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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。

「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。 「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。

作成日: 2020-03-11 (最終更新日: 3 days ago)2020-06-30
代表構造 (98)全エントリー
6XE1
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STRUCTURE OF SARS-COV-2 SPIKE PROTEIN RECEPTOR BINDING DOMAIN IN COMPLEX WITH A POTENT NEUTRALIZING ANTIBODY, CV30 FAB
分子名称:CV30 Fab Heavy chain, CV30 Fab Kappa chain, Spike protein S1, ...
著者Hurlburt, N.K., Pancera, M.
登録日2020-06-11
公開日2020-07-01
実験手法X-RAY DIFFRACTION (2.75 Å)
主引用文献Structural basis for potent neutralization of SARS-CoV-2 and role of antibody affinity maturation
To Be Published
6XIP
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THE 1.5 A CRYSTAL STRUCTURE OF THE CO-FACTOR COMPLEX OF NSP7 AND THE C-TERMINAL DOMAIN OF NSP8 FROM SARS COV-2
分子名称:Non-structural protein 7, Non-structural protein 8, 1,2-ETHANEDIOL
著者Wilamowski, M., Kim, Y., Jedrzejczak, R., Maltseva, N., Endres, M., Godzik, A., Michalska, K., Joachimiak, A., Center for Structural Genomics of Infectious Diseases (CSGID)
登録日2020-06-20
公開日2020-07-01
実験手法X-RAY DIFFRACTION (1.5 Å)
主引用文献The 1.5 A Crystal Structure of the Co-factor Complex of NSP7 and the C-terminal Domain of NSP8 from SARS CoV-2
To Be Published
6XCM
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STRUCTURE OF THE SARS-COV-2 SPIKE GLYCOPROTEIN IN COMPLEX WITH THE C105 NEUTRALIZING ANTIBODY FAB FRAGMENT (STATE 1)
分子名称:Spike glycoprotein, C105 Fab Heavy Chain, C105 Fab Light Chain, ...
著者Barnes, C.O., Bjorkman, P.J.
登録日2020-06-08
公開日2020-07-01
実験手法ELECTRON MICROSCOPY (3.42 Å)
主引用文献Structures of human antibodies bound to SARS-CoV-2 spike reveal common epitopes and recurrent features of antibodies
Cell(Cambridge,Mass.), 2020
7C2L
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S PROTEIN OF SARS-COV-2 IN COMPLEX BOUND WITH 4A8
分子名称:Spike glycoprotein, heavy chain of 4A8, light chain of 4A8, ...
著者Yan, R.H., Zhang, Y.Y., Guo, Y.Y., Li, Y.N., Xia, L., Zhou, Q.
登録日2020-05-08
公開日2020-07-01
実験手法ELECTRON MICROSCOPY (3.1 Å)
主引用文献A neutralizing human antibody binds to the N-terminal domain of the Spike protein of SARS-CoV-2
Science, 2020
6Z97
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STRUCTURE OF THE PREFUSION SARS-COV-2 SPIKE GLYCOPROTEIN
分子名称:Spike glycoprotein,Fibritin, N-ACETYL-D-GLUCOSAMINE
著者Duyvesteyn, H.M.E., Ren, J., Zhao, Y., Zhou, D., Huo, J., Carrique, L., Malinauskas, T., Ruza, R.R., Shah, P.N.M., Fry, E.E., Owens, R., Stuart, D.I.
登録日2020-06-03
公開日2020-07-01
実験手法ELECTRON MICROSCOPY (3.4 Å)
主引用文献Neutralization of SARS-CoV-2 by destruction of the prefusion Spike
To Be Published
6ZDH
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SARS-COV-2 SPIKE GLYCOPROTEIN IN COMPLEX WITH A NEUTRALIZING ANTIBODY EY6A FAB
分子名称:Spike glycoprotein, EY6A heavy chain, EY6A light chain, ...
著者Duyvesteyn, H.M.E., Zhou, D., Zhao, Y., Fry, E.E., Ren, J., Stuart, D.I.
登録日2020-06-14
公開日2020-07-01
実験手法ELECTRON MICROSCOPY (3.7 Å)
主引用文献Structural basis for the neutralization of SARS-CoV-2 by an antibody from a convalescent patient
To Be Published
6ZCO
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CRYSTAL STRUCTURE OF C-TERMINAL DIMERIZATION DOMAIN OF NUCLEOCAPSID PHOSPHOPROTEIN FROM SARS-COV-2, CRYSTAL FORM II
分子名称:Nucleoprotein
著者Zinzula, L., Basquin, J., Nagy, I., Bracher, A.
