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COVID-19特辑

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冠状病毒
冠状病毒,2020. 由David S. Goodsell @ RCSB PDB原图修改

最近爆发的新型冠状病毒传染病(Novel Coronavirus disease 2019: COVID-19)对全世界的人们都构成了严重威胁。 为了尽早了解新病毒(Severe Acute Respiratory Syndrome Coronavirus 2: SARS-CoV-2)以开发出有效的抗病毒药物,已经有很多科研人員开始了相关蛋白结构的研究,并且将所获得的结构数据存储于PDB。 PDBj为用户提供了COVID-19相关数据一览的门户页面,并将于每周三更新当日新发布的相关数据。

有关该病毒蛋白质的解说,请参见下面的“当月的分子”页面。

“所有结构”标签的页面则逐一罗列了所有的结构数据,包括由同一研究组提交的系列数据群。 “代表性结构”标签的页面精选具有相同氨基酸序列的结构数据中的高分辨率数据,不重复选择具同一氨基酸序列的数据,即使该数据可能包含不同配体。 “最新条目”标签内包含本周新更新数据。


Created: 2020-09-03 (last edited: more than 1 year ago)2020-12-02
9EWH
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BU of 9ewh by Molmil
SARS-CoV-2 Nucleocapsid N-terminal domain (NTD) mutant Y109A
Descriptor: Nucleoprotein
Authors:Dhamotharan, K, Schlundt, A, Guenther, S.
Deposit date:2024-04-03
Release date:2024-11-20
Last modified:2024-12-18
Method:X-RAY DIFFRACTION (1.93 Å)
Cite:A core network in the SARS-CoV-2 nucleocapsid NTD mediates structural integrity and selective RNA-binding.
Nat Commun, 15, 2024
9EXB
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BU of 9exb by Molmil
SARS-CoV-2 Nucleocapsid N-terminal domain NTD
Descriptor: Nucleoprotein
Authors:Dhamotharan, K, Schlundt, A, Guenther, S.
Deposit date:2024-04-06
Release date:2024-11-20
Last modified:2024-12-18
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:A core network in the SARS-CoV-2 nucleocapsid NTD mediates structural integrity and selective RNA-binding.
Nat Commun, 15, 2024
9EZB
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BU of 9ezb by Molmil
SARS-CoV-2 Nucleocapsid N-terminal domain (NTD) mutant P67S
Descriptor: CHLORIDE ION, DI(HYDROXYETHYL)ETHER, Nucleoprotein
Authors:Dhamotharan, K, Schlundt, A, Guenther, S.
Deposit date:2024-04-11
Release date:2024-11-20
Last modified:2024-12-18
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:A core network in the SARS-CoV-2 nucleocapsid NTD mediates structural integrity and selective RNA-binding.
Nat Commun, 15, 2024
9F5J
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BU of 9f5j by Molmil
SARS-CoV-2 Nucleocapsid N-terminal domain (NTD) mutant Q58I
Descriptor: CADMIUM ION, Nucleoprotein
Authors:Dhamotharan, K, Schlundt, A.
Deposit date:2024-04-29
Release date:2024-11-20
Last modified:2024-12-18
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:A core network in the SARS-CoV-2 nucleocapsid NTD mediates structural integrity and selective RNA-binding.
Nat Commun, 15, 2024
9F5L
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BU of 9f5l by Molmil
SARS-CoV-2 Nucleocapsid N-terminal domain (NTD) mutant A119S
Descriptor: Nucleoprotein
Authors:Dhamotharan, K, Schlundt, A.
Deposit date:2024-04-29
Release date:2024-11-20
Last modified:2024-12-18
Method:X-RAY DIFFRACTION (2.363 Å)
Cite:A core network in the SARS-CoV-2 nucleocapsid NTD mediates structural integrity and selective RNA-binding.
Nat Commun, 15, 2024
9F7A
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BU of 9f7a by Molmil
SARS-CoV-2 Nucleocapsid N-terminal domain (NTD) mutant P80R
Descriptor: Nucleoprotein, ZINC ION
Authors:Dhamotharan, K, Schlundt, A.
Deposit date:2024-05-03
Release date:2024-11-20
Last modified:2024-12-18
