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Coronavirus, 2020. Modified from the original illustration by David S. Goodsell@RCSB PDB

The recent outbreak of the Novel Coronavirus disease (COVID-19) is a serious threat to people all over the world. In order to understand and develop an effective drug against this virus (Severe Acute Respiratory Syndrome Coronavirus 2: SARS-CoV-2), structural work on the related proteins has already started and the resultant entries are accumulating in the PDB. PDBj provides a portal page for the COVID-19 related entries for our users. New entries will be added simultaneously with the public release from the wwPDB.

An explanation article covering one of the proteins of this virus is available on the "Molecules of the Month" page below:

The tab "All entries" contains all PDB IDs, in case you want to check all independent entries, including group depositions by the same authors. The "Repr. entries" tab contains only representative PDB entries with the highest resolution, excluding duplicate entries with 100% amino acid sequence identitiy, even if they contain a different ligand. Finally, the "Latest entries" tab contains the latest entries released this week.

Created: 2020-10-28 (last edited: more than 1 year ago)

All entries (4587)Repr. entries (2051)Latest entries (14)

7NBY

Crystal structure of SU3327 (halicin) covalently bound to the main protease (3CLpro/Mpro) of SARS-CoV-2.
Descriptor:	5-nitro-1,3-thiazole, CHLORIDE ION, Main Protease, ...
Authors:	Costanzi, E, Demitri, N, Giabbai, B, Storici, P.
Deposit date:	2021-01-28
Release date:	2021-03-03
Last modified:	2024-01-31
Method:	X-RAY DIFFRACTION (1.93 Å)
Cite:	Crystal structure of SU3327 (halicin) covalently bound to the main protease (3CLpro/Mpro) of SARS-CoV-2. To Be Published

7ND3

EM structure of SARS-CoV-2 Spike glycoprotein in complex with COVOX-40 Fab
Descriptor:	2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, COVOX-40 heavy chain, ...
Authors:	Duyvesteyn, H.M.E, Zhao, Y, Ren, J, Stuart, D.
Deposit date:	2021-01-30
Release date:	2021-03-03
Last modified:	2024-10-23
Method:	ELECTRON MICROSCOPY (3.7 Å)
Cite:	The antigenic anatomy of SARS-CoV-2 receptor binding domain. Cell, 184, 2021

7ND4

EM structure of SARS-CoV-2 Spike glycoprotein in complex with COVOX-88 Fab
Descriptor:	2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, COVOX-88 Fab heavy chain, ...
Authors:	Duyvesteyn, H.M.E, Zhao, Y, Ren, J, Stuart, D.
Deposit date:	2021-01-30
Release date:	2021-03-03
Last modified:	2024-10-09
Method:	ELECTRON MICROSCOPY (3.6 Å)
Cite:	The antigenic anatomy of SARS-CoV-2 receptor binding domain. Cell, 184, 2021

7ND5

EM structure of SARS-CoV-2 Spike glycoprotein in complex with COVOX-150 Fab
Descriptor:	2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, COVOX-150 Fab heavy chain, ...
Authors:	Duyvesteyn, H.M.E, Zhao, Y, Ren, J, Stuart, D.
Deposit date:	2021-01-30
Release date:	2021-03-03
Last modified:	2024-10-09
Method:	ELECTRON MICROSCOPY (3.4 Å)
Cite:	The antigenic anatomy of SARS-CoV-2 receptor binding domain. Cell, 184, 2021

7ND6

EM structure of SARS-CoV-2 Spike glycoprotein in complex with COVOX-40 Fab
Descriptor:	2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, COVOX-158 Fab heavy chain, ...
Authors:	Duyvesteyn, H.M.E, Zhao, Y, Ren, J, Stuart, D.
Deposit date:	2021-01-30
Release date:	2021-03-03
Last modified:	2024-11-13
Method:	ELECTRON MICROSCOPY (7.3 Å)
Cite:	The antigenic anatomy of SARS-CoV-2 receptor binding domain. Cell, 184, 2021

7ND7

EM structure of SARS-CoV-2 Spike glycoprotein in complex with COVOX-316 Fab
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-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose, ...
Authors:	Duyvesteyn, H.M.E, Zhao, Y, Ren, J, Stuart, D.
Deposit date:	2021-01-30
Release date:	2021-03-03
Last modified:	2024-11-06
Method:	ELECTRON MICROSCOPY (3.6 Å)
Cite:	The antigenic anatomy of SARS-CoV-2 receptor binding domain. Cell, 184, 2021

