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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
7W6U
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BU of 7w6u by Molmil
Structure of SARS-CoV-2 spike receptor-binding domain complexed with its receptor equine ACE2
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, Angiotensin-converting enzyme, Spike protein S1, ...
Authors:Xu, Z.P, Liu, K.F, Han, P, Qi, J.X.
Deposit date:2021-12-02
Release date:2022-06-08
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.56 Å)
Cite:Binding and structural basis of equine ACE2 to RBDs from SARS-CoV, SARS-CoV-2 and related coronaviruses
Nat Commun, 13, 2022
7WRI
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BU of 7wri by Molmil
Cryo-EM structure of SARS-CoV-2 Omicron spike receptor-binding domain in complex with mouse ACE2
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, Processed angiotensin-converting enzyme 2, Spike glycoprotein, ...
Authors:Han, P, Xie, Y, Qi, J.
Deposit date:2022-01-26
Release date:2022-06-08
Last modified:2022-12-21
Method:ELECTRON MICROSCOPY (3.03 Å)
Cite:Broader-species receptor binding and structural bases of Omicron SARS-CoV-2 to both mouse and palm-civet ACE2s.
Cell Discov, 8, 2022
7WSK
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BU of 7wsk by Molmil
Crystal structure of SARS-CoV-2 Omicron spike receptor-binding domain in complex with civet ACE2
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, Processed angiotensin-converting enzyme 2, Spike protein S1, ...
Authors:Huang, B, Han, P, Qi, J.
Deposit date:2022-01-29
Release date:2022-06-08
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (3.3 Å)
Cite:Broader-species receptor binding and structural bases of Omicron SARS-CoV-2 to both mouse and palm-civet ACE2s.
Cell Discov, 8, 2022
7XBY
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BU of 7xby by Molmil
The crystal structure of SARS-CoV-2 Omicron BA.1 variant RBD in complex with equine ACE2
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, Angiotensin-converting enzyme, BROMIDE ION, ...
Authors:Xu, Z.P, Liu, K.F, Han, P, Qi, J.X.
Deposit date:2022-03-22
Release date:2022-06-08
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.85 Å)
Cite:Binding and structural basis of equine ACE2 to RBDs from SARS-CoV, SARS-CoV-2 and related coronaviruses.
Nat Commun, 13, 2022
7ZF4
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BU of 7zf4 by Molmil
SARS-CoV-2 Omicron RBD in complex with Omi-9 Fab and nanobody F2
Descriptor: Nanobody F2, Omi-9 heavy chain, Omi-9 light chain, ...
Authors:Zhou, D, Huo, J, Ren, J, Stuart, D.I.
Deposit date:2022-04-01
Release date:2022-06-08
Last modified:2024-01-31
Method:X-RAY DIFFRACTION (4.18 Å)
Cite:Potent cross-reactive antibodies following Omicron breakthrough in vaccinees.
Cell, 185, 2022
7F0X
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BU of 7f0x by Molmil
A SARS-CoV-2 neutralizing antibody
Descriptor: Antibody, Spike protein S1
Authors:Zhang, G, Li, X, Guo, Y, Wang, Y, Yuan, S.
Deposit date:2021-06-07
Release date:2022-06-15
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:A SARS-CoV-2 neutralizing antibody
To Be Published
7F12
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BU of 7f12 by Molmil
A SARS-CoV-2 neutralizing antibody
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, Antibody, Spike protein S1
Authors:Zhang, G, Li, X, Guo, Y, Wang, Y, Yuan, S.
Deposit date:2021-06-07
Release date:2022-06-15
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (3.15 Å)
Cite:A SARS-CoV-2 neutralizing antibody
To Be Published
7F15
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BU of 7f15 by Molmil
A SARS-CoV-2 neutralizing antibody
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, Antibody, Spike protein S1
Authors:Zhang, G, Li, X, Guo, Y, Wang, Y, Yuan, S.
Deposit date:2021-06-07
Release date:2022-06-15
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.65 Å)
Cite:A SARS-CoV-2 neutralizing antibody
To Be Published
7F7H
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BU of 7f7h by Molmil
SARS-CoV-2 S protein RBD in complex with A8-1 Fab
Descriptor: Heavy chain of A8-1 Fab, Light chain of A8-1 Fab, Spike glycoprotein S1
Authors:Dou, Y, Wang, X, Wang, K, Liu, P, Lu, B.
Deposit date:2021-06-29
Release date:2022-06-15
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (3.19 Å)
Cite:High throughput isolation of potent neutralizing antibodies from convalescent COVID-19 patients.
To Be Published
7FCP
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BU of 7fcp by Molmil
Crystallographic structure of two neutralizing antibodies in complex with SARS-CoV-2 spike receptor-binding Domain (RBD)
Descriptor: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, 2-acetamido-2-deoxy-beta-D-glucopyranose, GLYCEROL, ...
