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新型コロナウイルスの構造情報

このページの他言語版もあります: English简体中文繁體中文한국어
コロナウイルス
コロナウイルス, 2020. David S. Goodsell@RCSB PDB による原画を修正

最近、新型コロナウイルス感染症（Novel Coronavirus disease 2019: COVID-19）の拡大が世界中で深刻な問題となっています。早急にこの新型ウイルス（Severe Acute Respiratory Syndrome Coronavirus 2: SARS-CoV-2）を理解し有効な薬を開発するため，関連するタンパク質の構造研究は既に始まっています。そして，解明された構造はPDBに登録されていっています。PDBjでは利用者の利便を図るため，新型コロナウイルス特集ページを作成しました。新たなエントリーが毎週水曜日の週次更新で公開されると、同時にこのページにも追加されます。

またこのウイルスのタンパク質に関する解説記事を以下の「今月の分子」ページに掲載しています。

「全エントリー」のタブでは，同じ著者によるグループ登録のエントリーも全て区別し，すべてのPDB IDを省略せず表示しています。 「代表構造」タブには最も分解能の高い代表構造のみを表示しており，アミノ酸配列が100%同じPDBエントリーはリガンドが異なるものも含め除外してあります。 「最新のエントリー」のタブは，今週公開された最も新しいエントリーです。

