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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 (5197)代表構造 (2266)最新のエントリー (44)
8UE0
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BU of 8ue0 by Molmil
Crystal structure of SARS-CoV-2 3CL protease with inhibitor 47
分子名称: 2,4-dichloro-Nalpha-[(2R)-2-chloro-3-(2-cyanophenyl)propanoyl]-N-[(2S)-4-{[4-(dimethylamino)butyl]amino}-1-(4-fluorophenyl)-4-oxobutan-2-yl]-D-phenylalaninamide, 3C-like proteinase nsp5, CHLORIDE ION, ...
著者Forouhar, F, Liu, H, Zack, A, Iketani, S, Williams, A, Vaz, D.R, Habashi, D.L, Choi, K, Resnick, S.J, Chavez, A, Ho, D.D, Stockwell, B.R.
登録日2023-09-29
公開日2025-01-15
実験手法X-RAY DIFFRACTION (2.16 Å)
主引用文献Development of small molecule non-covalent coronavirus 3CL protease inhibitors from DNA-encoded chemical library screening.
Nat Commun, 16, 2025
8YDP
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BU of 8ydp by Molmil
Crystal structure of the receptor binding domain of SARS-CoV-2 spike protein in complex with Ce9
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, GLYCEROL, SARS-CoV-2 inhibiting peptide Ce9, ...
著者Nakamura, S, Numoto, N, Fujiyoshi, Y.
登録日2024-02-21
公開日2025-01-15
実験手法X-RAY DIFFRACTION (2.3 Å)
主引用文献Development of a short-peptide inhibiting any SARS-CoV-2 variants based on structural biology
To Be Published
8YDQ
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BU of 8ydq by Molmil
Crystal structure of the receptor binding domain of SARS-CoV-2 Omicron BA.2 variant spike protein in complex with Ce149
分子名称: GLYCEROL, SARS-CoV-2 inhibiting peptide Ce149, Spike protein S1
著者Nakamura, S, Numoto, N, Fujiyoshi, Y.
登録日2024-02-21
公開日2025-01-15
実験手法X-RAY DIFFRACTION (1.9 Å)
主引用文献Development of a short-peptide inhibiting any SARS-CoV-2 variants based on structural biology
To Be Published
8YDR
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BU of 8ydr by Molmil
Crystal structure of the receptor binding domain of SARS-CoV-2 Alpha variant spike protein in complex with Ce59
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, SARS-CoV-2 inhibiting peptide Ce59, Spike protein S1
著者Nakamura, S, Numoto, N, Fujiyoshi, Y.
登録日2024-02-21
公開日2025-01-15
実験手法X-RAY DIFFRACTION (2.3 Å)
主引用文献Development of a short-peptide inhibiting any SARS-CoV-2 variants based on structural biology
To Be Published
8YDS
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BU of 8yds by Molmil
Crystal structure of the receptor binding domain of SARS-CoV-2 Delta variant spike protein in complex with Ce59
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, GLYCEROL, SARS-CoV-2 inhibiting peptide Ce59, ...
著者Nakamura, S, Numoto, N, Fujiyoshi, Y.
登録日2024-02-21
公開日2025-01-15
実験手法X-RAY DIFFRACTION (1.9 Å)
主引用文献Development of a short-peptide inhibiting any SARS-CoV-2 variants based on structural biology
To Be Published
8YDT
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BU of 8ydt by Molmil
Crystal structure of the receptor binding domain of SARS-CoV-2 Alpha variant spike protein in complex with Ce41
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, SARS-CoV-2 inhibiting peptide Ce41, Spike protein S1
著者Nakamura, S, Numoto, N, Fujiyoshi, Y.
登録日2024-02-21
公開日2025-01-15
実験手法X-RAY DIFFRACTION (2.5 Å)
主引用文献Development of a short-peptide inhibiting any SARS-CoV-2 variants based on structural biology
To Be Published
8YDU
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BU of 8ydu by Molmil
Crystal structure of the receptor binding domain of SARS-CoV-2 Omicron BA.2 variant spike protein in complex with CeSPIACE
分子名称: GLYCEROL, SARS-CoV-2 inhibiting peptide CeSPIACE, Spike protein S1
著者Nakamura, S, Numoto, N, Fujiyoshi, Y.
