COVID-19特輯

冠狀病毒，2020. 由David S. Goodsell @ RCSB PDB原圖修改

最近爆發的新型冠狀病毒傳染病（Novel Coronavirus disease 2019: COVID-19）對全世界的人們都構成了嚴重威脅。為了儘早了解新病毒（Severe Acute Respiratory Syndrome Coronavirus 2: SARS-CoV-2）以開發出有效的抗病毒藥物，已經有很多科研人員開始了相關蛋白結構的研究，並且將所獲得結構數據存儲與PDB。 PDBj為用戶提供了COVID-19相關數據一覽的門戶頁面，並將於每週三更新當日新發佈的相關數據。

有關該病毒蛋白質的解說，請參見下面的“當月的分子”頁面。

“所有結構”標籤的頁面則逐一羅列了所有的數據，包括由同一研究組提交的系列數據群。 “代表性結構”標籤的頁面精選具有相同胺基酸序列的結構數據中的高分辨率數據，不重複選擇具有同一胺基酸序列的數據，即使該數據可能包含不同的配體。 “最新條目”標籤內包含本週新更新數據。

Created: 2020-09-03 (last edited: more than 1 year ago)

所有結構 (5197)代表性結構 (2266)最新條目 (44)

9FCM

Single-domain antibody binding the SARS-COV2 S2
Descriptor:	CHLORIDE ION, Single-domain antibody R3DC23, Spike protein S2'
Authors:	Vann Molle, I, Remaut, H.
Deposit date:	2024-05-15
Release date:	2025-05-21
Last modified:	2025-06-11
Method:	X-RAY DIFFRACTION (1.94 Å)
Cite:	Ultrapotent SARS coronavirus-neutralizing single-domain antibodies that clamp the spike at its base. Nat Commun, 16, 2025

9UJ2

14-3-3 zeta chimera with the S202R peptide of SARS-CoV-2 N (residues 200-213)
Descriptor:	1,2-ETHANEDIOL, 14-3-3 protein zeta/delta,Peptide from Nucleoprotein, DI(HYDROXYETHYL)ETHER
Authors:	Boyko, K.M, Matyuta, I.O, Minyaev, M.E, Perfilova, K.V, Sluchanko, N.N.
Deposit date:	2025-04-16
Release date:	2025-05-21
Method:	X-RAY DIFFRACTION (1.8 Å)
Cite:	High-resolution structure reveals enhanced 14-3-3 binding by a mutant SARS-CoV-2 nucleoprotein variant with improved replicative fitness. Biochem.Biophys.Res.Commun., 767, 2025

9ELE

Cryo-EM structure of SARS-CoV-2 Omicron KP.3.1.1 RBD in complex with human ACE2 (local refinement of RBD and hACE2)
Descriptor:	2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Processed angiotensin-converting enzyme 2, ...
Authors:	Feng, Z, Huang, J, Ward, A.B.
Deposit date:	2024-12-04
Release date:	2025-05-28
Method:	ELECTRON MICROSCOPY (3.16 Å)
Cite:	Structure of SARS-CoV-2 KP.3.1.1 Spike Protein To Be Published

9ELF

Cryo-EM structure of SARS-CoV-2 Omicron KP.3.1.1 spike protein in complex with human ACE2
Descriptor:	2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Processed angiotensin-converting enzyme 2, ...
Authors:	Feng, Z, Huang, J, Ward, A.B.
Deposit date:	2024-12-04
Release date:	2025-05-28
Method:	ELECTRON MICROSCOPY (2.88 Å)
Cite:	Structure of SARS-CoV-2 KP.3.1.1 Spike Protein To Be Published

9ELG

Cryo-EM structure of SARS-CoV-2 Omicron KP.3.1.1 spike RBD and NTD (local refinement of RBD and NTD)
Descriptor:	2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Spike protein S1
Authors:	Feng, Z, Huang, J, Ward, A.B.
Deposit date:	2024-12-04
Release date:	2025-05-28
Method:	ELECTRON MICROSCOPY (3.71 Å)
Cite:	Structure of SARS-CoV-2 KP.3.1.1 Spike Protein To Be Published

9ELH

Cryo-EM structure of SARS-CoV-2 Omicron KP.3.1.1 spike protein (one RBD up state)
Descriptor:	2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Spike glycoprotein, ...
Authors:	Feng, Z, Huang, J, Ward, A.B.
Deposit date:	2024-12-04
Release date:	2025-05-28
Method:	ELECTRON MICROSCOPY (2.98 Å)
Cite:	Structure of SARS-CoV-2 KP.3.1.1 Spike Protein To Be Published

9ELI

Cryo-EM structure of SARS-CoV-2 Omicron KP.3.1.1 spike protein (closed state)
Descriptor:	2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Spike glycoprotein, ...
Authors:	Feng, Z, Huang, J, Ward, A.B.
Deposit date:	2024-12-04
Release date:	2025-05-28
Method:	ELECTRON MICROSCOPY (2.82 Å)
Cite:	Structure of SARS-CoV-2 KP.3.1.1 Spike Protein To Be Published