7ND8

EM structure of SARS-CoV-2 Spike glycoprotein in complex with COVOX-384 Fab
Descriptor:	2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, COVOX-384 Fab heavy chain, ...
Authors:	Duyvesteyn, H.M.E, Zhao, Y, Ren, J, Stuart, D.
Deposit date:	2021-01-30
Release date:	2021-03-03
Last modified:	2024-11-06
Method:	ELECTRON MICROSCOPY (3.5 Å)
Cite:	The antigenic anatomy of SARS-CoV-2 receptor binding domain. Cell, 184, 2021

7ND9

EM structure of SARS-CoV-2 Spike glycoprotein (one RBD up) in complex with COVOX-253H55L Fab
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-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose, ...
Authors:	Duyvesteyn, H.M.E, Zhao, Y, Ren, J, Stuart, D.
Deposit date:	2021-01-30
Release date:	2021-03-03
Last modified:	2024-10-16
Method:	ELECTRON MICROSCOPY (2.8 Å)
Cite:	The antigenic anatomy of SARS-CoV-2 receptor binding domain. Cell, 184, 2021

7NDA

EM structure of SARS-CoV-2 Spike glycoprotein (all RBD down) in complex with COVOX-253H55L Fab
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-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose, ...
Authors:	Duyvesteyn, H.M.E, Zhao, Y, Ren, J, Stuart, D.
Deposit date:	2021-01-30
Release date:	2021-03-03
Last modified:	2024-10-23
Method:	ELECTRON MICROSCOPY (3.3 Å)
Cite:	The antigenic anatomy of SARS-CoV-2 receptor binding domain. Cell, 184, 2021

7NDB

EM structure of SARS-CoV-2 Spike glycoprotein in complex with COVOX-253H165L Fab
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-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose, ...
Authors:	Duyvesteyn, H.M.E, Zhao, Y, Ren, J, Stuart, D.
Deposit date:	2021-01-30
Release date:	2021-03-03
Last modified:	2024-10-16
Method:	ELECTRON MICROSCOPY (4.6 Å)
Cite:	The antigenic anatomy of SARS-CoV-2 receptor binding domain. Cell, 184, 2021

7NDC

EM structure of SARS-CoV-2 Spike glycoprotein (all RBD down) in complex with COVOX-159
Descriptor:	2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, COVOX-159 Fab light chain, ...
Authors:	Duyvesteyn, H.M.E, Zhao, Y, Ren, J, Stuart, D.
Deposit date:	2021-01-30
Release date:	2021-03-03
Last modified:	2024-11-13
Method:	ELECTRON MICROSCOPY (4.1 Å)
Cite:	The antigenic anatomy of SARS-CoV-2 receptor binding domain. Cell, 184, 2021

7NDD

EM structure of SARS-CoV-2 Spike glycoprotein (one RBD up) in complex with COVOX-159
Descriptor:	2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, COVOX-159 Fab heavy chain, ...
Authors:	Duyvesteyn, H.M.E, Zhao, Y, Ren, J, Stuart, D.
Deposit date:	2021-01-30
Release date:	2021-03-03
Last modified:	2024-11-13
Method:	ELECTRON MICROSCOPY (4.2 Å)
Cite:	The antigenic anatomy of SARS-CoV-2 receptor binding domain. Cell, 184, 2021

7NEG

Crystal structure of the N501Y mutant receptor binding domain of SARS-CoV-2 Spike glycoprotein in complex with COVOX-269 Fab
Descriptor:	2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose, Antibody COVOX-269 Fab heavy chain, Antibody COVOX-269 Fab light chain, ...
Authors:	Zhou, D, Ren, J, Stuart, D.
Deposit date:	2021-02-04
Release date:	2021-03-03
Last modified:	2024-11-13
Method:	X-RAY DIFFRACTION (2.19 Å)
Cite:	Reduced neutralization of SARS-CoV-2 B.1.1.7 variant by convalescent and vaccine sera. Cell, 184, 2021

7NEH

Crystal structure of the receptor binding domain of SARS-CoV-2 Spike glycoprotein in complex with COVOX-269 Fab
Descriptor:	1,2-ETHANEDIOL, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose, CHLORIDE ION, ...
Authors:	Zhou, D, Ren, J, Stuart, D.
Deposit date:	2021-02-04
Release date:	2021-03-03
Last modified:	2024-01-31
Method:	X-RAY DIFFRACTION (1.77 Å)
Cite:	Reduced neutralization of SARS-CoV-2 B.1.1.7 variant by convalescent and vaccine sera. Cell, 184, 2021