登録日2024-02-21
公開日2025-01-15
実験手法X-RAY DIFFRACTION (1.7 Å)
主引用文献Development of a short-peptide inhibiting any SARS-CoV-2 variants based on structural biology
To Be Published
8YDV
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BU of 8ydv by Molmil
Crystal structure of the receptor binding domain of SARS-CoV-2 Omicron BA.5 variant spike protein in complex with CeSPIACE
分子名称: GLYCEROL, SARS-CoV-2 inhibiting peptide CeSPIACE, Spike protein S1
著者Nakamura, S, Numoto, N, Fujiyoshi, Y.
登録日2024-02-21
公開日2025-01-15
実験手法X-RAY DIFFRACTION (2.2 Å)
主引用文献Development of a short-peptide inhibiting any SARS-CoV-2 variants based on structural biology
To Be Published
8YDW
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BU of 8ydw by Molmil
Crystal structure of the receptor binding domain of SARS-CoV-2 Omicron XBB.1.5 variant spike protein in complex with CeSPIACE
分子名称: GLYCEROL, SARS-CoV-2 inhibiting peptide CeSPIACE, SODIUM ION, ...
著者Nakamura, S, Numoto, N, Fujiyoshi, Y.
登録日2024-02-21
公開日2025-01-15
実験手法X-RAY DIFFRACTION (2 Å)
主引用文献Development of a short-peptide inhibiting any SARS-CoV-2 variants based on structural biology
To Be Published
8YDX
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BU of 8ydx by Molmil
Cryo-EM structure of SARS-CoV-2 spike ectodomain (HexaPro, Omicron BA.2 variant) in complex with CeSPIACE
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, CeSPIACE, Spike glycoprotein
著者Suzuki, H, Nakamura, S, Fujiyoshi, Y.
登録日2024-02-21
公開日2025-01-15
実験手法ELECTRON MICROSCOPY (4.9 Å)
主引用文献Development of a short-peptide inhibiting any SARS-CoV-2 variants based on structural biology
To Be Published
8YDY
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BU of 8ydy by Molmil
Cryo-EM structure of SARS-CoV-2 spike ectodomain (HexaPro, Omicron BA.5 variant) in complex with CeSPIACE, class 1
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, CeSPIACE, Spike glycoprotein
著者Suzuki, H, Nakamura, S, Fujiyoshi, Y.
登録日2024-02-21
公開日2025-01-15
実験手法ELECTRON MICROSCOPY (8 Å)
主引用文献Development of a short-peptide inhibiting any SARS-CoV-2 variants based on structural biology
To Be Published
8YDZ
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BU of 8ydz by Molmil
Cryo-EM structure of SARS-CoV-2 spike ectodomain (HexaPro, Omicron BA.5 variant) in complex with CeSPIACE, class 2
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, CeSPIACE, Spike glycoprotein
著者Suzuki, H, Nakamura, S, Fujiyoshi, Y.
登録日2024-02-21
公開日2025-01-15
実験手法ELECTRON MICROSCOPY (5.2 Å)
主引用文献Development of a short-peptide inhibiting any SARS-CoV-2 variants based on structural biology
To Be Published
9CEC
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BU of 9cec by Molmil
SARS-CoV-2 3CL Protease complexed with covalent inhibitor BC671
分子名称: 3C-like proteinase nsp5, DIMETHYL SULFOXIDE, N-[(2S)-1-{[(2S)-1-hydroxy-3-(2-oxo-1,2-dihydropyridin-3-yl)propan-2-yl]amino}-4-methyl-1-oxopentan-2-yl]-1H-indole-2-carboxamide
著者Farzandh, S, Hoffpauir, Z.A, Meneely, K.M, Lamb, A.L.
登録日2024-06-26
公開日2025-01-15
最終更新日2025-01-22
実験手法X-RAY DIFFRACTION (2.36 Å)
主引用文献Dual Inhibitors of SARS-CoV-2 3CL Protease and Human Cathepsin L Containing Glutamine Isosteres Are Anti-CoV-2 Agents.