作成日: 2020-09-03 (最終更新日: more than 1 year ago)2022-09-02
全エントリー (4406)代表構造 (1944)最新のエントリー (19)
8HQ7
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BU of 8hq7 by Molmil
Cryo-EM structure of SARS-CoV-2 Omicron Prototype RBD in complex with fab L4.65 and L5.34
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Spike protein S1, fab L4.65, ...
著者Gao, G.F, Liu, S.
登録日2022-12-13
公開日2023-12-20
最終更新日2024-05-08
実験手法ELECTRON MICROSCOPY (2.7 Å)
主引用文献Dosing interval regimen shapes potency and breadth of antibody repertoire after vaccination of SARS-CoV-2 RBD protein subunit vaccine.
Cell Discov, 9, 2023
8HQG
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BU of 8hqg by Molmil
Crystal structure of SARS-Cov-2 main protease K90R mutant in complex with inhibitor YH-53
分子名称: 3C-like proteinase nsp5, N-[(2S)-1-[[(2S)-1-(1,3-benzothiazol-2-yl)-1-oxidanylidene-3-[(3S)-2-oxidanylidenepyrrolidin-3-yl]propan-2-yl]amino]-4-methyl-1-oxidanylidene-pentan-2-yl]-4-methoxy-1H-indole-2-carboxamide
著者Wang, J, Zhang, J, Li, J.
登録日2022-12-13
公開日2023-12-20
実験手法X-RAY DIFFRACTION (1.88 Å)
主引用文献Crystal structure of SARS-Cov-2 main protease K90R mutant in complex with inhibitor YH-53
To Be Published
8HQH
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BU of 8hqh by Molmil
Crystal structure of SARS-Cov-2 main protease M49I mutant in complex with inhibitor YH-53
分子名称: 3C-like proteinase nsp5, N-[(2S)-1-[[(2S)-1-(1,3-benzothiazol-2-yl)-1-oxidanylidene-3-[(3S)-2-oxidanylidenepyrrolidin-3-yl]propan-2-yl]amino]-4-methyl-1-oxidanylidene-pentan-2-yl]-4-methoxy-1H-indole-2-carboxamide
著者Zou, X.F, Zhang, J, Li, J.
登録日2022-12-13
公開日2023-12-20
実験手法X-RAY DIFFRACTION (1.58 Å)
主引用文献Crystal structure of SARS-Cov-2 main protease M49I mutant in complex with inhibitor YH-53
To Be Published
8HQI
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BU of 8hqi by Molmil
Crystal structure of SARS-Cov-2 main protease P132H mutant in complex with inhibitor YH-53
分子名称: 3C-like proteinase nsp5, N-[(2S)-1-[[(2S)-1-(1,3-benzothiazol-2-yl)-1-oxidanylidene-3-[(3S)-2-oxidanylidenepyrrolidin-3-yl]propan-2-yl]amino]-4-methyl-1-oxidanylidene-pentan-2-yl]-4-methoxy-1H-indole-2-carboxamide
著者Li, W.W, Zhang, J, Li, J.
登録日2022-12-13
公開日2023-12-20
実験手法X-RAY DIFFRACTION (1.55 Å)
主引用文献Crystal structure of SARS-Cov-2 main protease P132H mutant in complex with inhibitor YH-53
To Be Published
8HQJ
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BU of 8hqj by Molmil
Crystal structure of SARS-Cov-2 main protease Y54C mutant in complex with inhibitor YH-53
分子名称: 3C-like proteinase nsp5, N-[(2S)-1-[[(2S)-1-(1,3-benzothiazol-2-yl)-1-oxidanylidene-3-[(3S)-2-oxidanylidenepyrrolidin-3-yl]propan-2-yl]amino]-4-methyl-1-oxidanylidene-pentan-2-yl]-4-methoxy-1H-indole-2-carboxamide
著者Zhou, X.L, Zhang, J, Li, J.
登録日2022-12-13
公開日2023-12-20
実験手法X-RAY DIFFRACTION (1.74 Å)
主引用文献Crystal structure of SARS-Cov-2 main protease Y54C mutant in complex with inhibitor YH-53
To Be Published
8HQT
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BU of 8hqt by Molmil
The complex structure of COPI cargo sorting module with SARS-CoV-2 Spike KxHxx sorting motif
分子名称: Coatomer subunit beta', SARS-CoV-2 Spike KxHxx motif
著者Ma, W.F, Nan, Y.N, Yang, M.R, Li, Y.Q.
登録日2022-12-14
公開日2023-12-20
実験手法X-RAY DIFFRACTION (1.8 Å)
主引用文献Tighter ER retention of SARS-CoV-2 Omicron spike caused by a constellation of folding disruptive mutations
To Be Published
8HRD
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BU of 8hrd by Molmil
Crystal structure of the receptor binding domain of SARS-CoV-2 Delta variant in complex with IMCAS74 Fab and W14 Fab
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, IMCAS74 Fab heavy chain, IMCAS74 Fab light chain, ...
著者Zhao, R.C, Wu, L.L, Han, P.
登録日2022-12-15
公開日2023-12-20
最終更新日2023-12-27
実験手法X-RAY DIFFRACTION (2.86 Å)
主引用文献Defining a de novo non-RBM antibody as RBD-8 and its synergistic rescue of immune-evaded antibodies to neutralize Omicron SARS-CoV-2.
Proc.Natl.Acad.Sci.USA, 120, 2023
8HRI
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BU of 8hri by Molmil
SARS-CoV-2 Delta variant spike protein
