Loading
PDBj
メニューPDBj@FacebookPDBj@TwitterPDBj@YouTubewwPDB FoundationwwPDB
RCSB PDBPDBeBMRBAdv. SearchSearch help

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
8F2E
DownloadVisualize
BU of 8f2e by Molmil
Crystal Structure of the CoV-Y domain of SARS-CoV-2 Nonstructural Protein 3
分子名称: GLYCEROL, Papain-like protease nsp3
著者Li, Y, Shi, W, Hao, B.
登録日2022-11-07
公開日2023-03-08
最終更新日2024-04-03
実験手法X-RAY DIFFRACTION (2.43 Å)
主引用文献Crystal structure of the CoV-Y domain of SARS-CoV-2 nonstructural protein 3.
Sci Rep, 13, 2023
7U8E
DownloadVisualize
BU of 7u8e by Molmil
Crystal structure of antibody Ab246 in complex with SARS-CoV-2 receptor binding domain
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, Antibody Ab246 Fab heavy chain, Antibody Ab246 Fab light chain, ...
著者Sankhala, R.S, Joyce, M.G.
登録日2022-03-08
公開日2023-03-15
最終更新日2024-02-14
実験手法X-RAY DIFFRACTION (2.29 Å)
主引用文献Antibody targeting of conserved sites of vulnerability on the SARS-CoV-2 spike receptor-binding domain.
Structure, 32, 2024
7XDL
DownloadVisualize
BU of 7xdl by Molmil
Cryo-EM structure of SARS-CoV-2 Delta Spike protein in complex with BA7208 and BA7125 fab
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, BA7125 fab, ...
著者Liu, Z, Liu, S, Yuanzhu, G.
登録日2022-03-27
公開日2023-03-15
実験手法ELECTRON MICROSCOPY (3.08 Å)
主引用文献Biparatopic antibody BA7208/7125 effectively neutralizes SARS-CoV-2 variants including Omicron BA.1-BA.5.
Cell Discov, 9, 2023
8AQW
DownloadVisualize
BU of 8aqw by Molmil
BA.4/5 SARS-CoV-2 Spike bound to mouse ACE2 (local)
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,Ig gamma-2A chain C region, ...
著者Lau, K, Ni, D, Beckert, B, Nazarov, S, Myasnikov, A, Pojer, F, Stahlberg, H, Uchikawa, E.
登録日2022-08-13
公開日2023-03-15
最終更新日2023-04-19
実験手法ELECTRON MICROSCOPY (3.3 Å)
主引用文献Cryo-EM structures and binding of mouse and human ACE2 to SARS-CoV-2 variants of concern indicate that mutations enabling immune escape could expand host range.
Plos Pathog., 19, 2023
7WQA
DownloadVisualize
BU of 7wqa by Molmil
SARS-CoV-2 main protease in complex with Z-VAD-FMK
分子名称: 3C-like proteinase, Z-VAD(OMe)-FMK
著者Wang, Y.C, Yang, C.S, Hou, M.H, Tsai, C.L, Chen, Y.
登録日2022-01-25
公開日2023-03-22
実験手法X-RAY DIFFRACTION (1.8 Å)
主引用文献SARS-CoV-2 main protease in complex with Z-VAD-FMK
To Be Published
7X93
DownloadVisualize
BU of 7x93 by Molmil
The SARS-CoV-2 receptor binding domain bound with the Fab fragment of a human neutralizing antibody Ab765
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, Ab765 heavy chain, ...
著者Kamada, K, Shirouzu, M.
登録日2022-03-15
公開日2023-03-22
最終更新日2023-09-13
実験手法ELECTRON MICROSCOPY (3.3 Å)
主引用文献Potent neutralizing broad-spectrum antibody against SARS-CoV-2 generated from dual-antigen-specific B cells from convalescents.
Iscience, 26, 2023
7X94
DownloadVisualize
BU of 7x94 by Molmil
The SARS-CoV-2 receptor binding domain bound with the Fab fragment of a human neutralizing antibody Ab712
分子名称: Ab712 heavy chain, Ab712 light chain, Spike glycoprotein, ...
著者Kamada, K, Shirouzu, M.
登録日2022-03-15
公開日2023-03-22
最終更新日2023-09-13
実験手法ELECTRON MICROSCOPY (4 Å)
主引用文献Potent neutralizing broad-spectrum antibody against SARS-CoV-2 generated from dual-antigen-specific B cells from convalescents.