J.Am.Chem.Soc., 147, 2025
9CED
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BU of 9ced by Molmil
SARS-CoV-2 3CL Protease complexed with covalent inhibitor VK13
分子名称: 3C-like proteinase nsp5, N-[(2S)-1-{[(2S)-1-hydroxy-3-(2-oxo-1,2-dihydropyridin-3-yl)propan-2-yl]amino}-4-methyl-1-oxopentan-2-yl]-4-methoxy-1H-indole-2-carboxamide
著者Hoffpauir, Z.A, Meneely, K.M, Lamb, A.L.
登録日2024-06-26
公開日2025-01-15
最終更新日2025-01-22
実験手法X-RAY DIFFRACTION (1.82 Å)
主引用文献Dual Inhibitors of SARS-CoV-2 3CL Protease and Human Cathepsin L Containing Glutamine Isosteres Are Anti-CoV-2 Agents.
J.Am.Chem.Soc., 147, 2025
9CEK
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BU of 9cek by Molmil
SARS-CoV-2 3CL Protease complexed with covalent inhibitor VK20
分子名称: 3C-like proteinase nsp5, L(+)-TARTARIC ACID, N-[(2S)-1-amino-4-methyl-1-oxopentan-2-yl]-4-methoxy-1H-indole-2-carboxamide, ...
著者Hoffpauir, Z.A, Meneely, K.M, Lamb, A.L.
登録日2024-06-26
公開日2025-01-15
最終更新日2025-01-22
実験手法X-RAY DIFFRACTION (1.38 Å)
主引用文献Dual Inhibitors of SARS-CoV-2 3CL Protease and Human Cathepsin L Containing Glutamine Isosteres Are Anti-CoV-2 Agents.
J.Am.Chem.Soc., 147, 2025
9CF9
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BU of 9cf9 by Molmil
SARS-CoV-2 3CL Protease complexed with covalent inhibitor BC787
分子名称: 3C-like proteinase nsp5, N-[(2S)-1-{[(2S)-1-hydroxy-3-(pyridin-3-yl)propan-2-yl]amino}-4-methyl-1-oxopentan-2-yl]-4-methoxy-1H-indole-2-carboxamide
著者Hoffpauir, Z.A, Meneely, K.M, Lamb, A.L.
登録日2024-06-27
公開日2025-01-15
最終更新日2025-01-22
実験手法X-RAY DIFFRACTION (2 Å)
主引用文献Dual Inhibitors of SARS-CoV-2 3CL Protease and Human Cathepsin L Containing Glutamine Isosteres Are Anti-CoV-2 Agents.
J.Am.Chem.Soc., 147, 2025
9CFB
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BU of 9cfb by Molmil
SARS-CoV-2 3CL Protease complexed with covalent inhibitor BC674
分子名称: 3C-like proteinase nsp5, N-[(2S)-3-cyclohexyl-1-{[(2S)-1-hydroxy-3-(2-oxo-1,2-dihydropyridin-3-yl)propan-2-yl]amino}-1-oxopropan-2-yl]-1H-indole-2-carboxamide, SODIUM ION
著者Hoffpauir, Z.A, Meneely, K.M, Lamb, A.L.
登録日2024-06-27
公開日2025-01-15
最終更新日2025-01-22
実験手法X-RAY DIFFRACTION (1.45 Å)
主引用文献Dual Inhibitors of SARS-CoV-2 3CL Protease and Human Cathepsin L Containing Glutamine Isosteres Are Anti-CoV-2 Agents.
J.Am.Chem.Soc., 147, 2025
9IUP
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BU of 9iup by Molmil
KP.3 RBD in complex with ACE2
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, Processed angiotensin-converting enzyme 2, Spike protein S1
著者Feng, L.L.
登録日2024-07-22
公開日2025-01-15
最終更新日2025-07-02
実験手法ELECTRON MICROSCOPY (3.3 Å)
主引用文献Structural and molecular basis of the epistasis effect in enhanced affinity between SARS-CoV-2 KP.3 and ACE2.
