data_YVD # _chem_comp.id YVD _chem_comp.name "4-fluoro-D-phenylalanyl-N-{(2R)-5-ethoxy-5-oxo-1-[(3S)-2-oxopyrrolidin-3-yl]pentan-2-yl}-4-fluoro-L-phenylalaninamide" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C29 H36 F2 N4 O5" _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 558.617 _chem_comp.one_letter_code ? _chem_comp.three_letter_code YVD _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 7MAZ _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 YVD C10 C1 C 0 1 N N N -8.154 -10.564 17.701 4.401 3.780 -0.155 C10 YVD 1 YVD C13 C2 C 0 1 N N N -10.019 -15.015 19.477 4.780 0.093 0.271 C13 YVD 2 YVD C15 C3 C 0 1 N N N -11.315 -17.264 18.921 5.826 -1.736 -1.037 C15 YVD 3 YVD C20 C4 C 0 1 N N N -13.177 -18.494 18.168 7.106 -3.455 -2.079 C20 YVD 4 YVD C21 C5 C 0 1 N N N -14.496 -17.716 18.387 6.991 -4.459 -3.228 C21 YVD 5 YVD C22 C6 C 0 1 N N N -9.926 -10.146 16.186 5.423 5.298 1.275 C22 YVD 6 YVD C24 C7 C 0 1 Y N N -13.270 -12.001 26.895 -3.015 -4.373 1.072 C24 YVD 7 YVD C26 C8 C 0 1 Y N N -14.396 -12.316 24.576 -2.221 -2.556 -0.273 C26 YVD 8 YVD C28 C9 C 0 1 Y N N -11.897 -13.113 25.022 -0.796 -3.529 1.388 C28 YVD 9 YVD C01 C10 C 0 1 N N N -12.600 -9.718 21.519 -2.430 -0.046 1.143 C01 YVD 10 YVD C04 C11 C 0 1 N N S -12.317 -12.174 22.074 -0.032 -0.372 0.860 C04 YVD 11 YVD C05 C12 C 0 1 N N N -12.992 -13.404 22.671 0.090 -1.637 0.009 C05 YVD 12 YVD C07 C13 C 0 1 N N R -10.175 -13.526 19.218 3.528 0.960 0.418 C07 YVD 13 YVD C08 C14 C 0 1 N N N -8.888 -12.727 18.779 3.763 2.017 1.498 C08 YVD 14 YVD C09 C15 C 0 1 N N S -9.285 -11.262 18.298 4.862 2.978 1.041 C09 YVD 15 YVD C14 C16 C 0 1 N N N -11.404 -15.807 19.514 4.592 -0.882 -0.892 C14 YVD 16 YVD C18 C17 C 0 1 N N N -11.937 -12.575 20.673 1.133 0.540 0.573 C18 YVD 17 YVD C23 C18 C 0 1 N N N -10.286 -11.271 17.173 5.137 4.042 2.129 C23 YVD 18 YVD C25 C19 C 0 1 Y N N -14.469 -11.837 25.998 -3.227 -3.440 0.070 C25 YVD 19 YVD C27 C20 C 0 1 Y N N -13.107 -12.961 24.114 -1.006 -2.602 0.384 C27 YVD 20 YVD C29 C21 C 0 1 Y N N -11.971 -12.628 26.449 -1.799 -4.414 1.732 C29 YVD 21 YVD C31 C22 C 0 1 N N R -13.428 -8.451 21.307 -3.717 0.662 0.808 C31 YVD 22 YVD C33 C23 C 0 1 N N N -14.217 -8.032 22.560 -4.280 0.107 -0.502 C33 YVD 23 YVD C34 C24 C 0 1 Y N N -11.637 -6.874 26.147 -7.738 2.347 -1.631 C34 YVD 24 YVD C35 C25 C 0 1 Y N N -11.966 -5.814 25.100 -6.484 2.741 -2.067 C35 YVD 25 YVD C36 C26 C 0 1 Y N N -12.823 -6.191 23.899 -5.366 