data_YVM # _chem_comp.id YVM _chem_comp.name "4-fluoro-N-{3-[(prop-2-yn-1-yl)oxy]propanoyl}-D-phenylalanyl-N-{(2R)-5-ethoxy-5-oxo-1-[(3S)-2-oxopyrrolidin-3-yl]pentan-2-yl}-L-phenylalaninamide" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C35 H43 F N4 O7" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2021-04-01 _chem_comp.pdbx_modified_date 2022-10-07 _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 650.737 _chem_comp.one_letter_code ? _chem_comp.three_letter_code YVM _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 7MB2 _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 YVM C10 C1 C 0 1 N N N 21.298 -10.112 30.074 -5.518 3.881 -0.069 C10 YVM 1 YVM C13 C2 C 0 1 N N N 22.658 -15.061 29.277 -6.091 0.244 -0.665 C13 YVM 2 YVM C15 C3 C 0 1 N N N 24.171 -16.909 30.128 -7.363 -1.551 0.479 C15 YVM 3 YVM C20 C4 C 0 1 N N N 25.654 -18.489 31.197 -8.836 -3.214 1.340 C20 YVM 4 YVM C21 C5 C 0 1 N N N 27.115 -18.338 31.720 -8.891 -4.254 2.462 C21 YVM 5 YVM C22 C6 C 0 1 N N N 23.352 -9.501 31.031 -5.063 5.348 -1.811 C22 YVM 6 YVM C24 C7 C 0 1 Y N N 26.165 -12.850 21.282 1.348 -4.797 -0.934 C24 YVM 7 YVM C26 C8 C 0 1 Y N N 27.423 -12.736 23.571 0.483 -3.071 0.481 C26 YVM 8 YVM C28 C9 C 0 1 Y N N 25.045 -13.764 23.441 -0.717 -3.719 -1.486 C28 YVM 9 YVM C01 C10 C 0 1 N N N 25.569 -9.956 26.474 1.119 -0.453 -0.561 C01 YVM 10 YVM C04 C11 C 0 1 N N S 25.368 -12.490 26.206 -1.311 -0.575 -0.703 C04 YVM 11 YVM C05 C12 C 0 1 N N N 26.248 -13.622 25.751 -1.671 -1.908 -0.044 C05 YVM 12 YVM C07 C13 C 0 1 N N R 23.032 -13.520 29.204 -4.781 1.036 -0.665 C07 YVM 13 YVM C08 C14 C 0 1 N N N 21.859 -12.625 29.551 -4.849 2.134 -1.728 C08 YVM 14 YVM C09 C15 C 0 1 N N S 22.448 -11.266 29.897 -5.917 3.158 -1.337 C09 YVM 15 YVM C14 C16 C 0 1 N N N 23.967 -15.845 29.044 -6.073 -0.771 0.479 C14 YVM 16 YVM C18 C17 C 0 1 N N N 24.906 -12.726 27.645 -2.433 0.408 -0.493 C18 YVM 17 YVM C23 C18 C 0 1 N N N 23.377 -11.093 30.827 -6.009 4.277 -2.399 C23 YVM 18 YVM C25 C19 C 0 1 Y N N 27.365 -12.462 22.079 1.460 -4.005 0.193 C25 YVM 19 YVM C27 C20 C 0 1 Y N N 26.239 -13.373 24.253 -0.606 -2.927 -0.358 C27 YVM 20 YVM C29 C21 C 0 1 Y N N 24.977 -13.504 21.951 0.259 -4.654 -1.774 C29 YVM 21 YVM C30 C22 C 0 1 N N R 26.445 -8.708 26.624 2.382 0.088 0.057 C30 YVM 22 YVM C32 