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新型コロナウイルスの構造情報

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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
8KEH
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BU of 8keh by Molmil
State 2 of SARS-CoV-2 XBB Variant Spike protein trimer complexed with antibody PW5-5
分子名称: PW5-5 heavy chain, PW5-5 light chain, Spike glycoprotein
著者Sun, L, Mao, Q, Wang, Y.
登録日2023-08-11
公開日2024-09-04
実験手法ELECTRON MICROSCOPY (3.21 Å)
主引用文献Potent and broadly neutralizing antibodies against sarbecoviruses induced by sequential COVID-19 vaccination.
Cell Discov, 10, 2024
8Y4C
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BU of 8y4c by Molmil
BA.2.86 S-trimer in complex with Nab XGv280
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, Spike glycoprotein, XGv280 Heavy chain, ...
著者Zhu, Q, Liu, P.
登録日2024-01-30
公開日2024-09-04
実験手法ELECTRON MICROSCOPY (3.75 Å)
主引用文献Enhancing RBD exposure and S1 shedding by an extremely conserved SARS-CoV-2 NTD epitope.
Signal Transduct Target Ther, 9, 2024
8YLS
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BU of 8yls by Molmil
Structure of SARS-CoV-2 Mpro in complex with its degrader
分子名称: (4-methoxyphenyl)methyl ~{N}-[(2~{S})-4-methyl-1-oxidanylidene-1-[[(2~{S})-1-oxidanylidene-3-[(3~{S})-2-oxidanylidenepyrrolidin-3-yl]propan-2-yl]amino]pentan-2-yl]carbamate, 3C-like proteinase nsp5
著者Feng, Y, Li, W, Cheng, S.H, Li, X.B.
登録日2024-03-06
公開日2024-09-04
実験手法X-RAY DIFFRACTION (1.93 Å)
主引用文献The Main Protease Degraders: Potent Broad-Spectrum Agents for Anti-Coronavirus Agents
To Be Published
8ZER
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BU of 8zer by Molmil
Crystal structure of the complex of Wuhan SARS-CoV-2 RBD (319-541) with P2C5 nanobody
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Nanobody P2C5, Spike protein S1, ...
著者Sluchanko, N.N, Varfolomeeva, L.A, Shcheblyakov, D.V, Logunov, D.Y, Gintsburg, A.L, Popov, V.O, Boyko, K.M.
登録日2024-05-06
公開日2024-09-04
実験手法X-RAY DIFFRACTION (3.1 Å)
主引用文献Structural Basis for Evasion of New SARS-CoV-2 Variants from the Potent Virus-Neutralizing Nanobody Targeting the S-Protein Receptor-Binding Domain
Biochemistry Mosc.47, 89, 2024
8ZES
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BU of 8zes by Molmil
Crystal structure of the Wuhan SARS-CoV-2 RBD (333-541) complexed with P2C5 nanobody
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Nanobody P2C5, ...
著者Sluchanko, N.N, Varfolomeeva, L.A, Shcheblyakov, D.V, Logunov, D.Y, Gintsburg, A.L, Popov, V.O, Boyko, K.M.
登録日2024-05-06
公開日2024-09-04
実験手法X-RAY DIFFRACTION (3.7 Å)
主引用文献Structural Basis for Evasion of New SARS-CoV-2 Variants from the Potent Virus-Neutralizing Nanobody Targeting the S-Protein Receptor-Binding Domain
Biochemistry Mosc.47, 89, 2024
9EO6
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BU of 9eo6 by Molmil
SARS-CoV2 major protease in complex with a covalent inhibitor SLL11.
分子名称: 3C-like proteinase nsp5, Inhibitor SLL11, POTASSIUM ION
著者Moche, M, Lennerstrand, J, Nyman, T, Strandback, E, Akaberi, D.
登録日2024-03-14
公開日2024-09-04
最終更新日2024-09-11
実験手法X-RAY DIFFRACTION (2.11 Å)
主引用文献Identification of novel and potent inhibitors of SARS-CoV-2 main protease from DNA-encoded chemical libraries.
Antimicrob.Agents Chemother., 2024
9EOR
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BU of 9eor by Molmil
SARS-CoV2 major protease in complex with a covalent inhibitor SLL12.
分子名称: 3C-like proteinase nsp5, Inhibitor SLL12, POTASSIUM ION
著者Moche, M, Lennerstrand, J, Nyman, T, Strandback, E, Akaberi, D.
登録日2024-03-15
公開日2024-09-04
最終更新日2024-09-11
実験手法X-RAY DIFFRACTION (2.25 Å)
主引用文献Identification of novel and potent inhibitors of SARS-CoV-2 main protease from DNA-encoded chemical libraries.
Antimicrob.Agents Chemother., 2024
9EOX
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BU of 9eox by Molmil
SARS-CoV2 major protease in covalent complex with a soluble inhibitor.
分子名称: 3C-like proteinase nsp5, POTASSIUM ION, Soluble inhibitor
著者Moche, M, Lennerstrand, J, Nyman, T, Strandback, E, Akaberi, D.
登録日2024-03-15
公開日2024-09-04
最終更新日2024-09-11
実験手法X-RAY DIFFRACTION (2.54 Å)
主引用文献Identification of novel and potent inhibitors of SARS-CoV-2 main protease from DNA-encoded chemical libraries.
Antimicrob.Agents Chemother., 2024
8AJ1
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BU of 8aj1 by Molmil
SARS-CoV-2 Mpro in Complex with RK-107
分子名称: (2R,3S)-3-[[(2S)-3-cyclopropyl-2-[2-oxidanylidene-3-(phenylcarbamoylamino)pyridin-1-yl]propanoyl]amino]-N-methyl-2-oxidanyl-4-[(3S)-2-oxidanylidenepyrrolidin-3-yl]butanamide, 3C-like proteinase nsp5
著者El Kilani, H, Hilgenfeld, R.
登録日2022-07-27
公開日2024-09-11
実験手法X-RAY DIFFRACTION (2.6 Å)
主引用文献SARS-CoV-2 Mpro in Complex with RK-107
To Be Published
8Y4A
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BU of 8y4a by Molmil
BA.2.86 S-trimer in complex with Nab XG2v046
分子名称: 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, ...
著者Zhu, Q, Liu, P.
登録日2024-01-30
公開日2024-09-11
実験手法ELECTRON MICROSCOPY (3.4 Å)
主引用文献Enhancing RBD exposure and S1 shedding by an extremely conserved SARS-CoV-2 NTD epitope.
Signal Transduct Target Ther, 9, 2024

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件を2024-09-11に公開中

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