登録日2020-06-11
公開日2020-07-01
実験手法X-RAY DIFFRACTION (1.361 Å)
主引用文献Crystal Structure of C-terminal Dimerization Domain of Nucleocapsid Phosphoprotein from SARS-CoV-2, crystal form II
To Be Published
6ZGI
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FURIN CLEAVED SPIKE PROTEIN OF SARS-COV-2 IN CLOSED CONFORMATION
分子名称:Spike glycoprotein, N-ACETYL-D-GLUCOSAMINE
著者Wrobel, A.G., Benton, D.J., Rosenthal, P.B., Gamblin, S.J.
登録日2020-06-18
公開日2020-07-01
実験手法ELECTRON MICROSCOPY (2.9 Å)
主引用文献Evolution of SARS-CoV-2 spike glycoprotein
To be published
6ZGE
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UNCLEAVABLE SPIKE PROTEIN OF SARS-COV-2 IN CLOSED CONFORMATION
分子名称:Spike glycoprotein, N-ACETYL-D-GLUCOSAMINE
著者Wrobel, A.G., Benton, D.J., Rosenthal, P.B., Gamblin, S.J.
登録日2020-06-18
公開日2020-07-01
実験手法ELECTRON MICROSCOPY (2.6 Å)
主引用文献Evolution of SARS-CoV-2 spike glycoprotein
To be published
7CAN
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STRUCTURE OF SYBODY MR17-K99Y IN COMPLEX WITH THE SARS-COV-2 S RECEPTOR-BINDING DOMAIN (RBD)
分子名称:sybody MR17-K99Y, Spike glycoprotein, N-ACETYL-D-GLUCOSAMINE, ...
著者Li, T., Yao, H., Cai, H., Qin, W., Li, D.
登録日2020-06-09
公開日2020-06-24
実験手法X-RAY DIFFRACTION (2.94 Å)
主引用文献Potent synthetic nanobodies against SARS-CoV-2 and molecular basis for neutratlization
To Be Published
6XDG
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COMPLEX OF SARS-COV-2 RECEPTOR BINDING DOMAIN WITH THE FAB FRAGMENTS OF TWO NEUTRALIZING ANTIBODIES
分子名称:Spike glycoprotein, REGN10933 antibody Fab fragment light chain, REGN10933 antibody Fab fragment heavy chain, ...
著者Franklin, M.C., Saotome, K., Romero Hernandez, A., Zhou, Y.
登録日2020-06-10
公開日2020-06-24
実験手法ELECTRON MICROSCOPY (3.9 Å)
主引用文献Studies in humanized mice and convalescent humans yield a SARS-CoV-2 antibody cocktail.
Science, 2020
6ZER
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CRYSTAL STRUCTURE OF RECEPTOR BINDING DOMAIN OF SARS-COV-2 SPIKE GLYCOPROTEIN IN COMPLEX WITH EY6A FAB
分子名称:RBD, heavy chain, light chain, ...
著者Zhou, D., Zhao, Y., Fry, E.E., Ren, J., Stuart, D.I.
登録日2020-06-16
公開日2020-06-24
実験手法X-RAY DIFFRACTION (3.8 Å)
主引用文献Structural basis for the neutralization of SARS-CoV-2 by an antibody from a convalescent patient
To Be Published
7C8W
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STRUCTURE OF SYBODY MR17 IN COMPLEX WITH THE SARS-COV-2 S RECEPTOR-BINDING DOMAIN (RBD)
分子名称:Synthetic nanobody MR17, Spike glycoprotein, N-ACETYL-D-GLUCOSAMINE, ...
著者Li, T., Cai, H., Yao, H., Qin, W., Li, D.
登録日2020-06-03
公開日2020-06-24
実験手法X-RAY DIFFRACTION (2.77 Å)
主引用文献Rapid selection of synthetic nanobodies against the receptor binding domain of SARS-CoV-2 S protein
To Be Published
6ZCZ
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CRYSTAL STRUCTURE OF RECEPTOR BINDING DOMAIN OF SARS-COV-2 SPIKE GLYCOPROTEIN IN TERNARY COMPLEX WITH EY6A FAB AND A NANOBODY.
分子名称:Spike glycoprotein, Nanobody, EY6A heavy chain, ...
著者Zhou, D., Zhao, Y., Fry, E.E., Ren, J., Stuart, D.I.
登録日2020-06-12
公開日2020-06-24
実験手法X-RAY DIFFRACTION (2.65 Å)
主引用文献Structural basis for the neutralization of SARS-CoV-2 by an antibody from a convalescent patient
To Be Published
6ZCT
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NONSTRUCTURAL PROTEIN 10 (NSP10) FROM SARS COV-2
分子名称:nsp10, ZINC ION
著者Fisher, S.Z., Kozielski, F.
登録日2020-06-12
公開日2020-06-24
実験手法X-RAY DIFFRACTION (2.55 Å)
主引用文献not published
To Be Published
7C8V
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STRUCTURE OF SYBODY SR4 IN COMPLEX WITH THE SARS-COV-2 S RECEPTOR BINDING DOMAIN (RBD)
分子名称:Synthetic nanobody SR4, Spike glycoprotein, GLYCEROL, ...