Iscience, 26, 2023
7X95
DownloadVisualize
BU of 7x95 by Molmil
The SARS-CoV-2 receptor binding domain bound with the Fab fragment of a human neutralizing antibody Ab709
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Ab709 heavy chain, Ab709 light chain, ...
著者Kamada, K, Shirouzu, M.
登録日2022-03-15
公開日2023-03-22
最終更新日2023-09-13
実験手法ELECTRON MICROSCOPY (3.9 Å)
主引用文献Potent neutralizing broad-spectrum antibody against SARS-CoV-2 generated from dual-antigen-specific B cells from convalescents.
Iscience, 26, 2023
7X96
DownloadVisualize
BU of 7x96 by Molmil
The SARS-CoV-2 receptor binding domain bound with the Fab fragment of a human neutralizing antibody Ab847
分子名称: Ab847 heavy chain, Ab847 light chain, Spike glycoprotein, ...
著者Kamada, K, Shirouzu, M.
登録日2022-03-15
公開日2023-03-22
最終更新日2023-09-13
実験手法ELECTRON MICROSCOPY (3.4 Å)
主引用文献Potent neutralizing broad-spectrum antibody against SARS-CoV-2 generated from dual-antigen-specific B cells from convalescents.
Iscience, 26, 2023
7XB4
DownloadVisualize
BU of 7xb4 by Molmil
Crystal structure of SARS-Cov-2 main protease D48N mutant in complex with PF07321332
分子名称: (1R,2S,5S)-N-{(1E,2S)-1-imino-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, Replicase polyprotein 1a
著者Hu, X.H, Li, J, Zhang, J.
登録日2022-03-20
公開日2023-03-22
最終更新日2023-11-29
実験手法X-RAY DIFFRACTION (2.07 Å)
主引用文献Crystal structure of SARS-Cov-2 main protease D48N mutant in complex with PF07321332
To Be Published
7Z3U
DownloadVisualize
BU of 7z3u by Molmil
Crystal structure of SARS-CoV-2 Main Protease after incubation with Sulfo-Calpeptin
分子名称: 3C-like proteinase nsp5, CHLORIDE ION, Calpetin, ...
著者Reinke, P.Y.A, Falke, S, Lieske, J, Ewert, W, Loboda, J, Rahmani Mashhour, A, Hauser, M, Karnicar, K, Usenik, A, Lindic, N, Lach, M, Boehler, H, Beck, T, Cox, R, Chapman, H.N, Hinrichs, W, Turk, D, Guenther, S, Meents, A.
登録日2022-03-02
公開日2023-03-22
最終更新日2024-07-10
実験手法X-RAY DIFFRACTION (1.72 Å)
主引用文献Calpeptin is a potent cathepsin inhibitor and drug candidate for SARS-CoV-2 infections.
Commun Biol, 6, 2023
7Z4S
DownloadVisualize
BU of 7z4s by Molmil
Crystal structure of SARS-CoV-2 Mpro in complex with cyclic peptide GM4 including unnatural amino acids.
分子名称: 1,2-ETHANEDIOL, 3C-like proteinase nsp5, DI(HYDROXYETHYL)ETHER, ...
著者Owen, C.D, Miura, T, Malla, T, Lukacik, L, Strain-Damerell, C.M, Tumber, A, Brewitz, L, McDonough, M.A, Salah, E, Terasaka, N, Katoh, T, Kawamura, A, Schofield, C.J, Suga, H, Walsh, M.A.
登録日2022-03-04
公開日2023-03-22
最終更新日2024-02-07
実験手法X-RAY DIFFRACTION (1.7 Å)
主引用文献In vitro selection of macrocyclic peptide inhibitors containing cyclic gamma 2,4 -amino acids targeting the SARS-CoV-2 main protease.
Nat.Chem., 15, 2023
8BBN
DownloadVisualize
BU of 8bbn by Molmil
SARS-CoV-2 Delta-RBD complexed with BA.2-10 and EY6A Fabs
分子名称: BA.2-10 heavy chain, BA.2-10 light chain, EY6A Heavy chain, ...
著者Zhou, D, Ren, J, Stuart, D.I.
登録日2022-10-14
公開日2023-03-22
最終更新日2024-02-07
実験手法X-RAY DIFFRACTION (3.58 Å)
主引用文献Rapid escape of new SARS-CoV-2 Omicron variants from BA.2-directed antibody responses.