C23 C 0 1 N N N 27.325 -8.568 25.415 2.416 -0.271 1.544 C32 YVM 23 YVM C33 C24 C 0 1 Y N N 24.853 -7.389 21.693 5.820 1.555 3.371 C33 YVM 24 YVM C34 C25 C 0 1 Y N N 25.234 -6.341 22.725 4.613 2.231 3.324 C34 YVM 25 YVM C35 C26 C 0 1 Y N N 26.062 -6.737 23.959 3.512 1.640 2.733 C35 YVM 26 YVM C36 C27 C 0 1 Y N N 26.479 -8.158 24.171 3.617 0.373 2.188 C36 YVM 27 YVM C37 C28 C 0 1 Y N N 26.079 -9.242 23.154 4.821 -0.303 2.235 C37 YVM 28 YVM C38 C29 C 0 1 Y N N 25.277 -8.860 21.896 5.923 0.286 2.826 C38 YVM 29 YVM C40 C30 C 0 1 N N N 26.188 -6.498 27.739 4.723 0.152 -0.616 C40 YVM 30 YVM C41 C31 C 0 1 N N N 25.373 -5.208 28.009 5.919 -0.453 -1.306 C41 YVM 31 YVM C43 C32 C 0 1 N N N 24.480 -5.460 29.210 7.120 0.484 -1.160 C43 YVM 32 YVM C45 C33 C 0 1 N N N 24.614 -5.852 31.554 9.435 0.710 -1.738 C45 YVM 33 YVM C46 C34 C 0 1 N N N 25.535 -6.914 32.249 10.535 0.029 -2.440 C46 YVM 34 YVM C47 C35 C 0 1 N N N 26.228 -7.763 32.782 11.412 -0.515 -3.000 C47 YVM 35 YVM F39 F1 F 0 1 N N N 24.145 -7.038 20.622 6.897 2.134 3.944 F39 YVM 36 YVM N02 N1 N 0 1 N N N 26.195 -11.256 26.232 -0.082 -0.049 -0.102 N02 YVM 37 YVM N06 N2 N 0 1 N N N 23.538 -13.238 27.838 -3.666 0.135 -0.964 N06 YVM 38 YVM N11 N3 N 0 1 N N N 21.847 -9.022 30.718 -5.049 5.105 -0.364 N11 YVM 39 YVM N31 N4 N 0 1 N N N 25.650 -7.543 26.874 3.545 -0.501 -0.614 N31 YVM 40 YVM O03 O1 O 0 1 N N N 24.375 -9.946 26.607 1.183 -1.251 -1.472 O03 YVM 41 YVM O12 O2 O 0 1 N N N 20.213 -10.171 29.592 -5.613 3.424 1.050 O12 YVM 42 YVM O16 O3 O 0 1 N N N 25.441 -17.544 30.155 -7.571 -2.504 1.401 O16 YVM 43 YVM O17 O4 O 0 1 N N N 23.208 -17.220 30.853 -8.209 -1.318 -0.351 O17 YVM 44 YVM O19 O5 O 0 1 N N N 25.660 -12.536 28.598 -2.227 1.446 0.101 O19 YVM 45 YVM O42 O6 O 0 1 N N N 27.282 -6.619 28.198 4.822 1.227 -0.062 O42 YVM 46 YVM O44 O7 O 0 1 N N N 25.284 -5.359 30.374 8.253 -0.090 -1.814 O44 YVM 47 YVM H131 H1 H 0 0 N N N 21.923 -15.310 28.498 -6.929 0.928 -0.531 H131 YVM 48 YVM H1 H2 H 0 1 N N N 22.241 -15.304 30.266 -6.198 -0.280 -1.615 H1 YVM 49 YVM H201 H3 H 0 0 N N N 24.946 -18.301 32.018 -8.926 -3.715 0.376 H201 YVM 50 YVM H202 H4 H 0 0 N N N 25.503 -19.507 30.809 -9.656 -2.507 1.460 H202 YVM 51 YVM H211 H5 H 0 0 N N N 27.293 -19.064 32.527 -8.071 -4.961 2.342 H211 YVM 52 YVM H212 H6 H 0 0 N N N 27.820 -18.525 30.897 -8.801 -3.753 3.426 H212 YVM 53 YVM H213 H7 H 0 0 N N N 27.263 -17.318 32.105 -9.841 -4.787 2.416 H213 YVM 54 YVM H221 H8 H 0 0 N N N 24.056 -9.018 30.337 -4.060 5.232 -2.223 H221 YVM 55 YVM H222 H9 H 0 0 N N N 23.624 -9.246 32.066 -5.444 6.346 -2.024 H222 YVM 56 YVM H241 H10 H 0 0 N N N 26.145 -12.662 20.219 2.113 -5.525 -1.161 H241 YVM 57 YVM H261 H11 H 0 0 N N N 28.304 -12.477 24.139 0.570 -2.452 1.363 H261 YVM 58 YVM H281 H12 H 0 0 N N N 24.210 -14.244 23.930 -1.568 -3.606 -2.143 H281 YVM 59 YVM H041 H13 H 0 0 N N N 24.502 -12.373 25.537 -1.156 -0.727 -1.771 H041 YVM 60 YVM H052 H14 H 0 0 N N N 25.818 -14.602 26.005 -1.738 -1.774 1.035 H052 YVM 61 YVM H051 H15 H 0 0 N N N 27.262 -13.546 26.172 -2.630 -2.256 -0.428 H051 YVM 62 YVM H071 H16 H 0 0 N N N 23.839 -13.337 29.929 -4.630 1.488 0.315 H071 YVM 63 YVM H082 H17 H 0 0 N N N 21.179 -12.538 28.691 -3.881 2.629 -1.801 H082 YVM 64 YVM H081 H18 H 0 0 N N N 21.310 -13.033 30.413 -5.104 1.692 -2.691 H081 YVM 65 YVM H091 H19 H 0 0 N N N 22.932 -10.962 28.957 -6.883 2.670 -1.210 H091 YVM 66 YVM H141 H20 H 0 0 N N N 23.921 -16.337 28.061 -5.235 -1.455 0.345 H141 YVM 67 YVM H142 H21 H 0 0 N N N 24.814 -15.144 29.064 -5.965 -0.247 1.429 H142 YVM 68 YVM H232 H22 H 0 0 N N N 23.115 -11.619 31.757 -7.027 4.657 -2.478 H232 YVM 69 YVM H231 H23 H 0 0 N N N 24.362 -11.436 30.477 -5.648 3.927 -3.367 H231 YVM 70 YVM H251 H24 H 0 0 N N N 28.200 -11.982 21.590 2.310 -4.118 0.850 H251 YVM 71 YVM H291 H25 H 0 0 N N N 24.102 -13.779 21.380 0.172 -5.272 -2.655 H291 YVM 72 YVM H301 H26 H 0 0 N N N 27.100 -8.874 27.492 2.408 1.171 -0.056 H301 YVM 73 YVM H322 H27 H 0 0 N N N 27.821 -9.529 25.215 1.508 0.091 2.026 H322 YVM 74 YVM H321 H28 H 0 0 N N N 28.085 -7.796 25.607 2.481 -1.353 1.656 H321 YVM 75 YVM H341 H29 H 0 0 N N N 24.923 -5.315 22.592 4.531 3.221 3.749 H341 YVM 76 YVM H351 H30 H 0 0 N N N 26.345 -5.983 24.679 2.570 2.167 2.696 H351 YVM 77 YVM H371 H31 H 0 0 N N N 26.361 -10.271 23.323 4.902 -1.293 1.811 H371 YVM 78 YVM H381 H32 H 0 0 N N N 25.015 -9.611 21.165 6.864 -0.242 2.862 H381 YVM 79 YVM H411 H33 H 0 0 N N N 26.056 -4.372 28.221 6.152 -1.416 -0.851 H411 YVM 80 YVM H412 H34 H 0 0 N N N 24.757 -4.965 27.131 5.695 -0.595 -2.363 H412 YVM 81 YVM H431 H35 H 0 0 N N N 23.676 -4.710 29.243 