Authors:Zheng, P, Jin, T.
Deposit date:2021-07-15
Release date:2022-06-15
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Ultrapotent neutralizing antibodies against SARS-CoV-2 with a high degree of mutation resistance.
J.Clin.Invest., 132, 2022
7FCQ
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BU of 7fcq by Molmil
Crystallographic structure of neutralizing antibody P14-44 in complex with SARS-CoV-2 spike receptor-binding Domain (RBD)
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, GLYCEROL, P14-44 antibody Fab fragment heavy chain, ...
Authors:Zheng, P, Jin, T.
Deposit date:2021-07-15
Release date:2022-06-15
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.89 Å)
Cite:Ultrapotent neutralizing antibodies against SARS-CoV-2 with a high degree of mutation resistance.
J.Clin.Invest., 132, 2022
7WHC
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BU of 7whc by Molmil
Crystal structure of SARS-CoV-2 3CLpro catalytic domain
Descriptor: 3C-like proteinase nsp5
Authors:Shin, D.H, Jo, S.R.
Deposit date:2021-12-30
Release date:2022-06-15
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.269 Å)
Cite:Dimerization Tendency of 3CLpros of Human Coronaviruses Based on the X-ray Crystal Structure of the Catalytic Domain of SARS-CoV-2 3CLpro.
Int J Mol Sci, 23, 2022
7XIC
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BU of 7xic by Molmil
S-ECD (Omicron) in complex with STS165
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:Li, Y.N, Shen, Y.P, Zhang, Y.Y, Yan, R.H.
Deposit date:2022-04-12
Release date:2022-06-15
Last modified:2022-06-22
Method:ELECTRON MICROSCOPY (3.3 Å)
Cite:Structural and functional analysis of an inter-Spike bivalent neutralizing antibody against SARS-CoV-2 variants.
Iscience, 25, 2022
7XID
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BU of 7xid by Molmil
S-ECD (Omicron) in complex with PD of 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, Angiotensin-converting enzyme 2, ...
Authors:Li, Y.N, Shen, Y.P, Zhang, Y.Y, Yan, R.H.
Deposit date:2022-04-12
Release date:2022-06-15
Last modified:2022-06-22
Method:ELECTRON MICROSCOPY (3.3 Å)
Cite:Structural and functional analysis of an inter-Spike bivalent neutralizing antibody against SARS-CoV-2 variants.
Iscience, 25, 2022
7XO4
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BU of 7xo4 by Molmil
SARS-CoV-2 Omicron BA.1 Variant Spike Trimer with two mouse ACE2 Bound
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, Angiotensin-converting enzyme 2, Spike glycoprotein, ...
Authors:Xu, Y, Wu, C, Liu, H, Yin, W, Xu, H.E.
Deposit date:2022-04-30
Release date:2022-06-15
Last modified:2022-07-13
Method:ELECTRON MICROSCOPY (3.24 Å)
Cite:Structural and biochemical mechanism for increased infectivity and immune evasion of Omicron BA.2 variant compared to BA.1 and their possible mouse origins.
Cell Res., 32, 2022
7XO5
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BU of 7xo5 by Molmil
SARS-CoV-2 Omicron BA.1 Variant Spike Trimer with one mouse ACE2 Bound
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, Angiotensin-converting enzyme 2, Spike glycoprotein, ...
Authors:Xu, Y, Wu, C, Liu, H, Yin, W, Xu, H.E.
Deposit date:2022-05-01
Release date:2022-06-15
Last modified:2022-07-13
Method:ELECTRON MICROSCOPY (3.13 Å)
Cite:Structural and biochemical mechanism for increased infectivity and immune evasion of Omicron BA.2 variant compared to BA.1 and their possible mouse origins.
Cell Res., 32, 2022
7XO6
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BU of 7xo6 by Molmil
SARS-CoV-2 Omicron BA.1 Variant RBD with mouse ACE2 Bound
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Angiotensin-converting enzyme 2, ...
Authors:Xu, Y, Wu, C, Liu, H, Yin, W, Xu, H.E.
Deposit date:2022-05-01
Release date:2022-06-15
Last modified:2022-07-13
Method:ELECTRON MICROSCOPY (2.6 Å)
Cite:Structural and biochemical mechanism for increased infectivity and immune evasion of Omicron BA.2 variant compared to BA.1 and their possible mouse origins.
Cell Res., 32, 2022
7XO7
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BU of 7xo7 by Molmil
SARS-CoV-2 Omicron BA.2 Variant Spike Trimer with two human ACE2 Bound
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, Angiotensin-converting enzyme 2, CHLORIDE ION, ...
Authors:Xu, Y, Wu, C, Liu, H, Yin, W, Xu, H.E.