9ELN

Cryo-EM structure of SARS-CoV-2 Omicron JN.1.11+S31 deletion spike protein (one RBD up state)
Descriptor:	2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Spike glycoprotein, ...
Authors:	Feng, Z, Huang, J, Ward, A.B.
Deposit date:	2024-12-04
Release date:	2025-05-28
Method:	ELECTRON MICROSCOPY (2.93 Å)
Cite:	Structure of SARS-CoV-2 KP.3.1.1 Spike Protein To Be Published

9ELO

Cryo-EM structure of SARS-CoV-2 Omicron JN.1.11+S31 deletion spike protein (closed state)
Descriptor:	2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Spike glycoprotein, ...
Authors:	Feng, Z, Huang, J, Ward, A.B.
Deposit date:	2024-12-04
Release date:	2025-05-28
Method:	ELECTRON MICROSCOPY (2.74 Å)
Cite:	Structure of SARS-CoV-2 KP.3.1.1 Spike Protein To Be Published

9ELP

Cryo-EM structure of SARS-CoV-2 Omicron JN.1.11.1+S31 deletion spike protein (one RBD up state)
Descriptor:	2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Spike glycoprotein, ...
Authors:	Feng, Z, Huang, J, Ward, A.B.
Deposit date:	2024-12-04
Release date:	2025-05-28
Method:	ELECTRON MICROSCOPY (2.94 Å)
Cite:	Structure of SARS-CoV-2 KP.3.1.1 Spike Protein To Be Published

9ELQ

Cryo-EM structure of SARS-CoV-2 Omicron JN.1.11.1+S31 deletion spike protein (closed state)
Descriptor:	2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Spike glycoprotein, ...
Authors:	Feng, Z, Huang, J, Ward, A.B.
Deposit date:	2024-12-04
Release date:	2025-05-28
Method:	ELECTRON MICROSCOPY (2.64 Å)
Cite:	Structure of SARS-CoV-2 KP.3.1.1 Spike Protein To Be Published

9HH5

Crystal Structure of nsp15 Endoribonuclease from SARS CoV-2 in Complex with Sepantronium (YM-155)
Descriptor:	1-(2-methoxyethyl)-2-methyl-3-(pyrazin-2-ylmethyl)benzo[f]benzimidazol-3-ium-4,9-dione, 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, Nsp15 - Uridylate-specific endoribonuclease, ...
Authors:	Chatziefthymiou, S.D, Kolbe, M, Hakanpaeae, J, Labahn, J, Windshuegel, B.
Deposit date:	2024-11-21
Release date:	2025-05-28
Method:	X-RAY DIFFRACTION (2.08 Å)
Cite:	Identification, validation, and characterization of approved and investigational drugs interfering with the SARS-CoV-2 endoribonuclease Nsp15. Protein Sci., 34, 2025

9HH6

Crystal Structure of Nsp15 Endoribonuclease from SARS CoV-2 in Complex with TAS-103
Descriptor:	1,2-ETHANEDIOL, 6-[2-(dimethylamino)ethylamino]-3-oxidanyl-indeno[2,1-c]quinolin-7-one, ORF1ab polyprotein, ...
Authors:	Chatziefthymiou, S.D, Kolbe, M, Hakanpaeae, J, Labahn, J, Windshuegel, B.
Deposit date:	2024-11-21
Release date:	2025-05-28
Method:	SOLUTION SCATTERING (2 Å), X-RAY DIFFRACTION
Cite:	Identification, validation, and characterization of approved and investigational drugs interfering with the SARS-CoV-2 endoribonuclease Nsp15. Protein Sci., 34, 2025

9IZB

Crystal structure of SARS-CoV-2 main protease in complex with TMP1
Descriptor:	3C-like proteinase nsp5, TMP1
Authors:	Deng, X.Y, Zeng, R, Yang, S.Y, Lei, J.
Deposit date:	2024-08-01
Release date:	2025-05-28
Method:	X-RAY DIFFRACTION (2.6 Å)
Cite:	Crystal structure of SARS-CoV-2 main protease in complex with TMP1 To Be Published

9ELJ

Cryo-EM structure of SARS-CoV-2 Omicron JN.1.11+Q493E+S31deletion spike protein (one RBD up state)
Descriptor:	2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Spike glycoprotein, ...
Authors:	Feng, Z, Huang, J, Ward, A.B.
Deposit date:	2024-12-04
Release date:	2025-06-04
Method:	ELECTRON MICROSCOPY (2.92 Å)
Cite:	Structure of SARS-CoV-2 KP.3.1.1 Spike Protein To Be Published

9ELK

Cryo-EM structure of SARS-CoV-2 Omicron JN.1.11+Q493E+S31deletion spike protein (closed state)
Descriptor:	2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Spike glycoprotein, ...
Authors:	Feng, Z, Huang, J, Ward, A.B.
Deposit date:	2024-12-04
Release date:	2025-06-04
Method:	ELECTRON MICROSCOPY (2.82 Å)
Cite:	Structure of SARS-CoV-2 KP.3.1.1 Spike Protein To Be Published