2.016 -1.701 C36 YVD 26 YVD C37 C27 C 0 1 Y N N -13.331 -7.618 23.756 -5.500 0.897 -0.900 C37 YVD 27 YVD C38 C28 C 0 1 Y N N -13.000 -8.673 24.816 -6.751 0.503 -0.464 C38 YVD 28 YVD C39 C29 C 0 1 Y N N -12.152 -8.297 26.014 -7.870 1.230 -0.825 C39 YVD 29 YVD F30 F1 F 0 1 N N N -13.390 -11.545 28.131 -3.997 -5.238 1.407 F30 YVD 30 YVD F40 F2 F 0 1 N N N -10.882 -6.526 27.189 -8.831 3.056 -1.989 F40 YVD 31 YVD N02 N1 N 0 1 N N N -13.167 -11.007 21.928 -1.283 0.317 0.535 N02 YVD 32 YVD N06 N2 N 0 1 N N N -10.591 -13.090 20.512 2.392 0.116 0.798 N06 YVD 33 YVD N11 N3 N 0 1 N N N -8.538 -9.886 16.439 4.727 5.075 0.003 N11 YVD 34 YVD N32 N4 N 0 1 N N N -12.498 -7.449 20.876 -4.689 0.448 1.889 N32 YVD 35 YVD O03 O1 O 0 1 N N N -11.463 -9.667 21.315 -2.426 -0.944 1.959 O03 YVD 36 YVD O12 O2 O 0 1 N N N -7.087 -10.485 18.121 3.825 3.322 -1.119 O12 YVD 37 YVD O16 O3 O 0 1 N N N -12.313 -18.201 19.230 5.887 -2.669 -1.999 O16 YVD 38 YVD O17 O4 O 0 1 N N N -10.442 -17.627 18.220 6.759 -1.580 -0.285 O17 YVD 39 YVD O19 O5 O 0 1 N N N -12.696 -12.454 19.796 0.937 1.656 0.140 O19 YVD 40 YVD H1 H1 H 0 1 N N N -9.395 -15.443 18.679 5.642 0.730 0.076 H1 YVD 41 YVD H131 H2 H 0 0 N N N -9.516 -15.148 20.446 4.944 -0.467 1.192 H131 YVD 42 YVD H202 H3 H 0 0 N N N -13.382 -19.574 18.142 7.255 -3.991 -1.142 H202 YVD 43 YVD H201 H4 H 0 0 N N N -12.717 -18.186 17.218 7.953 -2.793 -2.258 H201 YVD 44 YVD H212 H5 H 0 0 N N N -15.191 -17.932 17.562 7.906 -5.048 -3.288 H212 YVD 45 YVD H211 H6 H 0 0 N N N -14.950 -18.026 19.340 6.144 -5.120 -3.049 H211 YVD 46 YVD H213 H7 H 0 0 N N N -14.285 -16.637 18.415 6.842 -3.923 -4.165 H213 YVD 47 YVD H222 H8 H 0 0 N N N -10.532 -9.249 16.379 5.035 6.190 1.766 H222 YVD 48 YVD H221 H9 H 0 0 N N N -10.078 -10.475 15.147 6.495 5.396 1.106 H221 YVD 49 YVD H261 H10 H 0 0 N N N -15.235 -12.204 23.906 -2.386 -1.828 -1.054 H261 YVD 50 YVD H281 H11 H 0 0 N N N -10.990 -13.565 24.648 0.153 -3.562 1.903 H281 YVD 51 YVD H041 H12 H 0 0 N N N -11.414 -11.929 22.652 -0.030 -0.643 1.916 H041 YVD 52 YVD H051 H13 H 0 0 N N N -13.978 -13.589 22.220 -0.002 -1.376 -1.046 H051 YVD 53 YVD H052 H14 H 0 0 N N N -12.368 -14.304 22.568 1.059 -2.102 0.185 H052 YVD 54 YVD H071 H15 H 0 0 N N N -10.968 -13.361 18.473 3.313 1.451 -0.531 H071 YVD 55 YVD H081 H16 H 0 0 N N N -8.395 -13.259 17.952 2.841 2.574 1.668 H081 YVD 56 YVD H082 H17 H 0 0 N N N -8.197 -12.654 19.632 4.069 1.529 2.424 H082 YVD 57 YVD H091 H18 H 