O)OC[C@@H]2C[C@@H]3CC=C[C@@H](C3)C2" Y4J SMILES "OpenEye OEToolkits" 2.0.7 "CC(C)CC(C(=O)NC(CC1CCNC1=O)C(O)S(=O)(=O)O)NC(=O)OCC2CC3CC=CC(C3)C2" # 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 Y4J "SYSTEMATIC NAME" ACDLabs 12.01 "(1R,2S)-2-{[N-({[(1R,3R,5S)-bicyclo[3.3.1]non-6-en-3-yl]methoxy}carbonyl)-L-leucyl]amino}-1-hydroxy-3-[(3S)-2-oxopyrrolidin-3-yl]propane-1-sulfonic acid" Y4J "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "(1~{R},2~{S})-2-[[(2~{S})-2-[[(1~{R},3~{R},5~{S})-3-bicyclo[3.3.1]non-6-enyl]methoxycarbonylamino]-4-methyl-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 Y4J "Create component" 2021-02-03 RCSB Y4J "Other modification" 2021-02-05 RCSB Y4J "Modify name" 2021-02-09 RCSB Y4J "Initial release" 2021-02-17 RCSB Y4J "Modify PCM" 2024-09-27 PDBE # _pdbx_chem_comp_pcm.pcm_id 1 _pdbx_chem_comp_pcm.comp_id Y4J _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 C09 _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 ? #