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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
8XZD
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BU of 8xzd by Molmil
The structure of fox ACE2 and Omicron BF.7 RBD complex
分子名称: Angiotensin-converting enzyme, Spike protein S1, ZINC ION
著者sun, J.Q.
登録日2024-01-21
公開日2024-06-12
実験手法ELECTRON MICROSCOPY (3.47 Å)
主引用文献The structure of fox ACE2 and Omicron BF.7 RBD complex
To Be Published
9AYW
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BU of 9ayw by Molmil
SARS-CoV-2 Omicron-EG.5.1 3-RBD down Spike Protein Trimer 1 (S-GSAS-Omicron-EG.5.1)
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, Spike glycoprotein
著者Zhang, Q.E, Acharya, P.
登録日2024-03-08
公開日2024-06-12
実験手法ELECTRON MICROSCOPY (3 Å)
主引用文献SARS-CoV-2 Omicron-EG.5.1 3-RBD down Spike Protein Trimer 1 (S-GSAS-Omicron-EG.5.1)
To Be Published
9AYX
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BU of 9ayx by Molmil
SARS-CoV-2 Omicron-EG.5.1 3-RBD down Spike Protein Trimer 2 (S-GSAS-Omicron-EG.5.1)
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, Spike glycoprotein
著者Zhang, Q.E, Acharya, P.
登録日2024-03-08
公開日2024-06-12
実験手法ELECTRON MICROSCOPY (3 Å)
主引用文献SARS-CoV-2 Omicron-EG.5.1 3-RBD down Spike Protein Trimer 2 (S-GSAS-Omicron-EG.5.1)
To Be Published
9AYY
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BU of 9ayy by Molmil
SARS-CoV-2 Omicron-EG.5.1 3-RBD down Spike Protein Trimer 3 (S-GSAS-Omicron-EG.5.1)
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, Spike glycoprotein
著者Zhang, Q.E, Acharya, P.
登録日2024-03-08
公開日2024-06-12
実験手法ELECTRON MICROSCOPY (3.1 Å)
主引用文献SARS-CoV-2 Omicron-EG.5.1 3-RBD down Spike Protein Trimer 3 (S-GSAS-Omicron-EG.5.1)
To Be Published
9FGS
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BU of 9fgs by Molmil
SARS-CoV-2 (wuhan variant) Spike protein in complex with the single chain fragment scFv41N (focused refinement)
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, Single Chain fragment scFv41N, Spike glycoprotein,Fibritin
著者Berlinguer, M, Chaves-Sanjuan, A, Milazzo, F.M, Minenkova, O, De Santis, R, Bolognesi, M.
登録日2024-05-25
公開日2024-06-12
実験手法ELECTRON MICROSCOPY (4 Å)
主引用文献Structure of scFv41N in complex with SARS-CoV-2 Spike protein
To Be Published
9FGT
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BU of 9fgt by Molmil
SARS-CoV-2 (B.1.1.529/Omicron variant) Spike protein in complex with the single chain fragment scFv76 (focused refinement)
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, Single chain fragment scFv76, Spike glycoprotein,Fibritin
著者Berlinguer, M, Chaves-Sanjuan, A, Milazzo, F.M, Minenkova, O, De Santis, R, Bolognesi, M.
登録日2024-05-25
公開日2024-06-12
実験手法ELECTRON MICROSCOPY (3.8 Å)
主引用文献Structure of scFv76 in complex with SARS-CoV-2 Omicron Spike protein
To Be Published
9FGU
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BU of 9fgu by Molmil
SARS-CoV-2 (B.1.1.529/Omicron variant) Spike protein in complex with the single chain fragment scFv76-77 (focused refinement)
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, Spike glycoprotein,Fibritin, scFv76-77 single chain fragment
著者Berlinguer, M, Chaves-Sanjuan, A, Milazzo, F.M, Minenkova, O, De Santis, R, Bolognesi, M.
登録日2024-05-25
公開日2024-06-12
実験手法ELECTRON MICROSCOPY (4.3 Å)
主引用文献Structure of scFv76-77 in complex with SARS-CoV-2 Omicron Spike protein
To Be Published
8C0Y
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BU of 8c0y by Molmil
SARS-CoV2 Omicron BA.1 RBD in complex with CAB-A17 antibody
分子名称: CAB-A17 antibody (variable), Spike protein S2'
著者Das, H, Hallberg, B.M.
登録日2022-12-19
公開日2024-06-19
最終更新日2024-07-03
実験手法ELECTRON MICROSCOPY (2.68 Å)
主引用文献Structural basis of broad SARS-CoV-2 cross-neutralization by affinity-matured public antibodies.
Cell Rep Med, 5, 2024
8QH0
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BU of 8qh0 by Molmil
Crystal structure of the SARS-CoV-2 RBD with the antibody Cv2.3194
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Cv2.3194 Heavy chain, GLYCEROL, ...
著者Fernandez, I, Rey, F.A.