6.887 1.447 -1.615 H431 YVM 82 YVM H432 H36 H 0 0 N N N 24.040 -6.466 29.145 7.344 0.626 -0.103 H432 YVM 83 YVM H451 H37 H 0 0 N N N 24.422 -5.019 32.246 9.707 0.857 -0.692 H451 YVM 84 YVM H452 H38 H 0 0 N N N 23.660 -6.319 31.270 9.250 1.678 -2.204 H452 YVM 85 YVM H471 H39 H 0 0 N N N 26.831 -8.501 33.246 12.197 -1.000 -3.501 H471 YVM 86 YVM H021 H40 H 0 0 N N N 27.182 -11.314 26.084 -0.133 0.589 0.627 H021 YVM 87 YVM H061 H41 H 0 0 N N N 22.949 -13.396 27.046 -3.814 -0.659 -1.501 H061 YVM 88 YVM H111 H42 H 0 0 N N N 21.415 -8.147 30.937 -4.740 5.747 0.296 H111 YVM 89 YVM H311 H43 H 0 0 N N N 24.743 -7.448 26.463 3.466 -1.360 -1.056 H311 YVM 90 # 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 YVM F39 C33 SING N N 1 YVM C24 C29 DOUB Y N 2 YVM C24 C25 SING Y N 3 YVM C33 C38 DOUB Y N 4 YVM C33 C34 SING Y N 5 YVM C38 C37 SING Y N 6 YVM C29 C28 SING Y N 7 YVM C25 C26 DOUB Y N 8 YVM C34 C35 DOUB Y N 9 YVM C37 C36 DOUB Y N 10 YVM C28 C27 DOUB Y N 11 YVM C26 C27 SING Y N 12 YVM C35 C36 SING Y N 13 YVM C36 C32 SING N N 14 YVM C27 C05 SING N N 15 YVM C32 C30 SING N N 16 YVM C05 C04 SING N N 17 YVM C04 N02 SING N N 18 YVM C04 C18 SING N N 19 YVM N02 C01 SING N N 20 YVM C01 O03 DOUB N N 21 YVM C01 C30 SING N N 22 YVM C30 N31 SING N N 23 YVM N31 C40 SING N N 24 YVM C18 N06 SING N N 25 YVM C18 O19 DOUB N N 26 YVM C40 C41 SING N N 27 YVM C40 O42 DOUB N N 28 YVM N06 C07 SING N N 29 YVM C41 C43 SING N N 30 YVM C14 C13 SING N N 31 YVM C14 C15 SING N N 32 YVM C07 C13 SING N N 33 YVM C07 C08 SING N N 34 YVM C43 O44 SING N N 35 YVM C08 C09 SING N N 36 YVM O12 C10 DOUB N N 37 YVM C09 C10 SING N N 38 YVM C09 C23 SING N N 39 YVM C10 N11 SING N N 40 YVM C15 O16 SING N N 41 YVM C15 O17 DOUB N N 42 YVM O16 C20 SING N N 43 YVM O44 C45 SING N N 44 YVM N11 C22 SING N N 45 YVM C23 C22 SING N N 46 YVM C20 C21 SING N N 47 YVM C45 C46 SING N N 48 YVM C46 C47 TRIP N N 49 YVM C13 H131 SING N N 50 YVM C13 H1 SING N N 51 YVM C20 H201 SING N N 52 YVM C20 H202 SING N N 53 YVM C21 H211 SING N N 54 YVM C21 H212 SING N N 55 YVM C21 H213 SING N N 56 YVM C22 H221 SING N N 57 YVM C22 H222 SING N N 58 YVM C24 H241 SING N N 59 YVM C26 H261 SING N N 60 YVM C28 H281 SING N N 61 YVM C04 H041 SING N N 62 YVM C05 H052 SING N N 63 YVM C05 H051 SING N N 64 YVM C07 H071 SING N N 65 YVM C08 H082 