9IQP
 
 | | Crystal structure of the Wuhan SARS-CoV-2 Spike RBD (319-541) complexed with 1p1B10 nanobody | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, Nanobody 1p1B10, SODIUM ION, ... | | Authors: | Sluchanko, N.N, Matyuta, I.O, Dronova, E.A, Favorskaya, I.A, Esmagambetov, I.B, Shcheblyakov, D.V, Logunov, D.Y, Gintsburg, A.L, Popov, V.O, Boyko, K.M. | | Deposit date: | 2024-07-13 | | Release date: | 2025-07-16 | | Method: | X-RAY DIFFRACTION (1.55 Å) | | Cite: | Ultra-potent RBM-specific single-domain antibody broadly neutralizes multiple SARS-CoV-2 variants with picomolar activity.
Int.J.Biol.Macromol., 319, 2025
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9PFH
 | | Crystal structure of SARS-CoV-2 Mpro Mutant P132H with C5a | | Descriptor: | 3C-like proteinase nsp5, N-[(4-chlorothiophen-2-yl)methyl]-N-[4-(dimethylamino)phenyl]-2-(5-hydroxyisoquinolin-4-yl)acetamide | | Authors: | Kenward, C, Mosimann, W.A, Worrall, L.J, Strynadka, N.C.J. | | Deposit date: | 2025-07-04 | | Release date: | 2025-07-16 | | Method: | X-RAY DIFFRACTION (2.69 Å) | | Cite: | Functional and structural characterization of treatment-emergent nirmatrelvir resistance mutations at low frequencies in the main protease (Mpro) reveals a unique evolutionary route for SARS-CoV-2 to gain resistance.
J Infect Dis, 2025
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9PFI
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9UXD
 | | SARS-CoV2 Spike protein with Fab fragment antibody KXD355,state1 | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Antibody KXD355, ... | | Authors: | Wang, H. | | Deposit date: | 2025-05-13 | | Release date: | 2025-07-16 | | Method: | ELECTRON MICROSCOPY (3.03 Å) | | Cite: | A rare B cell clonotype imprinted by ancestral SARS-CoV-2 develops cross-sarbecovirus neutralization in immune recalls.
Cell Rep, 44, 2025
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9UXE
 | | SARS-CoV2 Spike protein with Fab fragment antibody KXD355,state2 | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Antibody KXD355, ... | | Authors: | Wang, H. | | Deposit date: | 2025-05-13 | | Release date: | 2025-07-16 | | Method: | ELECTRON MICROSCOPY (3.17 Å) | | Cite: | A rare B cell clonotype imprinted by ancestral SARS-CoV-2 develops cross-sarbecovirus neutralization in immune recalls.
Cell Rep, 44, 2025
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9VCK
 | | Cryo-EM structure of SARS-CoV-2 nsp10/nsp14:RNA:SMP complex | | Descriptor: | CALCIUM ION, Guanine-N7 methyltransferase nsp14, Non-structural protein 10, ... | | Authors: | Wang, J, Lou, Z, Liu, D. | | Deposit date: | 2025-06-06 | | Release date: | 2025-07-16 | | Method: | ELECTRON MICROSCOPY (4.22 Å) | | Cite: | Structural Basis and Rational Design of Nucleotide Analogue Inhibitor Evading the SARS-CoV-2 Proofreading Enzyme.
J.Am.Chem.Soc., 147, 2025
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9VCL
 | | Cryo-EM structure of SARS-CoV-2 nsp10/nsp14:RNA:ATMP complex | | Descriptor: | CALCIUM ION, Guanine-N7 methyltransferase nsp14, Non-structural protein 10, ... | | Authors: | Wang, J, Lou, Z, Liu, D. | | Deposit date: | 2025-06-06 | | Release date: | 2025-07-16 | | Method: | ELECTRON MICROSCOPY (3.08 Å) | | Cite: | Structural Basis and Rational Design of Nucleotide Analogue Inhibitor Evading the SARS-CoV-2 Proofreading Enzyme.
J.Am.Chem.Soc., 147, 2025
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9CB0
 | | SARS-CoV-2 S protein - Accum modified | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-6)-2-acetamido-2-deoxy-beta-D-glucopyranose, ... | | Authors: | Caveney, N.A. | | Deposit date: | 2024-06-18 | | Release date: | 2025-07-23 | | Method: | ELECTRON MICROSCOPY (3.1 Å) | | Cite: | SARS-CoV-2 S protein - Accum modified
To Be Published
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9H6U
 | | SARS-CoV-2 S protein in complex with pT1679 Fab | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, Spike glycoprotein,Fibritin, pT1679 Fab heavy chain, ... | | Authors: | Hansen, G, Benecke, T, Vollmer, B, Gruenewald, K, Krey, T. | | Deposit date: | 2024-10-25 | | Release date: | 2025-07-23 | | Last modified: | 2025-09-24 | | Method: | ELECTRON MICROSCOPY (3.27 Å) | | Cite: | A critical residue in a conserved RBD epitope determines neutralization breadth of pan-sarbecovirus antibodies with recurring YYDRxxG motifs.