Cell Discov, 10, 2024
9IUQ
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BU of 9iuq by Molmil
KP.2 RBD in complex with ACE2
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, Processed angiotensin-converting enzyme 2, Spike protein S1
著者Feng, L.L.
登録日2024-07-22
公開日2025-01-15
最終更新日2025-06-25
実験手法ELECTRON MICROSCOPY (3.3 Å)
主引用文献Structural and molecular basis of the epistasis effect in enhanced affinity between SARS-CoV-2 KP.3 and ACE2.
Cell Discov, 10, 2024
9IUU
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BU of 9iuu by Molmil
JN.1 RBD with Q493E in complex with ACE2
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, Angiotensin-converting enzyme 2, CHLORIDE ION, ...
著者Feng, L.L.
登録日2024-07-22
公開日2025-01-15
最終更新日2025-07-02
実験手法ELECTRON MICROSCOPY (3.29 Å)
主引用文献Structural and molecular basis of the epistasis effect in enhanced affinity between SARS-CoV-2 KP.3 and ACE2.
Cell Discov, 10, 2024
9JJ7
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BU of 9jj7 by Molmil
The crystal structure of SARS-CoV-2 NSP5 in complex with eIF4G2
分子名称: 3C-like proteinase nsp5, Eukaryotic translation initiation factor 4 gamma 2
著者Yan, X, Jin, Z, Wang, Y, Zhang, J.
登録日2024-09-13
公開日2025-01-15
実験手法X-RAY DIFFRACTION (1.8 Å)
主引用文献Coronavirus NSP5 is an Evolutionarily Conserved Inhibitor of Host Translation
To Be Published
8XAL
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BU of 8xal by Molmil
Cryo-EM structure of SARS-CoV-2 S-BQ.1 in complex with ACE2
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, Angiotensin-converting enzyme 2,Green fluorescent protein (Fragment), ...
著者Hsu, H.F, Wu, M.H, Chang, Y.C, Hsu, S.T.D.
登録日2023-12-04
公開日2025-01-22
最終更新日2025-07-02
実験手法ELECTRON MICROSCOPY (3.2 Å)
主引用文献Functional and structural investigation of a broadly neutralizing SARS-CoV-2 antibody.
JCI Insight, 9, 2024
8XWR
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BU of 8xwr by Molmil
Crystal structure of SARS-CoV-2 3CLpro-T21I/L50F double mutant with its peptidyl substrate
分子名称: 3C-like proteinase nsp5, cleaved N-terminal product of nsp5/6 substrate peptide
著者Zhang, L.J, Hu, Q.
登録日2024-01-16
公開日2025-01-22
実験手法X-RAY DIFFRACTION (1.7 Å)
主引用文献Crystal structure of SARS-CoV-2 3CLpro-T21I/L50F double mutant with its peptidyl substrate
To Be Published
8XWT
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BU of 8xwt by Molmil
Crystal structure of SARS-CoV-2 3CLpro-L50F mutant with its peptidyl substrate
分子名称: 3C-like proteinase nsp5, CYS-SER-GLY-VAL-THR-PHE-GLN-SER-ALA-VAL-LYS-ARG-THR-ILE
著者Zhang, L.J, Hu, Q.
登録日2024-01-16
公開日2025-01-22
実験手法X-RAY DIFFRACTION (1.7 Å)
主引用文献Crystal structure of SARS-CoV-2 3CLpro-L50F mutant with its peptidyl substrate
To Be Published
8XY9
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BU of 8xy9 by Molmil
Crystal structure of SARS-CoV-2 BF.7 RBD and human ACE2 complex
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, Processed angiotensin-converting enzyme 2, ...
著者Lan, J, Wang, C.H.
登録日2024-01-19
公開日2025-01-22
最終更新日2025-04-16
実験手法X-RAY DIFFRACTION (3.64 Å)
主引用文献Receptor binding mechanism and immune evasion capacity of SARS-CoV-2 BQ.1.1 lineage.
Virology, 600, 2024

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件を2025-07-09に公開中

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