data_4WI # _chem_comp.id 4WI _chem_comp.name "(1R,2S,5S)-N-{(1E,2S)-1-imino-3-[(3S)-2-oxopyrrolidin-3-yl]propan-2-yl}-6,6-dimethyl-3-[3-methyl-N-(trifluoroacetyl)-L-valyl]-3-azabicyclo[3.1.0]hexane-2-carboxamide" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C23 H34 F3 N5 O4" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms "PF-07321332, bound form; nirmatrelvir, bound form; Paxlovid, bound form" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2021-07-15 _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 9I7 _chem_comp.formula_weight 501.542 _chem_comp.one_letter_code ? _chem_comp.three_letter_code ? _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 7RFS _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 4WI C8 C1 C 0 1 N N N N N N 6.572 1.373 18.105 3.870 2.000 0.928 C8 4WI 1 4WI C3 C2 C 0 1 N N N N N N 7.852 -3.217 19.713 5.102 -1.303 -1.708 C3 4WI 2 4WI C1 C3 C 0 1 N N N N N N 9.193 -0.664 21.659 2.202 -0.741 -0.548 C1 4WI 3 4WI C13 C4 C 0 1 N N N N N N 10.255 2.169 22.026 -1.088 -0.017 0.086 C13 4WI 4 4WI C21 C5 C 0 1 N N N N N N 12.250 4.895 22.778 -4.722 0.366 -0.026 C21 4WI 5 4WI C6 C6 C 0 1 N N N N N N 5.620 0.469 20.076 5.910 3.171 0.385 C6 4WI 6 4WI C7 C7 C 0 1 N N N N N N 5.047 1.849 19.806 5.781 2.894 1.899 C7 4WI 7 4WI C10 C8 C 0 1 N N N N N N 11.164 0.893 24.031 -0.365 -2.281 -0.807 C10 4WI 8 4WI C5 C9 C 0 1 N N S N N N 6.931 0.492 19.282 4.853 2.207 -0.203 C5 4WI 9 4WI C9 C10 C 0 1 N N S N N N 10.609 -0.250 21.925 1.182 -1.094 0.504 C9 4WI 10 4WI C11 C11 C 0 1 N N S N N N 11.688 -0.488 24.080 0.315 -3.349 0.076 C11 4WI 11 4WI C12 C12 C 0 1 N N R N N N 11.354 -1.196 22.813 1.334 -2.569 0.933 C12 4WI 12 4WI C18 C13 C 0 1 N N N N N N 12.815 -1.019 23.214 0.096 -3.280 1.589 C18 4WI 13 4WI C19 C14 C 0 1 N N N N N N 13.636 -0.021 22.474 -1.037 -2.391 2.104 C19 4WI 14 4WI C20 C15 C 0 1 N N N N N N 13.552 -2.205 23.718 0.362 -4.547 2.405 C20 4WI 15 4WI C16 C16 C 0 1 N N N N N N 8.922 5.082 24.062 -1.750 1.983 -1.895 C16 4WI 16 4WI C17 C17 C 0 1 N N N N N N 7.919 2.927 23.533 -3.601 0.538 -2.748 C17 4WI 17 4WI C23 C18 C 0 1 N N N N N N 8.301 4.608 21.742 -1.239 -0.272 -2.843 C23 4WI 18 4WI C4 C19 C 0 1 N N N N N N 7.333 -0.901 18.827 5.501 0.879 -0.599 C4 4WI 19 4WI C2 C20 C 0 1 N N S N N N 7.746 -1.749 20.019 4.443 -0.044 -1.206 C2 4WI 20 4WI C14 C21 C 0 1 N N S N N N 10.252 3.427 22.860 -2.406 -0.077 -0.642 C14 4WI 21 4WI C22 C22 C 0 1 N N N N N N 13.138 5.636 21.809 -5.760 1.132 0.751 C22 4WI 22 4WI C15 C23 C 0 1 N N N N N N 8.851 3.997 23.015 -2.249 0.543 -2.032 C15 4WI 23 4WI N5 N1 N 0 1 N N N N N N 6.776 -3.940 19.630 4.757 -2.439 -1.231 N5 4WI 