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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)
8XEF
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BU of 8xef by Molmil
Cocktail GC2050-GC2225
分子名称: GC2050 heavy chain, GC2050 light chain, GC2225 heavy chain, ...
著者Feng, L.L.
登録日2023-12-11
公開日2024-12-11
最終更新日2025-07-02
実験手法ELECTRON MICROSCOPY (4.41 Å)
主引用文献XBB.1.5 RBD in complex with GC2050 and GC2225
To Be Published
9CJ6
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BU of 9cj6 by Molmil
Crystal Structure of SARS-CoV-2 N-NTD with part of N-arm complex with ssDNA.
分子名称: DNA (5'-D(P*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*T)-3'), Nucleoprotein
著者Maiti, A, Matsuo, H.
登録日2024-07-05
公開日2024-12-11
最終更新日2025-01-22
実験手法X-RAY DIFFRACTION (1.55 Å)
主引用文献Affinity Tag-Free Purification of SARS-CoV-2 N Protein and Its Crystal Structure in Complex with ssDNA.
Biomolecules, 14, 2024
8JAP
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BU of 8jap by Molmil
Cryo-EM structure of SARS-CoV-2 WT RBD in complex with W328-6H2 (local refinement)
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, H chain of W328-6H2 Fab region, L chain of W328-6H2 Fab region, ...
著者Nan, X.Y, Li, Y.J.
登録日2023-05-06
公開日2024-12-18
実験手法ELECTRON MICROSCOPY (3.81 Å)
主引用文献Cryo-EM structure of SARS-CoV-2 WT RBD in complex with W328-6H2 (local refinement)
To Be Published
8V5V
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BU of 8v5v by Molmil
Structure of a SARS-CoV-2 spike S2 subunit in a pre-fusion, open conformation
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 protein S2,Fibritin, ...
著者Olmedillas, E, Diaz, R, Hastie, K, Ollmann-Saphire, E.
登録日2023-12-01
公開日2024-12-18
実験手法ELECTRON MICROSCOPY (2.93 Å)
主引用文献Structure of a SARS-CoV-2 spike S2 subunit in a pre-fusion, open conformation
To Be Published
8XRQ
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BU of 8xrq by Molmil
SARS-CoV-2 BA.1 spike RBD in complex bound with VacBB-639
分子名称: Heavy chain of VacBB 639 Fab, Light chain of VacBB 639 Fab, Spike protein S1
著者Liu, C.C, Ju, B, Zhang, Z.
登録日2024-01-08
公開日2024-12-18
最終更新日2025-03-26
実験手法ELECTRON MICROSCOPY (4.19 Å)
主引用文献Rapid clonal expansion and somatic hypermutation contribute to the fate of SARS-CoV-2 broadly neutralizing antibodies.
J Immunol., 214, 2025
9BIH
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BU of 9bih by Molmil
SARS-CoV-2 endoribonuclease Nsp15 bound to dsRNA with 1 nucleotide bulge
分子名称: RNA (34-mer), RNA (35-mer), Uridylate-specific endoribonuclease nsp15
著者Wright, Z.M, Butay, K.J, Krahn, J.M, Borgnia, M.J, Stanley, R.E.
登録日2024-04-23
公開日2024-12-18
最終更新日2025-01-15
実験手法ELECTRON MICROSCOPY (3.24 Å)
主引用文献Spontaneous base flipping helps drive Nsp15's preferences in double stranded RNA substrates.
Nat Commun, 16, 2025
8ZPP
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BU of 8zpp by Molmil
Local CryoEM structure of the SARS-CoV-2 BA.5 in complex with ORB10 Fab
分子名称: Spike glycoprotein,Fibritin, variable heavy chain of ORB10 Fab, variable light chain of ORB10 Fab
著者Cao, S, Leng, C, Hu, H.
登録日2024-05-30
公開日2024-12-25
実験手法ELECTRON MICROSCOPY (3.6 Å)
主引用文献Local CryoEM structure of the SARS-CoV-2 BA.5 in complex with ORB10 Fab
To Be Published
9BF9
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BU of 9bf9 by Molmil
Human LAG-3-HLA-DR1 complex
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, DI(HYDROXYETHYL)ETHER, HLA class II histocompatibility antigen DR beta chain, ...
著者Petersen, J, Rossjohn, J.
登録日2024-04-17
公開日2024-12-25
実験手法X-RAY DIFFRACTION (3.4 Å)
主引用文献Crystal structure of the human LAG-3-HLA-DR1-peptide complex.