登録日2023-09-06
公開日2024-06-19
実験手法X-RAY DIFFRACTION (1.87 Å)
主引用文献A broadly neutralizing antibody against SARS-CoV-2 Omicron variants
To Be Published
8QH1
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BU of 8qh1 by Molmil
Crystal structure of the SARS-CoV-2 RBD from the Omicron BA4 variant with the antibody Cv2.3194
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, Cv2.3194 heavy chain, IGK@ protein, ...
著者Fernandez, I, Rey, F.A.
登録日2023-09-06
公開日2024-06-19
実験手法X-RAY DIFFRACTION (2.65 Å)
主引用文献Pan-neutralizing antibody isolated from a COVID patient
To Be Published
8RF2
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BU of 8rf2 by Molmil
Crystal structure of N-terminal SARS-CoV-2 nsp1 in complex with fragment hit 1E7 refined against the anomalous diffraction data
分子名称: 1-benzothiophen-5-amine, Host translation inhibitor nsp1
著者Ma, S, Damfo, S, Mykhaylyk, V, Kozielski, F.
登録日2023-12-12
公開日2024-06-19
実験手法X-RAY DIFFRACTION (1.44 Å)
主引用文献High-confidence placement of low-occupancy fragments into electron density using the anomalous signal of sulfur and halogen atoms.
Acta Crystallogr D Struct Biol, 80, 2024
8RF3
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BU of 8rf3 by Molmil
Crystal structure of N-terminal SARS-CoV-2 nsp1 in complex with fragment hit 7G3 refined against the anomalous diffraction data
分子名称: 2-(1-benzothiophen-3-yl)ethanoic acid, Host translation inhibitor nsp1
著者Ma, S, Damfo, S, Mykhaylyk, V, Kozielski, F.
登録日2023-12-12
公開日2024-06-19
実験手法X-RAY DIFFRACTION (1.23 Å)
主引用文献High-confidence placement of low-occupancy fragments into electron density using the anomalous signal of sulfur and halogen atoms.
Acta Crystallogr D Struct Biol, 80, 2024
8RF4
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BU of 8rf4 by Molmil
Crystal structure of N-terminal SARS-CoV-2 nsp1 in complex with fragment hit 9D4 refined against the anomalous diffraction data
分子名称: 4-chloranyl-1~{H}-indazol-3-amine, Host translation inhibitor nsp1
著者Ma, S, Damfo, S, Mykhaylyk, V, Kozielski, F.
登録日2023-12-12
公開日2024-06-19
実験手法X-RAY DIFFRACTION (1.11 Å)
主引用文献High-confidence placement of low-occupancy fragments into electron density using the anomalous signal of sulfur and halogen atoms.
Acta Crystallogr D Struct Biol, 80, 2024
8RF5
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BU of 8rf5 by Molmil
Crystal structure of N-terminal SARS-CoV-2 nsp1 in complex with fragment hit 11A7 refined against the anomalous diffraction data
分子名称: 6-fluoro-1,3-benzothiazol-2-amine, Host translation inhibitor nsp1
著者Ma, S, Damfo, S, Mykhaylyk, V, Kozielski, F.
登録日2023-12-12
公開日2024-06-19
実験手法X-RAY DIFFRACTION (1.1 Å)
主引用文献High-confidence placement of low-occupancy fragments into electron density using the anomalous signal of sulfur and halogen atoms.
Acta Crystallogr D Struct Biol, 80, 2024
8RF6
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BU of 8rf6 by Molmil
Crystal structure of N-terminal SARS-CoV-2 nsp1 in complex with fragment hit 11A7_AL5 refined against the anomalous diffraction data
分子名称: 6-iodanyl-2,3-dihydro-1,3-benzothiazol-2-amine, Host translation inhibitor nsp1
著者Ma, S, Damfo, S, Mykhaylyk, V, Kozielski, F.
登録日2023-12-12
公開日2024-06-19
実験手法X-RAY DIFFRACTION (1.08 Å)
主引用文献High-confidence placement of low-occupancy fragments into electron density using the anomalous signal of sulfur and halogen atoms.
Acta Crystallogr D Struct Biol, 80, 2024
8RF8
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BU of 8rf8 by Molmil
Crystal structure of N-terminal SARS-CoV-2 nsp1 in complex with fragment hit 11A7_AL6 refined against the anomalous diffraction data
分子名称: 6-bromanyl-1,3-benzothiazol-2-amine, Host translation inhibitor nsp1
著者Ma, S, Damfo, S, Mykhaylyk, V, Kozielski, F.
登録日2023-12-12
公開日2024-06-19
実験手法X-RAY DIFFRACTION (1.12 Å)
主引用文献High-confidence placement of low-occupancy fragments into electron density using the anomalous signal of sulfur and halogen atoms.
Acta Crystallogr D Struct Biol, 80, 2024
8RFC
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BU of 8rfc by Molmil
Crystal structure of N-terminal SARS-CoV-2 nsp1 in complex with fragment hit 7H2_AL1 refined against the anomalous diffraction data
分子名称: (1~{R})-1-(4-bromophenyl)ethanamine, Host translation inhibitor nsp1
著者Ma, S, Damfo, S, Mykhaylyk, V, Kozielski, F.