9ELL

Cryo-EM structure of SARS-CoV-2 Omicron JN.1.11 spike protein (one RBD up state)
Descriptor:	2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Spike glycoprotein, ...
Authors:	Feng, Z, Huang, J, Ward, A.B.
Deposit date:	2024-12-04
Release date:	2025-06-04
Method:	ELECTRON MICROSCOPY (2.93 Å)
Cite:	Structure of SARS-CoV-2 KP.3.1.1 Spike Protein To Be Published

9ELM

Cryo-EM structure of SARS-CoV-2 Omicron JN.1.11 spike protein (closed state)
Descriptor:	2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Spike glycoprotein, ...
Authors:	Feng, Z, Huang, J, Ward, A.B.
Deposit date:	2024-12-04
Release date:	2025-06-04
Method:	ELECTRON MICROSCOPY (2.68 Å)
Cite:	Structure of SARS-CoV-2 KP.3.1.1 Spike Protein To Be Published

9ML4

Structure of the SARS-CoV-2 Spike 6P in complex with the rabbit M8b-A10 Fab
Descriptor:	2-acetamido-2-deoxy-beta-D-glucopyranose, M8b-A10 heavy chain, M8b-A10 light chain, ...
Authors:	Fan, C, Bjorkman, P.J.
Deposit date:	2024-12-18
Release date:	2025-06-04
Method:	ELECTRON MICROSCOPY (3.3 Å)
Cite:	Cross-reactive sarbecovirus antibodies induced by mosaic RBD nanoparticles. Proc.Natl.Acad.Sci.USA, 122, 2025

9ML5

Structure of the SARS-CoV-2 Spike 6P in complex with the rabbit M8b-B8 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, M8b-B8 heavy chain, ...
Authors:	Fan, C, Bjorkman, P.J.
Deposit date:	2024-12-18
Release date:	2025-06-04
Method:	ELECTRON MICROSCOPY (3.4 Å)
Cite:	Cross-reactive sarbecovirus antibodies induced by mosaic RBD nanoparticles. Proc.Natl.Acad.Sci.USA, 122, 2025

9ML6

Structure of the SARS-CoV-2 Spike 6P in complex with the rabbit M8b-C9 Fab
Descriptor:	2-acetamido-2-deoxy-beta-D-glucopyranose, M8b-C9 heavy chain, M8b-C9 light chain, ...
Authors:	Fan, C, Bjorkman, P.J.
Deposit date:	2024-12-18
Release date:	2025-06-04
Method:	ELECTRON MICROSCOPY (3.5 Å)
Cite:	Cross-reactive sarbecovirus antibodies induced by mosaic RBD nanoparticles. Proc.Natl.Acad.Sci.USA, 122, 2025

9ML7

Structure of the SARS-CoV-2 Spike 6P in complex with the rabbit M8b-C10 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, M8b-C10 heavy chain, ...
Authors:	Fan, C, Bjorkman, P.J.
Deposit date:	2024-12-18
Release date:	2025-06-04
Method:	ELECTRON MICROSCOPY (3.2 Å)
Cite:	Cross-reactive sarbecovirus antibodies induced by mosaic RBD nanoparticles. Proc.Natl.Acad.Sci.USA, 122, 2025

9ML8

Crystal structure of the SARS-CoV-2 RBD in complex with the rabbit M8b-B1 Fab
Descriptor:	2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, M8b-B1 heavy chain, M8b-B1 light chain, ...
Authors:	Fan, C, Bjorkman, P.J.
Deposit date:	2024-12-18
Release date:	2025-06-04
Method:	X-RAY DIFFRACTION (2.4 Å)
Cite:	Cross-reactive sarbecovirus antibodies induced by mosaic RBD nanoparticles. Proc.Natl.Acad.Sci.USA, 122, 2025

9ML9

Crystal structure of the SARS-CoV-2 RBD in complex with the rabbit M8b-C9 Fab
Descriptor:	2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, 2-acetamido-2-deoxy-beta-D-glucopyranose, M8b-C9 heavy chain, ...
Authors:	Fan, C, Bjorkman, P.J.
Deposit date:	2024-12-18
Release date:	2025-06-04
Method:	X-RAY DIFFRACTION (2.59 Å)
Cite:	Cross-reactive sarbecovirus antibodies induced by mosaic RBD nanoparticles. Proc.Natl.Acad.Sci.USA, 122, 2025

9MRU

Structural Asymmetry in SARS-CoV-2 Nsp15 Hexamer Important for Catalytic Activity
Descriptor:	Uridylate-specific endoribonuclease nsp15
Authors:	Ketawala, G.K, Sonowal, M, Schrag, L, Fromme, R, Botha, S, Fromme, P.
Deposit date:	2025-01-08
Release date:	2025-06-04
Method:	X-RAY DIFFRACTION (3 Å)
Cite:	Structural Asymmetry in SARS-CoV-2 Nsp15 Hexamer Important for Catalytic Activity To Be Published

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