Cell Rep, 42, 2023
8BBO
DownloadVisualize
BU of 8bbo by Molmil
SARS-CoV-2 Delta-RBD complexed with BA.2-36 Fab
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, IGH@ protein, Immunoglobulin kappa light chain, ...
著者Zhou, D, Ren, J, Stuart, D.I.
登録日2022-10-14
公開日2023-03-22
最終更新日2024-02-07
実験手法X-RAY DIFFRACTION (2.75 Å)
主引用文献Rapid escape of new SARS-CoV-2 Omicron variants from BA.2-directed antibody responses.
Cell Rep, 42, 2023
8BCZ
DownloadVisualize
BU of 8bcz by Molmil
SARS-CoV-2 Delta-RBD complexed with Fabs BA.2-36, BA.2-23, EY6A and COVOX-45
分子名称: BA.2-23 heavy chain, BA.2-23 light chain, BA.2-36 heavy chain, ...
著者Duyvesteyn, H.M.E, Ren, J, Stuart, D.I.
登録日2022-10-17
公開日2023-03-22
最終更新日2023-04-12
実験手法ELECTRON MICROSCOPY (2.9 Å)
主引用文献Rapid escape of new SARS-CoV-2 Omicron variants from BA.2-directed antibody responses.
Cell Rep, 42, 2023
8C3V
DownloadVisualize
BU of 8c3v by Molmil
SARS-CoV-2 Delta-RBD complexed with BA.2-13 Fab and C1 nanobody
分子名称: 2-(2-METHOXYETHOXY)ETHANOL, BA.2-13 heavy chain, BA.2-13 light chain, ...
著者Zhou, D, Ren, J, Stuart, D.I.
登録日2022-12-28
公開日2023-03-22
最終更新日2024-02-07
実験手法X-RAY DIFFRACTION (2.74 Å)
主引用文献Rapid escape of new SARS-CoV-2 Omicron variants from BA.2-directed antibody responses.
Cell Rep, 42, 2023
8D0Z
DownloadVisualize
BU of 8d0z by Molmil
S728-1157 IgG in complex with SARS-CoV-2-6P-Mut7 Spike protein (focused refinement)
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, S728-1157 Fab heavy chain variable region, S728-1157 Fab light chain variable region, ...
著者Ozorowski, G, Torres, J.L, Ward, A.B.
登録日2022-05-26
公開日2023-03-22
最終更新日2023-05-03
実験手法ELECTRON MICROSCOPY (3.7 Å)
主引用文献Site of vulnerability on SARS-CoV-2 spike induces broadly protective antibody against antigenically distinct Omicron subvariants.
J.Clin.Invest., 133, 2023
8H3E
DownloadVisualize
BU of 8h3e by Molmil
Complex structure of a small molecule (SPC-14) bound SARS-CoV-2 spike protein, closed state
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, 7-(6-nitro-2,3-dihydroindol-1-yl)-7-oxidanylidene-heptanoic acid, Spike glycoprotein,Fibritin
著者Meng, F, Wang, Q, Xie, Y, Ni, X, Huang, N.
登録日2022-10-08
公開日2023-03-22
実験手法ELECTRON MICROSCOPY (3.06 Å)
主引用文献In Silico Discovery of Small Molecule Modulators Targeting the Achilles' Heel of SARS-CoV-2 Spike Protein.
Acs Cent.Sci., 9, 2023
8FA1
DownloadVisualize
BU of 8fa1 by Molmil
Cryo-EM structure of the SARS-CoV-2 HR1HR2 fusion core complex with N969K mutation
分子名称: Ferritin, Dps family protein and Spike protein S2' chimera, Spike protein S2' HR2
著者Yang, K, Brunger, A.T.
登録日2022-11-25
公開日2023-03-29
最終更新日2024-06-19
実験手法ELECTRON MICROSCOPY (2.51 Å)
主引用文献Structure-based design of a SARS-CoV-2 Omicron-specific inhibitor.
Proc.Natl.Acad.Sci.USA, 120, 2023
8FA2
DownloadVisualize
BU of 8fa2 by Molmil
Cryo-EM structure of the SARS-CoV-2 Omicron HR1-42G complex
分子名称: Scaffolded Spike protein S2' HR1, Spike protein S2' 42G
著者Yang, K, Brunger, A.T.
登録日2022-11-25
公開日2023-03-29
最終更新日2024-06-19
実験手法ELECTRON MICROSCOPY (2.82 Å)
主引用文献Structure-based design of a SARS-CoV-2 Omicron-specific inhibitor.