Mbio, 16, 2025
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9I53
 | | Crystal structure of the SARS-CoV-2 helicase NSP13 in complex with ATP | | Descriptor: | 3[N-MORPHOLINO]PROPANE SULFONIC ACID, ADENOSINE-5'-TRIPHOSPHATE, PHOSPHATE ION, ... | | Authors: | Kloskowski, P, Neumann, P, Ficner, R. | | Deposit date: | 2025-01-27 | | Release date: | 2025-07-23 | | Last modified: | 2025-08-13 | | Method: | X-RAY DIFFRACTION (1.92 Å) | | Cite: | Nucleotide-bound crystal structures of the SARS-CoV-2 helicase NSP13.
Acta Crystallogr.,Sect.F, 81, 2025
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9MVM
 | | Crystal Structure of SARS-CoV-2 Main Protease (Mpro)in Complex with Inhibitor AVI-3318 | | Descriptor: | 1-[(4-chlorothiophen-2-yl)methyl]-3-[(2-oxo-1,2-dihydropyridin-3-yl)methyl]-1,3-diazinane-2,4-dione, Replicase polyprotein 1ab | | Authors: | Diallo, A, Gumpena, R, Verba, K. | | Deposit date: | 2025-01-15 | | Release date: | 2025-07-23 | | Method: | X-RAY DIFFRACTION (1.96 Å) | | Cite: | Structure-based discovery of highly bioavailable, covalent, broad-spectrum coronavirus M Pro inhibitors with potent in vivo efficacy.
Sci Adv, 11, 2025
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9MVO
 | | Crystal Structure of SARS-CoV-2 Main Protease (Mpro) in Complex with Inhibitor AVI-4692 | | Descriptor: | (3M,5P,6M)-5-(1H-1,2,3-benzotriazol-1-yl)-6-(3-chlorophenyl)-3-(isoquinolin-4-yl)-1-(prop-2-en-1-yl)pyrimidine-2,4(1H,3H)-dione, (3M,5P,6M)-5-(1H-1,2,3-benzotriazol-1-yl)-6-(3-chlorophenyl)-3-(isoquinolin-4-yl)-1-(prop-2-yn-1-yl)pyrimidine-2,4(1H,3H)-dione, 3C-like proteinase nsp5 | | Authors: | Diallo, A, Gumpena, R, Verba, K. | | Deposit date: | 2025-01-15 | | Release date: | 2025-07-23 | | Last modified: | 2025-08-13 | | Method: | X-RAY DIFFRACTION (1.84 Å) | | Cite: | Structure-based discovery of highly bioavailable, covalent, broad-spectrum coronavirus M Pro inhibitors with potent in vivo efficacy.
Sci Adv, 11, 2025
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9MVP
 | | Crystal Structure of SARS-CoV-2 Main Protease (Mpro)in Complex with Inhibitor AVI-4516 | | Descriptor: | (3M,5P)-5-(1H-1,2,3-benzotriazol-1-yl)-3-(isoquinolin-4-yl)-6-methyl-1-(prop-2-en-1-yl)pyrimidine-2,4(1H,3H)-dione, 1,2-ETHANEDIOL, 3C-like proteinase nsp5 | | Authors: | Diallo, A, Gumpena, R, Verba, K. | | Deposit date: | 2025-01-15 | | Release date: | 2025-07-23 | | Method: | X-RAY DIFFRACTION (2.35 Å) | | Cite: | Structure-based discovery of highly bioavailable, covalent, broad-spectrum coronavirus M Pro inhibitors with potent in vivo efficacy.
Sci Adv, 11, 2025
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9MVQ
 | | Crystal Structure of SARS-CoV-2 Main Protease (Mpro) variant Q192T in Complex with Inhibitor AVI-4303 | | Descriptor: | (3M,5P,6M)-5-(1H-1,2,3-benzotriazol-1-yl)-6-(3-chlorophenyl)-3-(isoquinolin-4-yl)pyrimidine-2,4(1H,3H)-dione, 1,2-ETHANEDIOL, 3C-like proteinase nsp5, ... | | Authors: | Diallo, A, Gumpena, R, Partridge, J, Verba, K. | | Deposit date: | 2025-01-15 | | Release date: | 2025-07-23 | | Method: | X-RAY DIFFRACTION (1.57 Å) | | Cite: | Structure-based discovery of highly bioavailable, covalent, broad-spectrum coronavirus M Pro inhibitors with potent in vivo efficacy.
Sci Adv, 11, 2025
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9E21
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9I51
 | | Crystal structure of the SARS-CoV-2 helicase NSP13 in complex with ADP | | Descriptor: | 3[N-MORPHOLINO]PROPANE SULFONIC ACID, ADENOSINE-5'-DIPHOSPHATE, PHOSPHATE ION, ... | | Authors: | Kloskowski, P, Neumann, P, Ficner, R. | | Deposit date: | 2025-01-27 | | Release date: | 2025-07-30 | | Last modified: | 2025-08-13 | | Method: | X-RAY DIFFRACTION (1.82 Å) | | Cite: | Nucleotide-bound crystal structures of the SARS-CoV-2 helicase NSP13.
