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COVID-19特輯

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冠狀病毒
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)2022-09-02
9FCM
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BU of 9fcm by Molmil
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
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BU of 9uj2 by Molmil
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
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BU of 9ele by Molmil
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
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BU of 9elf by Molmil
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
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BU of 9elg by Molmil
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
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BU of 9elh by Molmil
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
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BU of 9eli by Molmil
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
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BU of 9eln by Molmil
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
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BU of 9elo by Molmil
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
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BU of 9elp by Molmil
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
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BU of 9elq by Molmil
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
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BU of 9hh5 by Molmil
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
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BU of 9hh6 by Molmil
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
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BU of 9izb by Molmil
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
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BU of 9elj by Molmil
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
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BU of 9elk by Molmil
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
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BU of 9ell by Molmil
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
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BU of 9elm by Molmil
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
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BU of 9ml4 by Molmil
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
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BU of 9ml5 by Molmil
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
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BU of 9ml6 by Molmil
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
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BU of 9ml7 by Molmil
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
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BU of 9ml8 by Molmil
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
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BU of 9ml9 by Molmil
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
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BU of 9mru by Molmil
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

238582

數據於2025-07-09公開中

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