分子名称: Spike glycoprotein
著者Xu, J, Cheng, H, Liu, N, Wang, H.W.
登録日2022-12-15
公開日2023-12-20
実験手法ELECTRON MICROSCOPY (2.9 Å)
主引用文献Self-assembled monolayers guided free-standing atomic-crystal/molecule superstructure
To Be Published
8HRJ
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BU of 8hrj by Molmil
SARS-CoV-2 Delta variant spike protein
分子名称: Spike glycoprotein
著者Xu, J, Cheng, H, Liu, N, Wang, H.W.
登録日2022-12-15
公開日2023-12-20
実験手法ELECTRON MICROSCOPY (3.1 Å)
主引用文献Self-assembled monolayers guided free-standing atomic-crystal/molecule superstructure
To Be Published
8HRK
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BU of 8hrk by Molmil
SARS-CoV-2 Delta S-RBD-ACE2 complex
分子名称: Processed angiotensin-converting enzyme 2, Spike protein S1
著者Xu, J, Meng, F, Liu, N, Wang, H.W.
登録日2022-12-15
公開日2023-12-20
実験手法ELECTRON MICROSCOPY (3.3 Å)
主引用文献Self-assembled monolayers guided free-standing atomic-crystal/molecule superstructure
To Be Published
8HRL
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BU of 8hrl by Molmil
SARS-CoV-2 Delta S-RBD-ACE2
分子名称: Processed angiotensin-converting enzyme 2, Spike protein S1
著者Xu, J, Meng, F, Liu, N, Wang, H.W.
登録日2022-12-15
公開日2023-12-20
実験手法ELECTRON MICROSCOPY (2.8 Å)
主引用文献Self-assembled monolayers guided free-standing atomic-crystal/molecule superstructure
To Be Published
8HSM
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BU of 8hsm by Molmil
CRYSTAL STRUCTURE OF BAT MHC CLASS I MYLU-B-67
分子名称: Beta-2-microglobulin, Ig-like domain-containing protein, PHE-PRO-GLN-SER-ALA-PRO-HIS-GLY-VAL
著者Wang, S.Q, Zhang, N.Z.
登録日2022-12-20
公開日2023-12-20
実験手法X-RAY DIFFRACTION (2.2 Å)
主引用文献CRYSTAL STRUCTURE OF BAT MHC CLASS I MYLU-B-67
To Be Published
8HSO
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BU of 8hso by Molmil
CRYSTAL STRUCTURE OF A MUTANT MYLU-B-67 FOR 2.2 ANGSTROM, 52M 53Q 54Q 55P 56W DELETED
分子名称: Beta-2-microglobulin, Ig-like domain-containing protein, PHE-PRO-GLN-SER-ALA-PRO-HIS-GLY-VAL
著者Wang, S.Q, Zhang, N.Z.
登録日2022-12-20
公開日2023-12-20
実験手法X-RAY DIFFRACTION (2.1 Å)
主引用文献CRYSTAL STRUCTURE OF A MUTANT MYLU-B-67 FOR 2.2 ANGSTROM, 52M 53Q 54Q 55P 56W DELETED
To Be Published
8HSW
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BU of 8hsw by Molmil
CRYSTAL STRUCTURE OF BAT MHC CLASS I MYLU-B-67 FOR 2.1 ANGSTROM
分子名称: Beta-2-microglobulin, Ig-like domain-containing protein, THR-PRO-GLN-SER-ALA-PRO-HIS-GLY-VAL
著者Wang, S.Q, Zhang, N.Z.
登録日2022-12-20
公開日2023-12-20
実験手法X-RAY DIFFRACTION (2.03 Å)
主引用文献CRYSTAL STRUCTURE OF BAT MHC CLASS I MYLU-B-67 FOR 2.1 ANGSTROM
To Be Published
8HT1
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BU of 8ht1 by Molmil
CRYSTAL STRUCTURE OF A MUTANT MYLU-B-67 FOR 2.4 ANGSTROM, 52M 53Q 54Q 55P 56W DELETED
分子名称: Beta-2-microglobulin, Ig-like domain-containing protein, THR-PRO-GLN-SER-ALA-PRO-HIS-GLY-VAL
著者Wang, S.Q, Zhang, N.Z.
登録日2022-12-20
公開日2023-12-20
実験手法X-RAY DIFFRACTION (2.4 Å)
主引用文献CRYSTAL STRUCTURE OF A MUTANT MYLU-B-67 FOR 2.4 ANGSTROM, 52M 53Q 54Q 55P 56W DELETED
To Be Published
8HT9
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BU of 8ht9 by Molmil
CRYSTAL STRUCTURE OF BAT MHC CLASS I MYLU-B-67 FOR 2.2 ANGSTROM
分子名称: Beta-2-microglobulin, GLU-PRO-GLN-SER-ALA-PRO-HIS-GLY-VAL, Ig-like domain-containing protein
著者Wang, S.Q, Zhang, N.Z.
登録日2022-12-20
公開日2023-12-20
実験手法X-RAY DIFFRACTION (2.2 Å)
主引用文献CRYSTAL STRUCTURE OF BAT MHC CLASS I MYLU-B-67 FOR 2.2 ANGSTROM
To Be Published
8Q7S
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BU of 8q7s by Molmil
Crystal structure of the SARS-CoV-2 RBD (Wuhan) with neutralizing VHHs Ma6F06 and Re21H01
分子名称: 1,2-ETHANEDIOL, 1-ETHOXY-2-(2-ETHOXYETHOXY)ETHANE, GLYCEROL, ...
著者Guttler, T, Aksu, M, Gorlich, D.
登録日2023-08-16
公開日2023-12-20
最終更新日2024-01-17
実験手法X-RAY DIFFRACTION (2.7 Å)
主引用文献Nanobodies to multiple spike variants and inhalation of nanobody-containing aerosols neutralize SARS-CoV-2 in cell culture and hamsters.
Antiviral Res., 221, 2023
8Q93
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BU of 8q93 by Molmil
Crystal structure of the SARS-COV-2 RBD with neutralizing-VHHs Re30H02 and Re21D01