Proc.Natl.Acad.Sci.USA, 120, 2023
8EUA
DownloadVisualize
BU of 8eua by Molmil
Structure of SARS-CoV2 PLpro bound to a covalent inhibitor
分子名称: Papain-like protease nsp3, SULFATE ION, ZINC ION, ...
著者Mathews, I.I, Pokhrel, S, Wakatsuki, S.
登録日2022-10-18
公開日2023-04-05
最終更新日2023-10-25
実験手法X-RAY DIFFRACTION (3.1 Å)
主引用文献Potent and selective covalent inhibition of the papain-like protease from SARS-CoV-2.
Nat Commun, 14, 2023
8FU8
DownloadVisualize
BU of 8fu8 by Molmil
Structure of Covid Spike variant deltaN135 with one erect RBD
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, Spike glycoprotein
著者Yu, X, Juraszek, J, Rutten, L, Bakkers, M.J.G, Blokland, S, Van den Broek, N.J.F, Verwilligen, A.Y.W, Abeywickrema, P, Vingerhoets, J, Neefs, J, Bakhash, S.A.M, Roychoudhury, P, Greninger, A, Sharma, S, Langedijk, J.P.M.
登録日2023-01-16
公開日2023-04-05
最終更新日2024-04-24
実験手法ELECTRON MICROSCOPY (3.08 Å)
主引用文献Convergence of immune escape strategies highlights plasticity of SARS-CoV-2 spike.
Plos Pathog., 19, 2023
8FU9
DownloadVisualize
BU of 8fu9 by Molmil
Structure of Covid Spike variant deltaN25 with one erect RBD
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, Spike glycoprotein
著者Yu, X, Juraszek, J, Rutten, L, Bakkers, M.J.G, Blokland, S, Van den Broek, N.J.F, Verwilligen, A.Y.W, Abeywickrema, P, Vingerhoets, J, Neefs, J, Bakhash, S.A.M, Roychoudhury, P, Greninger, A, Sharma, S, Langedijk, J.P.M.
登録日2023-01-16
公開日2023-04-05
最終更新日2024-04-24
実験手法ELECTRON MICROSCOPY (3.52 Å)
主引用文献Convergence of immune escape strategies highlights plasticity of SARS-CoV-2 spike.
Plos Pathog., 19, 2023
8GJM
DownloadVisualize
BU of 8gjm by Molmil
17b10 fab in complex with full-length SARS-CoV-2 Spike G614 trimer
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, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose, ...
著者Kwon, H.J, Zhang, J, Kosikova, M, Tang, W.C, Rodriguez, U.O, Peng, H.Q, Meseda, C.A, Pedro, C.L, Schmeisser, F, Lu, J.M, Zhou, B, Davis, C.T, Wentworth, D.E, Chen, W.H, Shriver, M.C, Pasetti, M.F, Weir, J.P, Chen, B, Xie, H.
登録日2023-03-16
公開日2023-04-05
最終更新日2023-04-19
実験手法ELECTRON MICROSCOPY (2.8 Å)
主引用文献Distinct in vitro and in vivo neutralization profiles of monoclonal antibodies elicited by the receptor binding domain of the ancestral SARS-CoV-2.
J Med Virol, 95, 2023
8GJN
DownloadVisualize
BU of 8gjn by Molmil
17B10 fab in complex with up-RBD of SARS-CoV-2 Spike G614 trimer
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, Heavy chain of 17B10 Fab, Light chain of 17B10 Fab, ...
著者Kwon, H.J, Zhang, J, Kosikova, M, Tang, W.C, Rodriguez, U.O, Peng, H.Q, Meseda, C.A, Pedro, C.L, Schmeisser, F, Lu, J.M, Zhou, B, Davis, C.T, Wentworth, D.E, Chen, W.H, Shriver, M.C, Pasetti, M.F, Weir, J.P, Chen, B, Xie, H.
登録日2023-03-16
公開日2023-04-05
最終更新日2023-04-19
実験手法ELECTRON MICROSCOPY (3.6 Å)
主引用文献Distinct in vitro and in vivo neutralization profiles of monoclonal antibodies elicited by the receptor binding domain of the ancestral SARS-CoV-2.
J Med Virol, 95, 2023

222624

件を2024-07-17に公開中

PDB statisticsPDBj update infoContact PDBjnumon