7NEV

Structure of the hemiacetal complex between the SARS-CoV-2 Main Protease and Leupeptin
Descriptor:	3C-like proteinase, CHLORIDE ION, DIMETHYL SULFOXIDE, ...
Authors:	Guenther, S, Reinke, P.Y.A, Oberthuer, D, Yefanov, O, Gelisio, L, Ginn, H.M, Lieske, J, Domaracky, M, Brehm, W, Rahmani Mashhour, A, White, T.A, Knoska, J, Pena Esperanza, G, Koua, F, Tolstikova, A, Groessler, M, Fischer, P, Hennicke, V, Fleckenstein, H, Trost, F, Galchenkova, M, Gevorkov, Y, Li, C, Awel, S, Xavier, P.L, Ullah, N, Andaleeb, H, Falke, S, Alves Franca, B, Schwinzer, M, Brognaro, H, Werner, N, Perbandt, M, Tidow, H, Seychell, B, Beck, T, Meier, S, Zaitsev-Doyle, J.J, Rogers, C, Gieseler, H, Melo, D, Monteiro, D.C.F, Dunkel, I, Lane, T.J, Peck, A, Saouane, S, Hakanpaeae, J, Meyer, J, Noei, H, Gribbon, P, Ellinger, B, Kuzikov, M, Wolf, M, Zhang, L, Ehrt, C, Pletzer-Zelgert, J, Wollenhaupt, J, Feiler, C, Weiss, M, Schluenzen, F, Schulz, E.C, Mehrabi, P, Norton-Baker, B, Schmidt, C, Lorenzen, K, Schubert, R, Sun, X, Han, H, Chari, A, Fernandez Garcia, Y, Turk, D, Hilgenfeld, R, Rarey, M, Zaliani, A, Chapman, H.N, Pearson, A, Betzel, C, Meents, A.
Deposit date:	2021-02-05
Release date:	2021-03-03
Last modified:	2024-11-13
Method:	X-RAY DIFFRACTION (1.7 Å)
Cite:	X-ray screening identifies active site and allosteric inhibitors of SARS-CoV-2 main protease. Science, 372, 2021

5ROB

PanDDA analysis group deposition of ground-state model of SARS-CoV-2 helicase
Descriptor:	Helicase, PHOSPHATE ION, ZINC ION
Authors:	Newman, J.A, Yosaatmadja, Y, Douangamath, A, Aimon, A, Powell, A.J, Dias, A, Fearon, D, Dunnett, L, Brandao-Neto, J, Krojer, T, Skyner, R, Gorrie-Stone, T, Thompson, W, von Delft, F, Arrowsmith, C.H, Edwards, A, Bountra, C, Gileadi, O.
Deposit date:	2020-09-22
Release date:	2021-03-10
Last modified:	2024-03-06
Method:	X-RAY DIFFRACTION (1.87 Å)
Cite:	PanDDA analysis group deposition of ground-state model To Be Published

7CZP

S protein of SARS-CoV-2 in complex bound with P2B-1A1
Descriptor:	2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, IG c181_light_IGLV2-14_IGLJ3,IGL@ protein, ...
Authors:	Yan, R.H, Zhang, Y.Y, Li, Y.N, Zhou, Q.
Deposit date:	2020-09-09
Release date:	2021-03-10
Last modified:	2024-10-16
Method:	ELECTRON MICROSCOPY (3 Å)
Cite:	Structural basis for bivalent binding and inhibition of SARS-CoV-2 infection by human potent neutralizing antibodies. Cell Res., 31, 2021

7CZQ

S protein of SARS-CoV-2 in complex bound with P2B-1A10
Descriptor:	2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, IG c642_heavy_IGHV3-53_IGHD1-26_IGHJ6,Chain H of P2B-1A10,Immunoglobulin gamma-1 heavy chain, ...
Authors:	Yan, R.H, Zhang, Y.Y, Li, Y.N, Zhou, Q.
Deposit date:	2020-09-09
Release date:	2021-03-10
Last modified:	2024-10-23
Method:	ELECTRON MICROSCOPY (2.8 Å)
Cite:	Structural basis for bivalent binding and inhibition of SARS-CoV-2 infection by human potent neutralizing antibodies. Cell Res., 31, 2021