Acta Crystallogr.,Sect.F, 81, 2025
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9N6J
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9N6L
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9N6M
 | | Room Temperature X-Ray Structure of SARS-CoV-2 Main Protease Mutant D48Y, P168 Deletion in Complex with Nirmatrelvir | | Descriptor: | (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, 3C-like proteinase nsp5 | | Authors: | Bhandari, D, Kovalevsky, A. | | Deposit date: | 2025-02-05 | | Release date: | 2025-07-30 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | Characterization of an unusual SARS-CoV-2 main protease natural variant exhibiting resistance to nirmatrelvir and ensitrelvir.
Commun Biol, 8, 2025
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9N6N
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9N6P
 | | Room Temperature X-Ray Structure of SARS-CoV-2 Main Protease Mutant D48Y, P168 Deletion in Complex with Ensitrelvir | | Descriptor: | 3C-like proteinase nsp5, 6-[(6-chloranyl-2-methyl-indazol-5-yl)amino]-3-[(1-methyl-1,2,4-triazol-3-yl)methyl]-1-[[2,4,5-tris(fluoranyl)phenyl]methyl]-1,3,5-triazine-2,4-dione, SODIUM ION | | Authors: | Bhandari, D, Kovalevsky, A. | | Deposit date: | 2025-02-05 | | Release date: | 2025-07-30 | | Method: | X-RAY DIFFRACTION (1.9 Å) | | Cite: | Characterization of an unusual SARS-CoV-2 main protease natural variant exhibiting resistance to nirmatrelvir and ensitrelvir.
Commun Biol, 8, 2025
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9N6R
 | | Room Temperature X-Ray Structure of SARS-CoV-2 Main Protease in Complex with Ensitrelvir | | Descriptor: | 3C-like proteinase nsp5, 6-[(6-chloranyl-2-methyl-indazol-5-yl)amino]-3-[(1-methyl-1,2,4-triazol-3-yl)methyl]-1-[[2,4,5-tris(fluoranyl)phenyl]methyl]-1,3,5-triazine-2,4-dione, SODIUM ION | | Authors: | Bhandari, D, Kovalevsky, A. | | Deposit date: | 2025-02-05 | | Release date: | 2025-07-30 | | Method: | X-RAY DIFFRACTION (1.7 Å) | | Cite: | Characterization of an unusual SARS-CoV-2 main protease natural variant exhibiting resistance to nirmatrelvir and ensitrelvir.
Commun Biol, 8, 2025
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9NSK
 | | Room-temperature X-ray structure of SARS-CoV-2 main protease in complex with inhibitor BBH-3 | | Descriptor: | 3C-like proteinase nsp5, N-(tert-butylcarbamoyl)-3-methyl-L-valyl-3,4-dichloro-N-{(1Z,2S)-1-imino-3-[(3S)-2-oxopyrrolidin-3-yl]propan-2-yl}-L-phenylalaninamide | | Authors: | Bhandari, D, Coates, L, Kovalevsky, A. | | Deposit date: | 2025-03-17 | | Release date: | 2025-07-30 | | Method: | X-RAY DIFFRACTION (1.9 Å) | | Cite: | Influence of Steric and Electronic Properties of P2 Groups on Covalent Inhibitor Binding to SARS-CoV-2 Main Protease.
Acs Infect Dis., 11, 2025
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9NSL
 | | Room-temperature X-ray structure of SARS-CoV-2 main protease in complex with with inhibitor BBH-4 | | Descriptor: | 3C-like proteinase nsp5, N-[(1S)-1-[(3R,5R,7R)-adamantan-1-yl]-2-({(1Z,2S)-1-imino-3-[(3S)-2-oxopyrrolidin-3-yl]propan-2-yl}amino)-2-oxoethyl]-N~2~-(tert-butylcarbamoyl)-3-methyl-L-valinamide | | Authors: | Bhandari, D, Coates, L, Kovalevsky, A. | | Deposit date: | 2025-03-17 | | Release date: | 2025-07-30 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | Influence of Steric and Electronic Properties of P2 Groups on Covalent Inhibitor Binding to SARS-CoV-2 Main Protease.
Acs Infect Dis., 11, 2025
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9VWY
 | | Crystal structure of C270S mutant of Papain-like protease (PLpro) from SARS-CoV-2 | | Descriptor: | CHLORIDE ION, GLYCEROL, PHOSPHATE ION, ... | | Authors: | Arya, R, Ganesh, J, Prashar, V, Kumar, M. | | Deposit date: | 2025-07-17 | | Release date: | 2025-07-30 | | Method: | X-RAY DIFFRACTION (1.83 Å) | | Cite: | Crystal structure of C270S mutant of Papain-like protease (PLpro) from SARS-CoV-2
To Be Published
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