Sci Immunol, 9, 2024
8RJ5
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BU of 8rj5 by Molmil
P1-15 T-cell Receptor bound to HLA A*2402-NF9 pMHC complex
分子名称: Beta-2-microglobulin, MHC class I antigen, P1-15 T-cell Receptor Alpha Chain, ...
著者Wall, A, Sewell, A.K, Motozono, C, Rizkallah, P.J, Fuller, A.
登録日2023-12-20
公開日2025-01-01
実験手法X-RAY DIFFRACTION (3.02 Å)
主引用文献NF9 T-cell Receptor bound to HLA A*2402-NF9 pMHC complex (Paper Pending)
To Be Published
8RJH
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BU of 8rjh by Molmil
HLA A*2402-NF9_6F pMHC complex
分子名称: ASN-TYR-ASN-TYR-LEU-PHE-ARG-LEU-PHE, Beta-2-microglobulin, MHC class I antigen
著者Wall, A, Sewell, A.K, Motozono, C, Rizkallah, P.J, Fuller, A.
登録日2023-12-21
公開日2025-01-01
実験手法X-RAY DIFFRACTION (2.6 Å)
主引用文献HLA A*2402-NF9_6F pMHC complex
To Be Published
8RJI
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BU of 8rji by Molmil
HLA A*2402-NF9_5R pMHC complex
分子名称: Beta-2-microglobulin, MHC class I antigen, Spike glycoprotein
著者Wall, A, Motozono, C, Sewell, A.K, Rizkallah, P.J, Fuller, A.
登録日2023-12-21
公開日2025-01-01
実験手法X-RAY DIFFRACTION (2.3 Å)
主引用文献HLA A*2402-NF9_5R pMHC complex
To Be Published
8Y4D
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BU of 8y4d by Molmil
Crystal structure of SARS-Cov-2 main protease in complex with Bofutrelvir
分子名称: 3C-like proteinase nsp5, ~{N}-[(2~{S})-3-cyclohexyl-1-oxidanylidene-1-[[(2~{S})-1-oxidanylidene-3-[(3~{S})-2-oxidanylidenepyrrolidin-3-yl]propan-2-yl]amino]propan-2-yl]-1~{H}-indole-2-carboxamide
著者Zhou, X.L, Wang, W.W, Zhang, J, Li, J.
登録日2024-01-30
公開日2025-01-08
実験手法X-RAY DIFFRACTION (1.91 Å)
主引用文献Crystal structure of SARS-Cov-2 main protease in complex with Bofutrelvir
To Be Published
8Y4G
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BU of 8y4g by Molmil
Crystal structure of SARS-Cov-2 main protease G15S mutant in complex with Bofutrelvir
分子名称: 3C-like proteinase nsp5, ~{N}-[(2~{S})-3-cyclohexyl-1-oxidanylidene-1-[[(2~{S})-1-oxidanylidene-3-[(3~{S})-2-oxidanylidenepyrrolidin-3-yl]propan-2-yl]amino]propan-2-yl]-1~{H}-indole-2-carboxamide
著者Zeng, P, Wang, W.W, Zhang, J, Li, J.
登録日2024-01-30
公開日2025-01-08
最終更新日2025-04-09
実験手法X-RAY DIFFRACTION (1.93 Å)
主引用文献Inhibitory efficacy and structural insights of Bofutrelvir against SARS-CoV-2 M pro mutants and MERS-CoV M pro.
Commun Biol, 8, 2025
8Y4H
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BU of 8y4h by Molmil
Crystal structure of SARS-Cov-2 main protease K90R mutant in complex with Bofutrelvir
分子名称: 3C-like proteinase nsp5, ~{N}-[(2~{S})-3-cyclohexyl-1-oxidanylidene-1-[[(2~{S})-1-oxidanylidene-3-[(3~{S})-2-oxidanylidenepyrrolidin-3-yl]propan-2-yl]amino]propan-2-yl]-1~{H}-indole-2-carboxamide
著者Guo, L, Wang, W.W, Zhang, J, Li, J.
登録日2024-01-30
公開日2025-01-08
最終更新日2025-04-09
実験手法X-RAY DIFFRACTION (1.93 Å)
主引用文献Inhibitory efficacy and structural insights of Bofutrelvir against SARS-CoV-2 M pro mutants and MERS-CoV M pro.
Commun Biol, 8, 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
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
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

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件を2025-07-09に公開中

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