7CZR

S protein of SARS-CoV-2 in complex bound with P5A-1B8_2B
Descriptor:	2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, IG c542_heavy_IGHV3-53_IGHD3-10_IGHJ6,IGH@ protein, ...
Authors:	Yan, R.H, Zhang, Y.Y, Li, Y.N, Zhou, Q.
Deposit date:	2020-09-09
Release date:	2021-03-10
Last modified:	2024-10-30
Method:	ELECTRON MICROSCOPY (3.5 Å)
Cite:	Structural basis for bivalent binding and inhibition of SARS-CoV-2 infection by human potent neutralizing antibodies. Cell Res., 31, 2021

7CZS

S protein of SARS-CoV-2 in complex bound with P5A-1B8_3B
Descriptor:	2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, IG c542_heavy_IGHV3-53_IGHD3-10_IGHJ6,IGH@ protein, ...
Authors:	Yan, R.H, Zhang, Y.Y, Li, Y.N, Zhou, Q.
Deposit date:	2020-09-09
Release date:	2021-03-10
Last modified:	2021-05-19
Method:	ELECTRON MICROSCOPY (3.6 Å)
Cite:	Structural basis for bivalent binding and inhibition of SARS-CoV-2 infection by human potent neutralizing antibodies. Cell Res., 31, 2021

7CZT

S protein of SARS-CoV-2 in complex bound with P5A-2G9
Descriptor:	2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, IG c689_light_IGLV5-37_IGLJ3,IGL@ protein, ...
Authors:	Yan, R.H, Zhang, Y.Y, Li, Y.N, Zhou, Q.
Deposit date:	2020-09-09
Release date:	2021-03-10
Last modified:	2024-11-06
Method:	ELECTRON MICROSCOPY (2.7 Å)
Cite:	Structural basis for bivalent binding and inhibition of SARS-CoV-2 infection by human potent neutralizing antibodies. Cell Res., 31, 2021

7CZU

S protein of SARS-CoV-2 in complex bound with P5A-1B6_2B
Descriptor:	2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Immunoglobulin heavy variable 3-30-3,Immunoglobulin heavy variable 3-30-3,Chain H of P5A-1B6_2B,Immunoglobulin gamma-1 heavy chain,Immunoglobulin gamma-1 heavy chain, ...
Authors:	Yan, R.H, Zhang, Y.Y, Li, Y.N, Zhou, Q.
Deposit date:	2020-09-09
Release date:	2021-03-10
Last modified:	2024-10-23
Method:	ELECTRON MICROSCOPY (3.4 Å)
Cite:	Structural basis for bivalent binding and inhibition of SARS-CoV-2 infection by human potent neutralizing antibodies. Cell Res., 31, 2021

7CZV

S protein of SARS-CoV-2 in complex bound with P5A-1B6_3B
Descriptor:	2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Immunoglobulin heavy variable 3-30-3,chain H of P5A-1B6_3B,Immunoglobulin gamma-1 heavy chain, ...
Authors:	Yan, R.H, Zhang, Y.Y, Li, Y.N, Zhou, Q.
Deposit date:	2020-09-09
Release date:	2021-03-10
Last modified:	2024-10-09
Method:	ELECTRON MICROSCOPY (3.3 Å)
Cite:	Structural basis for bivalent binding and inhibition of SARS-CoV-2 infection by human potent neutralizing antibodies. Cell Res., 31, 2021

7CZW

S protein of SARS-CoV-2 in complex bound with P5A-2G7
Descriptor:	2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, IGL c2312_light_IGLV2-14_IGLJ2,IGL@ protein, ...
Authors:	Yan, R.H, Zhang, Y.Y, Li, Y.N, Zhou, Q.
Deposit date:	2020-09-09
Release date:	2021-03-10
Last modified:	2024-10-16
Method:	ELECTRON MICROSCOPY (2.8 Å)
Cite:	Structural basis for bivalent binding and inhibition of SARS-CoV-2 infection by human potent neutralizing antibodies. Cell Res., 31, 2021

7CZX

S protein of SARS-CoV-2 in complex bound with P5A-1B9
Descriptor:	2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, IG c168_light_IGKV4-1_IGKJ4,Uncharacterized protein, ...
Authors:	Yan, R.H, Zhang, Y.Y, Li, Y.N, Zhou, Q.
Deposit date:	2020-09-09
Release date:	2021-03-10
Last modified:	2024-11-13
Method:	ELECTRON MICROSCOPY (2.8 Å)
Cite:	Structural basis for bivalent binding and inhibition of SARS-CoV-2 infection by human potent neutralizing antibodies. Cell Res., 31, 2021

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Displayed results:	25
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