data_Y5S # _chem_comp.id Y5S _chem_comp.name "(1S,2S)-2-((S)-2-(((((1R,3s,5S)-bicyclo[3.3.1]nonan-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 H41 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 2021-02-04 _chem_comp.pdbx_modified_date 2021-02-12 _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 531.663 _chem_comp.one_letter_code ? _chem_comp.three_letter_code Y5S _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 7LKU _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.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 Y5S C17 C1 C 0 1 N N N 15.997 22.218 28.334 -1.165 3.482 3.367 C17 Y5S 1 Y5S C13 C2 C 0 1 N N S 12.272 22.250 26.895 0.079 0.714 1.003 C13 Y5S 2 Y5S C14 C3 C 0 1 N N N 13.459 22.068 27.907 0.092 2.046 1.755 C14 Y5S 3 Y5S C15 C4 C 0 1 N N N 14.840 22.510 27.344 -1.089 2.095 2.726 C15 Y5S 4 Y5S C21 C5 C 0 1 N N N 9.568 25.928 24.959 4.661 -0.734 0.636 C21 Y5S 5 Y5S C23 C6 C 0 1 N N N 7.017 26.495 25.084 6.964 -1.617 0.279 C23 Y5S 6 Y5S C24 C7 C 0 1 N N R 5.741 26.697 25.955 8.234 -1.494 -0.557 C24 Y5S 7 Y5S C26 C8 C 0 1 N N S 7.153 26.881 28.020 7.353 0.394 -1.897 C26 Y5S 8 Y5S C12 C9 C 0 1 N N N 10.983 21.588 27.469 -1.122 0.661 0.095 C12 Y5S 9 Y5S C16 C10 C 0 1 N N N 15.133 21.885 25.962 -0.898 1.039 3.816 C16 Y5S 10 Y5S C09 C11 C 0 1 N N S 9.407 18.563 28.000 -4.169 1.546 -0.498 C09 Y5S 11 Y5S C08 C12 C 0 1 N N S 9.141 19.921 27.346 -3.481 0.194 -0.299 C08 Y5S 12 Y5S C06 C13 C 0 1 N N S 7.702 21.114 25.557 -3.794 -2.158 0.483 C06 Y5S 13 Y5S C02 C14 C 0 1 N N N 6.708 20.991 24.416 -4.758 -3.160 1.080 C02 Y5S 14 Y5S C04 C15 C 0 1 N N N 5.792 22.712 25.710 -3.693 -4.261 -0.666 C04 Y5S 15 Y5S C07 C16 C 0 1 N N N 8.082 19.761 26.244 -4.472 -0.797 0.315 C07 Y5S 16 Y5S C05 C17 C 0 1 N N N 6.909 21.980 26.535 -3.432 -2.756 -0.897 C05 Y5S 17 Y5S C19 C18 C 0 1 N N N 11.085 24.129 25.698 2.411 0.054 0.746 C19 Y5S 18 Y5S C22 C19 C 0 1 N N S 8.234 25.909 25.853 5.797 -0.891 -0.385 C22 Y5S 19 Y5S C25 C20 C 0 1 N N N 5.949 26.183 27.383 7.873 -1.044 -1.972 C25 Y5S 20 Y5S C27 C21 C 0 1 N N N 8.452 26.678 27.185 6.182 0.480 -0.921 C27 Y5S 21 Y5S C28 C22 C 0 1 N N N 6.806 28.378 28.196 8.485 1.295 -1.387 C28 Y5S 22 Y5S C29 C23 C 0 1 N N N 6.197 29.072 26.943 8.837 0.887 0.044 C29 Y5S 23 Y5S C30 C24 C 0 1 N N N 5.315 28.184 26.017 9.259 -0.578 0.088 C30 Y5S 24 Y5S N03 N1 N 0 1 N N N 5.637 21.885 24.511 -4.684 -4.325 0.415 N03 Y5S 25 Y5S N11 N2 N 0 1 N N N 10.350 20.542 26.849 -2.335 0.357 0.599 N11 Y5S 26 Y5S N18 N3 N 0 1 N N N 12.052 23.677 26.604 1.301 0.593 0.203 N18 Y5S 27 Y5S O01 O1 O 0 1 N N N 6.799 20.191 23.489 -5.490 -2.942 2.022 O01 Y5S 28 Y5S O10 O2 O 0 1 N N N 8.187 18.025 28.468 -3.214 2.504 -0.958 O10 Y5S 29 Y5S O20 O3 O 0 1 N N N 10.803 25.492 25.588 3.502 -0.151 -0.016 O20 Y5S 30 Y5S O31 O4 O 0 1 N N N 10.463 23.334 25.004 2.427 -0.245 1.924 O31 Y5S 31 Y5S O32 O5 O 0 1 N N N 10.496 22.052 28.512 -0.998 0.892 -1.089 O32 Y5S 32 Y5S H1 H1 H 0 1 N N N 15.768 22.671 29.310 -1.301 4.235 2.590 H1 Y5S 33 Y5S H2 H2 H 0 1 N N N 16.112 21.131 28.453 -2.007 3.517 4.059 H2 Y5S 34 Y5S H3 H3 H 0 1 N N N 16.932 22.645 27.942 -0.241 3.683 3.909 H3 Y5S 35 Y5S H4 H4 H 0 1 N N N 12.538 21.728 25.964 0.031 -0.107 1.718 H4 Y5S 36 Y5S H5 H5 H 0 1 N N N 13.244 22.666 28.805 1.024 2.140 2.312 H5 Y5S 37 Y5S H6 H6 H 0 1 N N N 13.521 21.004 28.181 0.011 2.867 1.042 H6 Y5S 38 Y5S H7 H7 H 0 1 N N N 14.799 23.601 27.206 -2.013 1.895 2.184 H7 Y5S 39 Y5S H8 H8 H 0 1 N N N 9.720 26.962 24.616 4.398 -1.711 1.039 H8 Y5S 40 Y5S H9 H9 H 0 1 N N N 9.392 25.276 24.091 4.988 -0.082 1.446 H9 Y5S 41 Y5S H10 H10 H 0 1 N N N 7.309 27.472 24.671 6.710 -2.674 0.399 H10 Y5S 42 Y5S H11 H11 H 0 1 N N N 6.767 25.809 24.262 7.139 -1.189 1.270 H11 Y5S 43 Y5S H12 H12 H 0 1 N N N 4.921 26.124 25.497 8.680 -2.503 -0.635 H12 Y5S 44 Y5S H13 H13 H 0 1 N N N 7.318 26.447 29.017 7.041 0.725 -2.884 H13 Y5S 45 Y5S H14 H14 H 0 1 N N N 16.117 22.225 25.606 -0.007 1.275 4.398 H14 Y5S 46 Y5S H15 H15 H 0 1 N N N 15.134 20.788 26.048 -1.769 1.031 4.471 H15 Y5S 47 Y5S H16 H16 H 0 1 N N N 14.357 22.196 25.247 -0.781 0.058 3.355 H16 Y5S 48 Y5S H17 H17 H 0 1 N N N 10.051 18.754 28.871 -4.593 1.882 0.449 H17 Y5S 49 Y5S S1 S1 S 0 1 N Y N 9.834 17.899 27.278 -5.494 1.375 -1.726 S1 Y5S 50 Y5S H19 H19 H 0 1 N N N 8.710 20.575 28.118 -3.138 -0.184 -1.261 H19 Y5S 51 Y5S H20 H20 H 0 1 N N N 8.611 21.638 25.226 -2.903 -2.066 1.104 H20 Y5S 52 Y5S H21 H21 H 0 1 N N N 6.108 23.732 25.444 -4.093 -4.718 -1.571 H21 Y5S 53 Y5S H22 H22 H 0 1 N N N 4.851 22.756 26.279 -2.773 -4.762 -0.365 H22 Y5S 54 Y5S H23 H23 H 0 1 N N N 7.175 19.328 26.691 -4.797 -0.430 1.289 H23 Y5S 55 Y5S H24 H24 H 0 1 N N N 8.475 19.077 25.477 -5.336 -0.900 -0.341 H24 Y5S 56 Y5S H25 H25 H 0 1 N N N 6.451 21.349 27.311 -4.085 -2.362 -1.676 