0 0 N N N -9.684 -10.700 19.155 5.773 2.428 0.804 H091 YVD 58 YVD H141 H19 H 0 0 N N N -12.145 -15.239 18.931 3.730 -1.520 -0.697 H141 YVD 59 YVD H142 H20 H 0 0 N N N -11.736 -15.877 20.560 4.429 -0.322 -1.813 H142 YVD 60 YVD H232 H21 H 0 0 N N N -11.296 -11.102 17.574 6.005 3.774 2.731 H232 YVD 61 YVD H231 H22 H 0 0 N N N -10.254 -12.242 16.656 4.259 4.189 2.757 H231 YVD 62 YVD H251 H23 H 0 0 N N N -15.372 -11.379 26.374 -4.176 -3.404 -0.443 H251 YVD 63 YVD H291 H24 H 0 0 N N N -11.132 -12.725 27.122 -1.635 -5.138 2.517 H291 YVD 64 YVD H311 H25 H 0 0 N N N -14.151 -8.647 20.501 -3.526 1.730 0.698 H311 YVD 65 YVD H331 H26 H 0 0 N N N -14.859 -7.179 22.294 -3.525 0.185 -1.284 H331 YVD 66 YVD H332 H27 H 0 0 N N N -14.844 -8.880 22.872 -4.554 -0.939 -0.364 H332 YVD 67 YVD H351 H28 H 0 0 N N N -11.595 -4.806 25.210 -6.380 3.615 -2.693 H351 YVD 68 YVD H361 H29 H 0 0 N N N -13.069 -5.450 23.153 -4.388 2.323 -2.041 H361 YVD 69 YVD H381 H30 H 0 0 N N N -13.370 -9.682 24.710 -6.854 -0.372 0.161 H381 YVD 70 YVD H391 H31 H 0 0 N N N -11.916 -9.034 26.767 -8.847 0.922 -0.484 H391 YVD 71 YVD H021 H32 H 0 0 N N N -14.148 -11.082 22.108 -1.287 1.035 -0.118 H021 YVD 72 YVD H061 H33 H 0 0 N N N -9.967 -13.139 21.292 2.546 -0.747 1.212 H061 YVD 73 YVD H111 H34 H 0 0 N N N -7.931 -9.340 15.862 4.523 5.773 -0.640 H111 YVD 74 YVD H322 H35 H 0 0 N N N -12.983 -6.589 20.719 -5.539 0.966 1.719 H322 YVD 75 YVD H321 H36 H 0 0 N N N -11.802 -7.315 21.581 -4.883 -0.535 2.011 H321 YVD 76 # 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 YVD C22 N11 SING N N 1 YVD C22 C23 SING N N 2 YVD N11 C10 SING N N 3 YVD C23 C09 SING N N 4 YVD C10 O12 DOUB N N 5 YVD C10 C09 SING N N 6 YVD C20 C21 SING N N 7 YVD C20 O16 SING N N 8 YVD O17 C15 DOUB N N 9 YVD C09 C08 SING N N 10 YVD C08 C07 SING N N 11 YVD C15 O16 SING N N 12 YVD C15 C14 SING N N 13 YVD C07 C13 SING N N 14 YVD C07 N06 SING N N 15 YVD C13 C14 SING N N 16 YVD O19 C18 DOUB N N 17 YVD N06 C18 SING N N 18 YVD C18 C04 SING N N 19 YVD N32 C31 SING N N 20 YVD C31 C01 SING N N 21 YVD C31 C33 SING N N 22 YVD O03 C01 DOUB N N 23 YVD C01 N02 SING N N 24 YVD N02 C04 SING N N 25 YVD C04 C05 SING N N 26 YVD C33 C37 SING N N 27 YVD C05 C27 SING N N 28 YVD C37 C36 DOUB Y N 29 YVD C37 C38 SING Y N 30 YVD C36 C35 SING Y N 31 YVD C27 C26 DOUB Y N 32 YVD C27 C28 SING Y N 33 YVD C26 C25 SING Y N 34 YVD C38 C39 DOUB Y N 35 YVD C28 C29 DOUB Y N 36 YVD C35 C34 DOUB Y N 37 YVD C25 C24 DOUB