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:A core network in the SARS-CoV-2 nucleocapsid NTD mediates structural integrity and selective RNA-binding.
Nat Commun, 15, 2024
9F7C
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BU of 9f7c by Molmil
SARS-CoV-2 Nucleocapsid N-terminal domain (NTD) mutant S105I
Descriptor: Nucleoprotein, ZINC ION
Authors:Dhamotharan, K, Schlundt, A.
Deposit date:2024-05-03
Release date:2024-11-20
Last modified:2024-12-18
Method:X-RAY DIFFRACTION (2 Å)
Cite:A core network in the SARS-CoV-2 nucleocapsid NTD mediates structural integrity and selective RNA-binding.
Nat Commun, 15, 2024
9F83
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BU of 9f83 by Molmil
SARS-CoV-2 Nucleocapsid N-terminal domain (NTD) mutant D63G
Descriptor: Nucleoprotein
Authors:Dhamotharan, K, Schlundt, A, Guenther, S.
Deposit date:2024-05-06
Release date:2024-11-20
Last modified:2024-12-18
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:A core network in the SARS-CoV-2 nucleocapsid NTD mediates structural integrity and selective RNA-binding.
Nat Commun, 15, 2024
9FBG
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BU of 9fbg by Molmil
SARS-CoV-2 Nucleocapsid N-terminal domain (NTD) mutant P151S
Descriptor: Nucleoprotein
Authors:Dhamotharan, K, Schlundt, A.
Deposit date:2024-05-13
Release date:2024-11-20
Last modified:2024-12-18
Method:X-RAY DIFFRACTION (2.54 Å)
Cite:A core network in the SARS-CoV-2 nucleocapsid NTD mediates structural integrity and selective RNA-binding.
Nat Commun, 15, 2024
8RJ7
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BU of 8rj7 by Molmil
The crystal structure of the SARS-CoV-2 receptor binding domain in complex with the neutralizing nanobody 1.29
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, Camel-derived nanobody 1.29, LYSINE, ...
Authors:Casasnovas, J.M, Fernandez, L.A, Silva, K.
Deposit date:2023-12-20
Release date:2024-11-27
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:The crystal structure of the SARS-CoV-2 receptor binding domain in complex with the neutralizing nanobody 1.29
To Be Published
8YKN
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BU of 8ykn by Molmil
Crystal structure of SARS-Cov-2 main protease K90R mutant in complex with X77
Descriptor: N-(4-tert-butylphenyl)-N-[(1R)-2-(cyclohexylamino)-2-oxo-1-(pyridin-3-yl)ethyl]-1H-imidazole-4-carboxamide, Non-structural protein 11
Authors:Wang, J, Zhang, J, Li, J.
Deposit date:2024-03-05
Release date:2024-11-27
Method:X-RAY DIFFRACTION (1.77 Å)
Cite:Crystal structures of coronaviral main proteases in complex with the non-covalent inhibitor X77.
Int.J.Biol.Macromol., 276, 2024
8YKP
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BU of 8ykp by Molmil
Crystal structure of SARS-Cov-2 main protease M49I mutant in complex with X77
Descriptor: 3C-like proteinase nsp5, N-(4-tert-butylphenyl)-N-[(1R)-2-(cyclohexylamino)-2-oxo-1-(pyridin-3-yl)ethyl]-1H-imidazole-4-carboxamide
Authors:Zou, X.F, Zhang, J, Li, J.
Deposit date:2024-03-05
Release date:2024-11-27
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Crystal structures of coronaviral main proteases in complex with the non-covalent inhibitor X77.
Int.J.Biol.Macromol., 276, 2024
9CRC
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BU of 9crc by Molmil
Cryo-EM structure of SARS-CoV-2 Spike Proteins on intact virions: B.1 variant 3 closed RBDs