分子名称: Nanobody Re21D01, Nanobody Re30H02, Spike protein S1
著者Aksu, M, Guttler, T, Rymarenko, O, Gorlich, D.
登録日2023-08-19
公開日2023-12-20
最終更新日2023-12-27
実験手法X-RAY DIFFRACTION (3.1 Å)
主引用文献Nanobodies to multiple spike variants and inhalation of nanobody-containing aerosols neutralize SARS-CoV-2 in cell culture and hamsters.
Antiviral Res., 221, 2023
8Q94
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BU of 8q94 by Molmil
Crystal structure of The SARS-COV-2 BA.2.75 RBD with neutralizing-VHHs Re32D03 and Ma3B12
分子名称: Nanobody Ma3B12, Nanobody Re32D03, Spike protein S1
著者Aksu, M, Guttler, T, Gorlich, D.
登録日2023-08-19
公開日2023-12-20
最終更新日2023-12-27
実験手法X-RAY DIFFRACTION (2.5 Å)
主引用文献Nanobodies to multiple spike variants and inhalation of nanobody-containing aerosols neutralize SARS-CoV-2 in cell culture and hamsters.
Antiviral Res., 221, 2023
8Q95
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BU of 8q95 by Molmil
Crystal structure of the SARS-CoV-2 BA.1 RBD with neutralizing-VHHs Ma16B06 and Ma3F05
分子名称: Nanobody Ma16B06, Nanobody Ma3F05, Spike protein S1
著者Aksu, M, Rymarenko, O, Guttler, T, Gorlich, D.
登録日2023-08-19
公開日2023-12-20
最終更新日2023-12-27
実験手法X-RAY DIFFRACTION (1.6 Å)
主引用文献Nanobodies to multiple spike variants and inhalation of nanobody-containing aerosols neutralize SARS-CoV-2 in cell culture and hamsters.
Antiviral Res., 221, 2023
8UH9
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BU of 8uh9 by Molmil
Crystal structure of SARS-CoV-2 main protease E166V mutant in complex with an inhibitor TKB-272
分子名称: (1R,2S,5S)-N-{(1S,2S)-1-(5-fluoro-1,3-benzothiazol-2-yl)-1-hydroxy-3-[(3S)-2-oxopyrrolidin-3-yl]propan-2-yl}-6,6-dimethyl-3-[3-methyl-N-(trifluoroacetyl)-L-valyl]-3-azabicyclo[3.1.0]hexane-2-carboxamide, 3C-like proteinase nsp5, DI(HYDROXYETHYL)ETHER
著者Bulut, H, Hayashi, H, Kuwata, N, Tsuji, K, Das, D, Tamamura, H, Mitsuya, H.
登録日2023-10-07
公開日2023-12-20
実験手法X-RAY DIFFRACTION (2.067 Å)
主引用文献TKB272, an Orally Available SARS-CoV-2-Mpro Inhibitor Containing 5-Fluorobenzothiazole, Potently Blocks SARS-CoV-2 Replication without Ritonavir
To Be Published
8XAB
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BU of 8xab by Molmil
Crystal structure of Ubl1 domain of nonstructural protein 3 of SARS-CoV-2
分子名称: GLYCEROL, Papain-like protease nsp3
著者Li, Y, Ke, Z.
登録日2023-12-03
公開日2023-12-20
実験手法X-RAY DIFFRACTION (1.49 Å)
主引用文献N-terminus of SARS-CoV-2 Nsp3 Interrupts RNA-driven Phase Separation of N Protein by Displacing RNA
To Be Published
7Y3O
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BU of 7y3o by Molmil
Crystal structure of SARS-CoV-2 receptor binding domain in complex with human antibody BIOLS56
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, Heavy chain of BIOLS56, Light chain of BIOLS56, ...
著者Rao, X, Gao, F, Wu, Y, Gao, F.
登録日2022-06-11
公開日2023-12-27
実験手法X-RAY DIFFRACTION (2.1 Å)
主引用文献Defining a de novo non-RBM antibody as RBD-8 and its synergistic rescue of immune-evaded antibodies to neutralize Omicron SARS-CoV-2.
Proc.Natl.Acad.Sci.USA, 120, 2023
8BZN
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BU of 8bzn by Molmil
SARS-CoV-2 non-structural protein 10 (nsp10) variant T102I
分子名称: CHLORIDE ION, DIMETHYL SULFOXIDE, Replicase polyprotein 1ab, ...
著者Wang, H, Rizvi, S.R.A, Dong, D, Lou, J, Wang, Q, Sopipong, W, Najar, F, Agarwal, P.K, Kozielski, F, Haider, S.
登録日2022-12-15
公開日2023-12-27
最終更新日2024-01-10
実験手法X-RAY DIFFRACTION (2.19 Å)
主引用文献Emerging variants of SARS-CoV-2 NSP10 highlight strong functional conservation of its binding to two non-structural proteins, NSP14 and NSP16.
Elife, 12, 2023
8HN4
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Complex structure of HLA2402 with recognizing SARS-CoV-2 epitope QYIKWPWYI
分子名称: Beta-2-microglobulin, MHC class I antigen, SARS-CoV-2 T-cell epitope QYIKWPWYI
著者Deng, S.S, Jin, T.C, Xu, Z.H.
登録日2022-12-07
公開日2023-12-27
実験手法X-RAY DIFFRACTION (2.853 Å)
主引用文献Immune escape at SARS- CoV-2 killer T cell epitope
To be published

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件を2024-07-10に公開中

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