Deposit date:2022-05-01
Release date:2022-06-15
Last modified:2022-07-13
Method:ELECTRON MICROSCOPY (3.38 Å)
Cite:Structural and biochemical mechanism for increased infectivity and immune evasion of Omicron BA.2 variant compared to BA.1 and their possible mouse origins.
Cell Res., 32, 2022
7XO8
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BU of 7xo8 by Molmil
SARS-CoV-2 Omicron BA.2 Variant Spike Trimer with three human ACE2 Bound
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, Angiotensin-converting enzyme 2, CHLORIDE ION, ...
Authors:Xu, Y, Wu, C, Liu, H, Yin, W, Xu, H.E.
Deposit date:2022-05-01
Release date:2022-06-15
Last modified:2022-07-13
Method:ELECTRON MICROSCOPY (3.48 Å)
Cite:Structural and biochemical mechanism for increased infectivity and immune evasion of Omicron BA.2 variant compared to BA.1 and their possible mouse origins.
Cell Res., 32, 2022
7XO9
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BU of 7xo9 by Molmil
SARS-CoV-2 Omicron BA.2 Variant RBD complexed with human ACE2
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, Angiotensin-converting enzyme 2, CHLORIDE ION, ...
Authors:Xu, Y, Wu, C, Liu, H, Yin, W, Xu, H.E.
Deposit date:2022-05-01
Release date:2022-06-15
Last modified:2022-07-13
Method:ELECTRON MICROSCOPY (3 Å)
Cite:Structural and biochemical mechanism for increased infectivity and immune evasion of Omicron BA.2 variant compared to BA.1 and their possible mouse origins.
Cell Res., 32, 2022
7XOA
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BU of 7xoa by Molmil
SARS-CoV-2 Omicron BA.2 Variant Spike Trimer with one mouse ACE2 Bound
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, Angiotensin-converting enzyme 2, Spike glycoprotein, ...
Authors:Xu, Y, Wu, C, Liu, H, Yin, W, Xu, H.E.
Deposit date:2022-05-01
Release date:2022-06-15
Last modified:2022-07-13
Method:ELECTRON MICROSCOPY (3.2 Å)
Cite:Structural and biochemical mechanism for increased infectivity and immune evasion of Omicron BA.2 variant compared to BA.1 and their possible mouse origins.
Cell Res., 32, 2022
7XOB
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BU of 7xob by Molmil
SARS-CoV-2 Omicron BA.2 Variant Spike Trimer with two mouse ACE2 Bound
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, Angiotensin-converting enzyme 2, Spike glycoprotein, ...
Authors:Xu, Y, Wu, C, Liu, H, Yin, W, Xu, H.E.
Deposit date:2022-05-01
Release date:2022-06-15
Last modified:2022-07-13
Method:ELECTRON MICROSCOPY (3.3 Å)
Cite:Structural and biochemical mechanism for increased infectivity and immune evasion of Omicron BA.2 variant compared to BA.1 and their possible mouse origins.
Cell Res., 32, 2022
7XOC
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BU of 7xoc by Molmil
SARS-CoV-2 Omicron BA.2 Variant RBD complexed with mouse 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, Angiotensin-converting enzyme 2, ...
Authors:Xu, Y, Wu, C, Liu, H, Yin, W, Xu, H.E.
Deposit date:2022-05-01
Release date:2022-06-15
Last modified:2022-07-13
Method:ELECTRON MICROSCOPY (3 Å)
Cite:Structural and biochemical mechanism for increased infectivity and immune evasion of Omicron BA.2 variant compared to BA.1 and their possible mouse origins.
Cell Res., 32, 2022
7XOD
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BU of 7xod by Molmil
SARS-CoV-2 Omicron BA.2 Variant Spike Trimer with three JMB2002 Fab Bound
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Heavy chain of JMB2002 Fab, ...
Authors:Xu, Y, Wu, C, Liu, H, Yin, W, Xu, H.E.
Deposit date:2022-05-01
Release date:2022-06-15
Last modified:2022-07-13
Method:ELECTRON MICROSCOPY (3.27 Å)
Cite:Structural and biochemical mechanism for increased infectivity and immune evasion of Omicron BA.2 variant compared to BA.1 and their possible mouse origins.
Cell Res., 32, 2022
7F3Q
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BU of 7f3q by Molmil
SARS-CoV-2 RBD in complex with A5-10 Fab and A34-2 Fab
Descriptor: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, 2-acetamido-2-deoxy-beta-D-glucopyranose, Heavy chain of A34-2 Fab, ...
Authors:Dou, Y, Wang, X, Liu, P, Lu, B, Wang, K.
Deposit date:2021-06-16
Release date:2022-06-22
Last modified:2024-01-24
Method:ELECTRON MICROSCOPY (3.3 Å)
Cite:Development of neutralizing antibodies against SARS-CoV-2, using a high-throughput single-B-cell cloning method.
Antib Ther, 6, 2023

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數據於2024-07-10公開中

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