H25 Y5S 57 Y5S H26 H26 H 0 1 N N N 7.573 22.719 27.008 -2.385 -2.574 -1.138 H26 Y5S 58 Y5S H27 H27 H 0 1 N N N 8.013 24.859 26.096 5.424 -1.507 -1.213 H27 Y5S 59 Y5S H28 H28 H 0 1 N N N 5.049 26.392 27.980 8.760 -1.077 -2.603 H28 Y5S 60 Y5S H29 H29 H 0 1 N N N 6.128 25.098 27.357 7.104 -1.693 -2.385 H29 Y5S 61 Y5S H30 H30 H 0 1 N N N 9.171 26.113 27.796 6.429 1.150 -0.098 H30 Y5S 62 Y5S H31 H31 H 0 1 N N N 8.869 27.668 26.948 5.320 0.909 -1.450 H31 Y5S 63 Y5S H32 H32 H 0 1 N N N 7.730 28.912 28.465 9.358 1.176 -2.027 H32 Y5S 64 Y5S H33 H33 H 0 1 N N N 6.080 28.464 29.018 8.156 2.332 -1.403 H33 Y5S 65 Y5S H34 H34 H 0 1 N N N 7.030 29.461 26.339 9.667 1.509 0.394 H34 Y5S 66 Y5S H35 H35 H 0 1 N N N 5.576 29.909 27.294 7.986 1.049 0.702 H35 Y5S 67 Y5S H36 H36 H 0 1 N N N 5.362 28.597 24.999 9.408 -0.875 1.132 H36 Y5S 68 Y5S H37 H37 H 0 1 N N N 4.279 28.229 26.383 10.220 -0.686 -0.430 H37 Y5S 69 Y5S H38 H38 H 0 1 N N N 4.881 21.950 23.860 -5.218 -5.109 0.623 H38 Y5S 70 Y5S H39 H39 H 0 1 N N N 10.747 20.187 26.003 -2.448 0.247 1.556 H39 Y5S 71 Y5S H40 H40 H 0 1 N N N 12.619 24.353 27.075 1.311 0.900 -0.717 H40 Y5S 72 Y5S H41 H41 H 0 1 N N N 8.348 17.182 28.875 -2.476 2.646 -0.350 H41 Y5S 73 Y5S O1 O6 O 0 1 N Y N ? ? ? -6.182 2.607 -1.891 O1 Y5S 74 Y5S O2 O7 O 0 1 N Y N ? ? ? -5.039 0.633 -2.849 O2 Y5S 75 Y5S O3 O8 O 0 1 N Y N ? ? ? -6.513 0.462 -1.060 O3 Y5S 76 Y5S H18 H18 H 0 1 N Y N ? ? ? -7.290 0.277 -1.605 H18 Y5S 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 Y5S O01 C02 DOUB N N 1 Y5S C02 N03 SING N N 2 Y5S C02 C06 SING N N 3 Y5S N03 C04 SING N N 4 Y5S C21 O20 SING N N 5 Y5S C21 C22 SING N N 6 Y5S O31 C19 DOUB N N 7 Y5S C23 C22 SING N N 8 Y5S C23 C24 SING N N 9 Y5S C06 C07 SING N N 10 Y5S C06 C05 SING N N 11 Y5S O20 C19 SING N N 12 Y5S C19 N18 SING N N 13 Y5S C04 C05 SING N N 14 Y5S C22 C27 SING N N 15 Y5S C24 C30 SING N N 16 Y5S C24 C25 SING N N 17 Y5S C16 C15 SING N N 18 Y5S C30 C29 SING N N 19 Y5S C07 C08 SING N N 20 Y5S N18 C13 SING N N 21 Y5S N11 C08 SING N N 22 Y5S N11 C12 SING N N 23 Y5S C13 C12 SING N N 24 Y5S C13 C14 SING N N 25 Y5S C29 C28 SING N N 26 Y5S C27 C26 SING N N 27 Y5S C15 C14 SING N N 28 Y5S C15 C17 SING N N 29 Y5S C08 C09 SING N N 30 Y5S C25 C26 SING N N 31 Y5S C12 O32 DOUB N N 32 Y5S C09 O10 SING N N 33 Y5S C26 C28 SING N N 34 Y5S C17 H1 SING N N 35 Y5S C17 H2 SING N N 36 Y5S C17 H3 SING N N 37 Y5S C13 H4 SING