24 4WI N2 N2 N 0 1 N N N N N N 5.414 2.061 18.429 4.414 2.397 2.092 N2 4WI 25 4WI N3 N3 N 0 1 N N N N N N 10.544 1.003 22.693 -0.192 -1.013 -0.059 N3 4WI 26 4WI N1 N4 N 0 1 N N N N N N 9.055 -1.335 20.472 3.451 -0.387 -0.183 N1 4WI 27 4WI N4 N5 N 0 1 N N N N N N 11.163 4.306 22.150 -3.416 0.668 0.114 N4 4WI 28 4WI O1 O1 O 0 1 N N N N N N 7.211 1.469 17.073 2.753 1.546 0.803 O1 4WI 29 4WI O2 O2 O 0 1 N N N N N N 8.280 -0.420 22.434 1.900 -0.776 -1.722 O2 4WI 30 4WI O3 O3 O 0 1 N N N N N N 9.993 2.178 20.830 -0.834 0.928 0.803 O3 4WI 31 4WI O4 O4 O 0 1 N N N N N N 12.481 4.874 23.983 -5.061 -0.523 -0.779 O4 4WI 32 4WI F1 F1 F 0 1 N N N N N N 13.131 5.084 20.574 -5.689 2.488 0.414 F1 4WI 33 4WI F2 F2 F 0 1 N N N N N N 14.445 5.618 22.161 -7.033 0.641 0.440 F2 4WI 34 4WI F3 F3 F 0 1 N N N N N N 12.800 6.947 21.669 -5.524 0.980 2.122 F3 4WI 35 4WI H33 H1 H 0 1 N N N N N N 8.821 -3.670 19.562 5.865 -1.246 -2.470 H33 4WI 36 4WI H5 H3 H 0 1 N N N N N N 4.947 -0.320 19.709 5.663 4.207 0.156 H5 4WI 37 4WI H6 H4 H 0 1 N N N N N N 5.808 0.320 21.149 6.909 2.922 0.026 H6 4WI 38 4WI H7 H5 H 0 1 N N N N N N 5.502 2.606 20.462 6.504 2.138 2.207 H7 4WI 39 4WI H8 H6 H 0 1 N N N N N N 3.955 1.861 19.935 5.934 3.813 2.465 H8 4WI 40 4WI H11 H7 H 0 1 N N N N N N 11.979 1.623 24.144 0.128 -2.220 -1.777 H11 4WI 41 4WI H12 H8 H 0 1 N N N N N N 10.416 1.054 24.821 -1.423 -2.509 -0.932 H12 4WI 42 4WI H4 H9 H 0 1 N N N N N N 7.733 0.950 19.879 4.358 2.662 -1.061 H4 4WI 43 4WI H10 H10 H 0 1 N N N N N N 11.151 -0.102 20.979 1.280 -0.431 1.364 H10 4WI 44 4WI H13 H11 H 0 1 N N N N N N 11.501 -1.047 25.009 0.565 -4.303 -0.387 H13 4WI 45 4WI H14 H12 H 0 1 N N N N N N 10.946 -2.213 22.905 2.339 -2.933 1.145 H14 4WI 46 4WI H23 H13 H 0 1 N N N N N N 14.658 -0.013 22.880 -1.444 -1.807 1.278 H23 4WI 47 4WI H24 H14 H 0 1 N N N N N N 13.667 -0.290 21.408 -1.823 -3.014 2.530 H24 4WI 48 4WI H25 H15 H 0 1 N N N N N N 13.189 0.978 22.588 -0.652 -1.718 2.869 H25 4WI 49 4WI H26 H16 H 0 1 N N N N N N 12.856 -2.873 24.246 1.032 -4.313 3.232 H26 4WI 50 4WI H27 H17 H 0 1 N N N N N N 14.005 -2.742 22.872 -0.580 -4.931 2.798 H27 4WI 51 4WI H28 H18 H 0 1 N N N N N N 14.342 -1.879 24.410 0.823 -5.301 1.766 H28 4WI 52 4WI H17 H19 H 0 1 N N N N N N 9.319 4.663 24.998 -1.639 2.425 -2.885 H17 4WI 53 4WI H19 H20 H 0 1 N N N N N N 9.584 5.887 23.711 -2.470 2.563 -1.317 H19 4WI 54 4WI H18 H21 H 0 1 N N N N N N 7.915 5.486 24.240 -0.787 1.987 -1.385 H18 4WI 55 4WI H20 H22 H 0 1 N N N N N N 8.333 2.495 24.456 -3.957 -0.488 -2.846 H20 4WI 56 4WI H21 H23 H 0 1 N N N N N N 6.935 3.370 23.745 -4.321 1.118 -2.171 H21 4WI 57 4WI H22 H24 H 0 1 N N N N