Y N 38 YVD C39 C34 SING Y N 39 YVD C34 F40 SING N N 40 YVD C29 C24 SING Y N 41 YVD C24 F30 SING N N 42 YVD C13 H1 SING N N 43 YVD C13 H131 SING N N 44 YVD C20 H202 SING N N 45 YVD C20 H201 SING N N 46 YVD C21 H212 SING N N 47 YVD C21 H211 SING N N 48 YVD C21 H213 SING N N 49 YVD C22 H222 SING N N 50 YVD C22 H221 SING N N 51 YVD C26 H261 SING N N 52 YVD C28 H281 SING N N 53 YVD C04 H041 SING N N 54 YVD C05 H051 SING N N 55 YVD C05 H052 SING N N 56 YVD C07 H071 SING N N 57 YVD C08 H081 SING N N 58 YVD C08 H082 SING N N 59 YVD C09 H091 SING N N 60 YVD C14 H141 SING N N 61 YVD C14 H142 SING N N 62 YVD C23 H232 SING N N 63 YVD C23 H231 SING N N 64 YVD C25 H251 SING N N 65 YVD C29 H291 SING N N 66 YVD C31 H311 SING N N 67 YVD C33 H331 SING N N 68 YVD C33 H332 SING N N 69 YVD C35 H351 SING N N 70 YVD C36 H361 SING N N 71 YVD C38 H381 SING N N 72 YVD C39 H391 SING N N 73 YVD N02 H021 SING N N 74 YVD N06 H061 SING N N 75 YVD N11 H111 SING N N 76 YVD N32 H322 SING N N 77 YVD N32 H321 SING N N 78 # 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 YVD SMILES ACDLabs 12.01 "Fc1ccc(cc1)CC(N)C(=O)NC(Cc1ccc(F)cc1)C(=O)NC(CC1CCNC1=O)CCC(=O)OCC" YVD InChI InChI 1.03 "InChI=1S/C29H36F2N4O5/c1-2-40-26(36)12-11-23(17-20-13-14-33-27(20)37)34-29(39)25(16-19-5-9-22(31)10-6-19)35-28(38)24(32)15-18-3-7-21(30)8-4-18/h3-10,20,23-25H,2,11-17,32H2,1H3,(H,33,37)(H,34,39)(H,35,38)/t20-,23+,24+,25-/m0/s1" YVD InChIKey InChI 1.03 WOTTZMBQRDTTCI-KTJVCJKDSA-N YVD SMILES_CANONICAL CACTVS 3.385 "CCOC(=O)CC[C@H](C[C@@H]1CCNC1=O)NC(=O)[C@H](Cc2ccc(F)cc2)NC(=O)[C@H](N)Cc3ccc(F)cc3" YVD SMILES CACTVS 3.385 "CCOC(=O)CC[CH](C[CH]1CCNC1=O)NC(=O)[CH](Cc2ccc(F)cc2)NC(=O)[CH](N)Cc3ccc(F)cc3" YVD SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CCOC(=O)CC[C@H](C[C@@H]1CCNC1=O)NC(=O)[C@H](Cc2ccc(cc2)F)NC(=O)[C@@H](Cc3ccc(cc3)F)N" YVD SMILES "OpenEye OEToolkits" 2.0.7 "CCOC(=O)CCC(CC1CCNC1=O)NC(=O)C(Cc2ccc(cc2)F)NC(=O)C(Cc3ccc(cc3)F)N" # 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 YVD "SYSTEMATIC NAME" ACDLabs 12.01 "4-fluoro-D-phenylalanyl-N-{(2R)-5-ethoxy-5-oxo-1-[(3S)-2-oxopyrrolidin-3-yl]pentan-2-yl}-4-fluoro-L-phenylalaninamide" YVD "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "ethyl (4~{R})-4-[[(2~{S})-2-[[(2~{R})-2-azanyl-3-(4-fluorophenyl)propanoyl]amino]-3-(4-fluorophenyl)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 YVD "Create component" 2021-04-01 RCSB YVD "Initial release" 2022-10-12 RCSB #