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:Ke, Z, Croll, T.I, Briggs, J.A.G.
Deposit date:2024-07-22
Release date:2024-11-27
Last modified:2024-12-25
Method:ELECTRON MICROSCOPY (2.9 Å)
Cite:Virion morphology and on-virus spike protein structures of diverse SARS-CoV-2 variants.
Embo J., 43, 2024
9CRE
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BU of 9cre by Molmil
Cryo-EM structure of SARS-CoV-2 Spike Proteins on intact virions: Alpha (B.1.1.7) variant 3 closed RBDs
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:Ke, Z, Croll, T.I, Briggs, J.A.G.
Deposit date:2024-07-22
Release date:2024-11-27
Last modified:2024-12-25
Method:ELECTRON MICROSCOPY (3.2 Å)
Cite:Virion morphology and on-virus spike protein structures of diverse SARS-CoV-2 variants.
Embo J., 43, 2024
9CRG
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BU of 9crg by Molmil
Cryo-EM structure of SARS-CoV-2 Spike Proteins on intact virions: Gamma (P.1) variant 3 closed RBDs
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:Ke, Z, Kotecha, A, Briggs, J.A.G.
Deposit date:2024-07-22
Release date:2024-11-27
Last modified:2024-12-25
Method:ELECTRON MICROSCOPY (3.3 Å)
Cite:Virion morphology and on-virus spike protein structures of diverse SARS-CoV-2 variants.
Embo J., 43, 2024
9CRH
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BU of 9crh by Molmil
Cryo-EM structure of SARS-CoV-2 Spike Proteins on intact virions: Delta (B.1.617.2) variant 3 closed RBDs
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:Ke, Z, Briggs, J.A.G.
Deposit date:2024-07-22
Release date:2024-11-27
Last modified:2024-12-25
Method:ELECTRON MICROSCOPY (3.4 Å)
Cite:Virion morphology and on-virus spike protein structures of diverse SARS-CoV-2 variants.
Embo J., 43, 2024
9CRI
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BU of 9cri by Molmil
Cryo-EM structure of SARS-CoV-2 Spike Proteins on intact virions: Mu (B.1.621) variant 3 closed RBDs
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:Ke, Z, Briggs, J.A.G.
Deposit date:2024-07-22
Release date:2024-11-27
Last modified:2024-12-25
Method:ELECTRON MICROSCOPY (2.8 Å)
Cite:Virion morphology and on-virus spike protein structures of diverse SARS-CoV-2 variants.
Embo J., 43, 2024
8R6E
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BU of 8r6e by Molmil
SARS-CoV-2 Nucleocapsid dimerization domain
Descriptor: 1,2-ETHANEDIOL, DI(HYDROXYETHYL)ETHER, GLYCEROL, ...
Authors:Fahoum, J, Wiener, R, Rouvinski, A, Isupov, M.N.
Deposit date:2023-11-22
Release date:2024-12-04
Method:X-RAY DIFFRACTION (1.53 Å)
Cite:SARS-CoV-2 Nucleocapsid dimerization domain
To Be Published
8RNE
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BU of 8rne by Molmil
HLA-E*01:03 in complex with SARS-CoV-2 Nsp13 peptide, VMPLSAPTL
Descriptor: Beta-2-microglobulin, HLA class I histocompatibility antigen, E alpha chain variant, ...
Authors:Sun, R, Achour, A, Sala, B.M, Sandalova, T.
Deposit date:2024-01-09
Release date:2024-12-04
Last modified:2025-01-22
Method:X-RAY DIFFRACTION (1.71 Å)
Cite:Emerging mutation in SARS-CoV-2 facilitates escape from NK cell recognition and associates with enhanced viral fitness.
Plos Pathog., 20, 2024
8RNF
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BU of 8rnf by Molmil
HLA-E*01:03 in complex with SARS-CoV-2 Omicron Nsp13 peptide, VIPLSAPTL