N N 7.810 2.137 22.775 -3.490 0.979 -3.739 H22 4WI 58 4WI H29 H25 H 0 1 N N N N N N 7.289 4.998 21.929 -1.563 -1.311 -2.887 H29 4WI 59 4WI H30 H26 H 0 1 N N N N N N 8.956 5.430 21.417 -1.175 0.132 -3.853 H30 4WI 60 4WI H31 H27 H 0 1 N N N N N N 8.258 3.840 20.956 -0.261 -0.216 -2.366 H31 4WI 61 4WI H2 H28 H 0 1 N N N N N N 6.480 -1.377 18.321 6.286 1.063 -1.333 H2 4WI 62 4WI H3 H29 H 0 1 N N N N N N 8.178 -0.824 18.127 5.932 0.407 0.284 H3 4WI 63 4WI H32 H30 H 0 1 N N N N N N 7.012 -1.605 20.825 3.950 0.463 -2.034 H32 4WI 64 4WI H15 H31 H 0 1 N N N N N N 10.656 3.198 23.857 -2.720 -1.116 -0.741 H15 4WI 65 4WI H36 H32 H 0 1 N Y N N N N 6.982 -4.896 19.422 5.182 -3.249 -1.555 H36 4WI 66 4WI H9 H35 H 0 1 N N N N N N 4.899 2.632 17.789 3.960 2.361 2.948 H9 4WI 67 4WI H1 H36 H 0 1 N N N N N N 9.862 -1.539 19.918 3.692 -0.359 0.756 H1 4WI 68 4WI H16 H37 H 0 1 N N N N N N 11.002 4.492 21.181 -3.145 1.379 0.715 H16 4WI 69 # 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 4WI O1 C8 DOUB N N 1 4WI C8 N2 SING N N 2 4WI C8 C5 SING N N 3 4WI N2 C7 SING N N 4 4WI C4 C5 SING N N 5 4WI C4 C2 SING N N 6 4WI C5 C6 SING N N 7 4WI N5 C3 DOUB N N 8 4WI C3 C2 SING N N 9 4WI C7 C6 SING N N 10 4WI C2 N1 SING N N 11 4WI N1 C1 SING N N 12 4WI F1 C22 SING N N 13 4WI O3 C13 DOUB N N 14 4WI C1 C9 SING N N 15 4WI C1 O2 DOUB N N 16 4WI F3 C22 SING N N 17 4WI C23 C15 SING N N 18 4WI C22 F2 SING N N 19 4WI C22 C21 SING N N 20 4WI C9 N3 SING N N 21 4WI C9 C12 SING N N 22 4WI C13 N3 SING N N 23 4WI C13 C14 SING N N 24 4WI N4 C21 SING N N 25 4WI N4 C14 SING N N 26 4WI C19 C18 SING N N 27 4WI N3 C10 SING N N 28 4WI C21 O4 DOUB N N 29 4WI C12 C18 SING N N 30 4WI C12 C11 SING N N 31 4WI C14 C15 SING N N 32 4WI C15 C17 SING N N 33 4WI C15 C16 SING N N 34 4WI C18 C20 SING N N 35 4WI C18 C11 SING N N 36 4WI C10 C11 SING N N 37 4WI C3 H33 SING N N 38 4WI C6 H5 SING N N 39 4WI C6 H6 SING N N 40 4WI C7 H7 SING N N 41 4WI C7 H8 SING N N 42 4WI C10 H11 SING N N 43 4WI C10 H12 SING N N 44 4WI C5 H4 SING N N 45 4WI C9 H10 SING N N 46 4WI C11 H13 SING N N 47 4WI C12 H14 SING N N 48 4WI C19 H23 SING N N 49 4WI C19 H24 SING N N 50 4WI C19 H25 SING N N 51 4WI C20 H26 SING N N 52 4WI C20 H27 SING N N 53 4WI C20 H28 SING N N 54 4WI C16 H17 SING N N 55 4WI C16 H19 SING N N 56 4WI C16 H18 SING N N 57 4WI C17 H20 SING N N 58 4WI C17 H21 SING N N 59 4WI C17 H22 SING N N 60 4WI C23 H29 SING N N 61 4WI C23 H30 SING N N 62 4WI C23 H31 SING N N 63 4WI C4 H2 SING N N 64 4WI C4 H3 SING N N 65 4WI C2 H32 SING N N 66 4WI C14 H15 SING N N 67 4WI N5 H36 SING N N 68 4WI N2 H9 SING N N 69 4WI N1 H1 SING N N 70 4WI N4 H16 SING N N 71 # 