SING N N 66 YVM C08 H081 SING N N 67 YVM C09 H091 SING N N 68 YVM C14 H141 SING N N 69 YVM C14 H142 SING N N 70 YVM C23 H232 SING N N 71 YVM C23 H231 SING N N 72 YVM C25 H251 SING N N 73 YVM C29 H291 SING N N 74 YVM C30 H301 SING N N 75 YVM C32 H322 SING N N 76 YVM C32 H321 SING N N 77 YVM C34 H341 SING N N 78 YVM C35 H351 SING N N 79 YVM C37 H371 SING N N 80 YVM C38 H381 SING N N 81 YVM C41 H411 SING N N 82 YVM C41 H412 SING N N 83 YVM C43 H431 SING N N 84 YVM C43 H432 SING N N 85 YVM C45 H451 SING N N 86 YVM C45 H452 SING N N 87 YVM C47 H471 SING N N 88 YVM N02 H021 SING N N 89 YVM N06 H061 SING N N 90 YVM N11 H111 SING N N 91 YVM N31 H311 SING N N 92 # 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 YVM SMILES ACDLabs 12.01 "Fc1ccc(cc1)CC(NC(=O)CCOCC#C)C(=O)NC(Cc1ccccc1)C(=O)NC(CC1CCNC1=O)CCC(=O)OCC" YVM InChI InChI 1.03 "InChI=1S/C35H43FN4O7/c1-3-19-46-20-17-31(41)39-29(22-25-10-12-27(36)13-11-25)35(45)40-30(21-24-8-6-5-7-9-24)34(44)38-28(14-15-32(42)47-4-2)23-26-16-18-37-33(26)43/h1,5-13,26,28-30H,4,14-23H2,2H3,(H,37,43)(H,38,44)(H,39,41)(H,40,45)/t26-,28+,29+,30-/m0/s1" YVM InChIKey InChI 1.03 AMUUPQIKCDYOIG-XQVPNCLKSA-N YVM SMILES_CANONICAL CACTVS 3.385 "CCOC(=O)CC[C@H](C[C@@H]1CCNC1=O)NC(=O)[C@H](Cc2ccccc2)NC(=O)[C@@H](Cc3ccc(F)cc3)NC(=O)CCOCC#C" YVM SMILES CACTVS 3.385 "CCOC(=O)CC[CH](C[CH]1CCNC1=O)NC(=O)[CH](Cc2ccccc2)NC(=O)[CH](Cc3ccc(F)cc3)NC(=O)CCOCC#C" YVM SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CCOC(=O)CC[C@H](C[C@@H]1CCNC1=O)NC(=O)[C@H](Cc2ccccc2)NC(=O)[C@@H](Cc3ccc(cc3)F)NC(=O)CCOCC#C" YVM SMILES "OpenEye OEToolkits" 2.0.7 "CCOC(=O)CCC(CC1CCNC1=O)NC(=O)C(Cc2ccccc2)NC(=O)C(Cc3ccc(cc3)F)NC(=O)CCOCC#C" # 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 YVM "SYSTEMATIC NAME" ACDLabs 12.01 "4-fluoro-N-{3-[(prop-2-yn-1-yl)oxy]propanoyl}-D-phenylalanyl-N-{(2R)-5-ethoxy-5-oxo-1-[(3S)-2-oxopyrrolidin-3-yl]pentan-2-yl}-L-phenylalaninamide" YVM "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "ethyl (4~{R})-4-[[(2~{S})-2-[[(2~{R})-3-(4-fluorophenyl)-2-(3-prop-2-ynoxypropanoylamino)propanoyl]amino]-3-phenyl-propanoyl]amino]-5-[(3~{S})-2-oxidanylidenepyrrolidin-3-yl]pentanoate" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site YVM "Create component" 2021-04-01 RCSB YVM "Initial release" 2022-10-12 RCSB #