Descriptor: Beta-2-microglobulin, HLA class I histocompatibility antigen, E alpha chain variant, ...
Authors:Sun, R, Achour, A, Sala, B.M, Sandalova, T.
Deposit date:2024-01-09
Release date:2024-12-04
Last modified:2025-01-22
Method:X-RAY DIFFRACTION (1.872 Å)
Cite:Emerging mutation in SARS-CoV-2 facilitates escape from NK cell recognition and associates with enhanced viral fitness.
Plos Pathog., 20, 2024
8USZ
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BU of 8usz by Molmil
Cryo-EM Structure of Full-Length Spike Protein of Omicron XBB.1.5
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:Huynh, K.W, Chang, J.S, Fennell, K.F, Che, Y, Wu, H.
Deposit date:2023-10-30
Release date:2024-12-04
Last modified:2025-05-21
Method:ELECTRON MICROSCOPY (2.98 Å)
Cite:Preclinical characterization of the Omicron XBB.1.5-adapted BNT162b2 COVID-19 vaccine.
Npj Vaccines, 9, 2024
8XKO
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BU of 8xko by Molmil
CryoEM structure of compound HNC-1664 bound with RdRP-RNA complex of SARS-CoV-2
Descriptor: MAGNESIUM ION, Non-structural protein 7, Non-structural protein 8, ...
Authors:Li, M, An, L, Hong, Y, Li, S, Zhang, K.
Deposit date:2023-12-23
Release date:2024-12-04
Last modified:2025-07-02
Method:ELECTRON MICROSCOPY (3.29 Å)
Cite:An adenosine analog shows high antiviral potency against coronavirus and arenavirus mainly through an unusual base pairing mode.
Nat Commun, 15, 2024
8YX5
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BU of 8yx5 by Molmil
Crystal Structure of SARS CoV-2 Papain-like Protease PLpro-C111S in Complex with GZNL-P35
Descriptor: 5-[(1~{R},5~{S})-3,6-diazabicyclo[3.1.1]heptan-3-yl]-2-methyl-~{N}-[1-(1-methyl-2-oxidanylidene-benzo[cd]indol-6-yl)cyclopropyl]benzamide, GLYCEROL, Papain-like protease nsp3, ...
Authors:Lu, Y, Shang, J.
Deposit date:2024-04-02
Release date:2024-12-04
Method:X-RAY DIFFRACTION (1.74 Å)
Cite:Discovery of orally bioavailable SARS-CoV-2 papain-like protease inhibitor as a potential treatment for COVID-19.
Nat Commun, 15, 2024
9B82
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BU of 9b82 by Molmil
Crystal structure of SARS-CoV-2 receptor binding domain in complex with neutralizing antibody COVA2-15
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, COVA2-15 antibody heavy chain, COVA2-15 antibody light chain, ...
Authors:Yuan, M, Zhu, X, Wilson, I.A.
Deposit date:2024-03-28
Release date:2024-12-04
Last modified:2025-01-08
Method:X-RAY DIFFRACTION (3.38 Å)
Cite:Plant-produced SARS-CoV-2 antibody engineered towards enhanced potency and in vivo efficacy.
Plant Biotechnol J, 23, 2025
8RBY
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BU of 8rby by Molmil
The crystal structure of the SARS-CoV-2 receptor binding domain in complex with the neutralizing nanobody 1.26
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, 3[N-MORPHOLINO]PROPANE SULFONIC ACID, Camel-derived nanobody 1.26, ...
Authors:Casasnovas, J.M, Fernandez, L.A, Silva, K.
Deposit date:2023-12-05
Release date:2024-12-11
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:The crystal structure of the SARS-CoV-2 receptor binding domain in complex with the neutralizing nanobody 1.26
To Be Published

238582

数据于2025-07-09公开中

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