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 4WI SMILES ACDLabs 12.01 "CC1(C)C2C(C(=O)NC(C=N)CC3CCNC3=O)N(CC21)C(=O)C(NC(=O)C(F)(F)F)C(C)(C)C" 4WI InChI InChI 1.03 "InChI=1S/C23H34F3N5O4/c1-21(2,3)16(30-20(35)23(24,25)26)19(34)31-10-13-14(22(13,4)5)15(31)18(33)29-12(9-27)8-11-6-7-28-17(11)32/h9,11-16,27H,6-8,10H2,1-5H3,(H,28,32)(H,29,33)(H,30,35)/b27-9+/t11-,12-,13-,14-,15-,16+/m0/s1" 4WI InChIKey InChI 1.03 WDVIRQQKRMIXGS-XIFHJVQQSA-N 4WI SMILES_CANONICAL CACTVS 3.385 "CC(C)(C)[C@H](NC(=O)C(F)(F)F)C(=O)N1C[C@H]2[C@@H]([C@H]1C(=O)N[C@@H](C[C@@H]3CCNC3=O)C=N)C2(C)C" 4WI SMILES CACTVS 3.385 "CC(C)(C)[CH](NC(=O)C(F)(F)F)C(=O)N1C[CH]2[CH]([CH]1C(=O)N[CH](C[CH]3CCNC3=O)C=N)C2(C)C" 4WI SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "[H]/N=C/[C@H](C[C@@H]1CCNC1=O)NC(=O)[C@@H]2[C@@H]3[C@@H](C3(C)C)CN2C(=O)[C@H](C(C)(C)C)NC(=O)C(F)(F)F" 4WI SMILES "OpenEye OEToolkits" 2.0.7 "CC1(C2C1C(N(C2)C(=O)C(C(C)(C)C)NC(=O)C(F)(F)F)C(=O)NC(CC3CCNC3=O)C=N)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 4WI "SYSTEMATIC NAME" ACDLabs 12.01 "(1R,2S,5S)-N-{(1E,2S)-1-imino-3-[(3S)-2-oxopyrrolidin-3-yl]propan-2-yl}-6,6-dimethyl-3-[3-methyl-N-(trifluoroacetyl)-L-valyl]-3-azabicyclo[3.1.0]hexane-2-carboxamide" 4WI "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "(1~{R},2~{S},5~{S})-~{N}-[(2~{S})-1-azanylidene-3-[(3~{S})-2-oxidanylidenepyrrolidin-3-yl]propan-2-yl]-3-[(2~{S})-3,3-dimethyl-2-[2,2,2-tris(fluoranyl)ethanoylamino]butanoyl]-6,6-dimethyl-3-azabicyclo[3.1.0]hexane-2-carboxamide" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site 4WI "Create component" 2021-07-15 RCSB 4WI "Initial release" 2021-11-10 RCSB 4WI "Other modification" 2021-12-14 RCSB 4WI "Modify PCM" 2024-09-27 PDBE # loop_ _pdbx_chem_comp_synonyms.ordinal _pdbx_chem_comp_synonyms.comp_id _pdbx_chem_comp_synonyms.name _pdbx_chem_comp_synonyms.provenance _pdbx_chem_comp_synonyms.type 1 4WI "PF-07321332, bound form" PDB ? 2 4WI "nirmatrelvir, bound form" PDB "drug name" 3 4WI "Paxlovid, bound form" PDB "drug brand name" # loop_ _pdbx_chem_comp_pcm.pcm_id _pdbx_chem_comp_pcm.comp_id _pdbx_chem_comp_pcm.modified_residue_id _pdbx_chem_comp_pcm.type _pdbx_chem_comp_pcm.category _pdbx_chem_comp_pcm.position _pdbx_chem_comp_pcm.polypeptide_position _pdbx_chem_comp_pcm.comp_id_linking_atom _pdbx_chem_comp_pcm.modified_residue_id_linking_atom _pdbx_chem_comp_pcm.uniprot_specific_ptm_accession _pdbx_chem_comp_pcm.uniprot_generic_ptm_accession 1 4WI CYS None "Covalent chemical modification" "Amino-acid side chain" "Any position" C3 SG ? ? 2 4WI SER None "Covalent chemical modification" "Amino-acid side chain" "Any position" C3 OG ? ? #