登録日2023-12-12
公開日2024-06-19
実験手法X-RAY DIFFRACTION (1.1 Å)
主引用文献High-confidence placement of low-occupancy fragments into electron density using the anomalous signal of sulfur and halogen atoms.
Acta Crystallogr D Struct Biol, 80, 2024
8RFD
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BU of 8rfd by Molmil
Crystal structure of N-terminal SARS-CoV-2 nsp1 in complex with fragment hit 7H2_AL2 refined against the anomalous diffraction data
分子名称: (1~{R})-1-(4-iodophenyl)ethanamine, Host translation inhibitor nsp1
著者Ma, S, Damfo, S, Mykhaylyk, V, Kozielski, F.
登録日2023-12-12
公開日2024-06-19
実験手法X-RAY DIFFRACTION (1.13 Å)
主引用文献High-confidence placement of low-occupancy fragments into electron density using the anomalous signal of sulfur and halogen atoms.
Acta Crystallogr D Struct Biol, 80, 2024
8RFF
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BU of 8rff by Molmil
Crystal structure of N-terminal SARS-CoV-2 nsp1 in complex with fragment hit 6A6 refined against the anomalous diffraction data
分子名称: 1,3-benzothiazol-2-amine, Host translation inhibitor nsp1
著者Ma, S, Damfo, S, Mykhaylyk, V, Kozielski, F.
登録日2023-12-12
公開日2024-06-19
実験手法X-RAY DIFFRACTION (1.31 Å)
主引用文献High-confidence placement of low-occupancy fragments into electron density using the anomalous signal of sulfur and halogen atoms.
Acta Crystallogr D Struct Biol, 80, 2024
8UKD
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BU of 8ukd by Molmil
SARS-CoV-2 Omicron-XBB.1.5 3-RBD down Spike Protein Trimer consensus (S-GSAS-Omicron-XBB.1.5)
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, Spike glycoprotein
著者Zhang, Q.E, Acharya, P.
登録日2023-10-12
公開日2024-06-19
実験手法ELECTRON MICROSCOPY (2.9 Å)
主引用文献SARS-CoV-2 Omicron-XBB.1.5 3-RBD down Spike Protein Trimer consensus (S-GSAS-Omicron-XBB.1.5)
To Be Published
8UKF
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BU of 8ukf by Molmil
SARS-CoV-2 Omicron-EG.5 3-RBD down Spike Protein Trimer consensus (S-GSAS-Omicron-EG.5)
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Zhang, Q.E, Acharya, P.
登録日2023-10-12
公開日2024-06-19
実験手法ELECTRON MICROSCOPY (3.1 Å)
主引用文献SARS-CoV-2 Omicron-EG.5 3-RBD down Spike Protein Trimer consensus (S-GSAS-Omicron-EG.5)
To Be Published
8XBF
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BU of 8xbf by Molmil
Cryo-EM structure of SARS-CoV-2 S-BQ.1 in complex with antibody O5C2
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, O5C2, heavy chain, ...
著者Hsu, H.F, Wu, M.H, Chang, Y.C, Hsu, S.T.D.
登録日2023-12-06
公開日2024-06-19
最終更新日2024-06-26
実験手法ELECTRON MICROSCOPY (3.6 Å)
主引用文献Functional and structural investigation of a broadly neutralizing SARS-CoV-2 antibody.
JCI Insight, 9, 2024
8XXW
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BU of 8xxw by Molmil
Fab M2-7 complexed with SARS-Cov2 RBD and human ACE2
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, M2-7-Heavy chain, M2-7-Light chain, ...
著者Liu, C, Xie, Y.
登録日2024-01-19
公開日2024-06-19
実験手法ELECTRON MICROSCOPY (3.03 Å)
主引用文献Mosaic RBD nanoparticle elicits immunodominant antibody responses across sarbecoviruses.
Cell Rep, 43, 2024
8YAX
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BU of 8yax by Molmil
SARS-CoV-2 DMV nsp3-4 pore complex (full-pore)
分子名称: Non-structural protein 4, Papain-like protease nsp3
著者Huang, Y.X, Zhong, L.J, Zhang, W.X, Ni, T.
登録日2024-02-10
公開日2024-06-19
実験手法ELECTRON MICROSCOPY (4.9 Å)
主引用文献Molecular Architecture of Coronavirus Double Membrane Vesicle Pore Complex
To Be Published
8YB5
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BU of 8yb5 by Molmil
SARS-CoV-2 DMV nsp3-4 pore complex (consensus-pore, C6 symmetry)
分子名称: Non-structural protein 4, Papain-like protease nsp3
著者Huang, Y.X, Zhong, L.J, Zhang, W.X, Ni, T.
登録日2024-02-11
公開日2024-06-19
実験手法ELECTRON MICROSCOPY (4.2 Å)
主引用文献Molecular Architecture of Coronavirus Double Membrane Vesicle Pore Complex
To Be Published

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件を2024-07-10に公開中

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