N N 38 Y5S C14 H5 SING N N 39 Y5S C14 H6 SING N N 40 Y5S C15 H7 SING N N 41 Y5S C21 H8 SING N N 42 Y5S C21 H9 SING N N 43 Y5S C23 H10 SING N N 44 Y5S C23 H11 SING N N 45 Y5S C24 H12 SING N N 46 Y5S C26 H13 SING N N 47 Y5S C16 H14 SING N N 48 Y5S C16 H15 SING N N 49 Y5S C16 H16 SING N N 50 Y5S C09 H17 SING N N 51 Y5S C09 S1 SING N N 52 Y5S C08 H19 SING N N 53 Y5S C06 H20 SING N N 54 Y5S C04 H21 SING N N 55 Y5S C04 H22 SING N N 56 Y5S C07 H23 SING N N 57 Y5S C07 H24 SING N N 58 Y5S C05 H25 SING N N 59 Y5S C05 H26 SING N N 60 Y5S C22 H27 SING N N 61 Y5S C25 H28 SING N N 62 Y5S C25 H29 SING N N 63 Y5S C27 H30 SING N N 64 Y5S C27 H31 SING N N 65 Y5S C28 H32 SING N N 66 Y5S C28 H33 SING N N 67 Y5S C29 H34 SING N N 68 Y5S C29 H35 SING N N 69 Y5S C30 H36 SING N N 70 Y5S C30 H37 SING N N 71 Y5S N03 H38 SING N N 72 Y5S N11 H39 SING N N 73 Y5S N18 H40 SING N N 74 Y5S O10 H41 SING N N 75 Y5S S1 O1 DOUB N N 76 Y5S S1 O2 DOUB N N 77 Y5S S1 O3 SING N N 78 Y5S O3 H18 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 Y5S SMILES ACDLabs 12.01 "CC(CC(C(=O)NC(C(O)S(=O)(=O)O)CC1CCNC1=O)NC(OCC3CC2CCCC(C2)C3)=O)C" Y5S InChI InChI 1.03 "InChI=1S/C24H41N3O8S/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/h14-20,23,30H,3-13H2,1-2H3,(H,25,28)(H,26,29)(H,27,31)(H,32,33,34)/t15-,16+,17-,18-,19-,20-,23-/m0/s1" Y5S InChIKey InChI 1.03 PGYROSRJIVXTOE-LZHMTVEHSA-N Y5S SMILES_CANONICAL CACTVS 3.385 "CC(C)C[C@H](NC(=O)OC[C@H]1C[C@H]2CCC[C@H](C2)C1)C(=O)N[C@@H](C[C@@H]3CCNC3=O)[C@@H](O)[S](O)(=O)=O" Y5S SMILES CACTVS 3.385 "CC(C)C[CH](NC(=O)OC[CH]1C[CH]2CCC[CH](C2)C1)C(=O)N[CH](C[CH]3CCNC3=O)[CH](O)[S](O)(=O)=O" Y5S 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)OCC2C[C@@H]3CCC[C@@H](C3)C2" Y5S SMILES "OpenEye OEToolkits" 2.0.7 "CC(C)CC(C(=O)NC(CC1CCNC1=O)C(O)S(=O)(=O)O)NC(=O)OCC2CC3CCCC(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 Y5S "SYSTEMATIC NAME" ACDLabs 12.01 "(1S,2S)-2-{[N-({[(3-endo)-bicyclo[3.3.1]nonan-3-yl]methoxy}carbonyl)-L-leucyl]amino}-1-hydroxy-3-[(3S)-2-oxopyrrolidin-3-yl]propane-1-sulfonic acid" Y5S "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "(1~{S},2~{S})-2-[[(2~{S})-2-[[(1~{S},5~{R})-3-bicyclo[3.3.1]nonanyl]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 Y5S "Create component" 2021-02-04 RCSB Y5S "Other modification" 2021-02-04 RCSB Y5S "Modify name" 2021-02-09 RCSB Y5S "Initial release" 2021-02-17 RCSB ##