著者Li, T., Yao, H., Cai, H., Qin, W., Li, D.
登録日2020-06-03
公開日2020-06-24
実験手法X-RAY DIFFRACTION (2.15 Å)
主引用文献Potent synthetic nanobodies against SARS-CoV-2 and molecular basis for neutratlization
To Be Published
6XDH
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CRYSTAL STRUCTURE OF NENDOU (URIDYLATE-SPECIFIC ENDORIBONUCLEASE, NSP15) FROM BETACORONAVIRUS SARS-COV-2
分子名称:Uridylate-specific endoribonuclease, ACETATE ION, CITRIC ACID, ...
著者Seattle Structural Genomics Center for Infectious Disease, Seattle Structural Genomics Center for Infectious Disease (SSGCID)
登録日2020-06-10
公開日2020-06-17
実験手法X-RAY DIFFRACTION (2.35 Å)
主引用文献Crystal Structure of NendoU (Uridylate-specific endoribonuclease, nsp15) from Betacoronavirus SARS-CoV-2
to be published
6XAA
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SARS COV-2 PLPRO IN COMPLEX WITH UBIQUITIN PROPARGYLAMIDE
分子名称:Papain-like protease, Ubiquitin-propargylamide, ZINC ION
著者Klemm, T., Calleja, D.J., Richardson, L.W., Lechtenberg, B.C., Komander, D.
登録日2020-06-04
公開日2020-06-17
実験手法X-RAY DIFFRACTION (2.7 Å)
主引用文献SARS CoV-2 PLpro in complex with ubiquitin propargylamide
To Be Published
6XBG
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CRYSTAL STRUCTURE OF THE SARS-COV-2 (COVID-19) MAIN PROTEASE IN COMPLEX WITH INHIBITOR UAW246
分子名称:main protease, inhibitor UAW246, GLYCEROL, ...
著者Sacco, M., Ma, C., Wang, J., Chen, Y.
登録日2020-06-05
公開日2020-06-17
実験手法X-RAY DIFFRACTION (1.45 Å)
主引用文献Crystal structure of the SARS-CoV-2 (COVID-19) main protease in complex with inhibitor UAW246
To Be Published
6Z4U
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X-RAY CRYSTALLOGRAPHIC STRUCTURE OF ORF9B FROM SARS-COV-2
分子名称:Protein 9b, POLYETHYLENE GLYCOL (N=34)
著者Weeks, S.D., De Graef, S., Munawar, A.
登録日2020-05-25
公開日2020-06-17
実験手法X-RAY DIFFRACTION (1.95 Å)
主引用文献X-ray Crystallographic Structure of Orf9b from SARS-CoV-2
To Be Published
6XBI
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CRYSTAL STRUCTURE OF THE SARS-COV-2 (COVID-19) MAIN PROTEASE IN COMPLEX WITH INHIBITOR UAW248
分子名称:main protease, inhibitor UAW248, GLYCEROL, ...
著者Sacco, M., Ma, C., Wang, J., Chen, Y.
登録日2020-06-06
公開日2020-06-17
実験手法X-RAY DIFFRACTION (1.7 Å)
主引用文献Crystal structure of the SARS-CoV-2 (COVID-19) main protease in complex with inhibitor UAW248
To Be Published
6XA4
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CRYSTAL STRUCTURE OF THE SARS-COV-2 (COVID-19) MAIN PROTEASE IN COMPLEX WITH UAW241
分子名称:main protease, inhibitor UAW241, GLYCEROL
著者Sacco, M., Ma, C., Wang, J., Chen, Y.
登録日2020-06-03
公開日2020-06-17
実験手法X-RAY DIFFRACTION (1.65 Å)
主引用文献Crystal structure of the SARS-CoV-2 (COVID-19) main protease in complex with UAW241
To Be Published
7BQ7
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CRYSTAL STRUCTURE OF 2019-NCOV NSP16-NSP10 COMPLEX
分子名称:SARS-CoV-2 nsp16, SARS-CoV-2 nsp10, S-ADENOSYLMETHIONINE, ...
著者Yan, L.M., Huang, Y.C., Lou, Z.Y., Rao, Z.H.
登録日2020-03-24
公開日2020-06-17
実験手法X-RAY DIFFRACTION (2.37 Å)
主引用文献Crystal structure of 2019-nCoV nsp16-nsp10 complex
To Be Published
6XA9
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SARS COV-2 PLPRO IN COMPLEX WITH ISG15 C-TERMINAL DOMAIN PROPARGYLAMIDE
分子名称:Papain-like protease, ISG15 CTD-propargylamide, GLYCEROL, ...
著者Klemm, T., Calleja, D.J., Richardson, L.W., Lechtenberg, B.C., Komander, D.
登録日2020-06-04
公開日2020-06-17
実験手法X-RAY DIFFRACTION (2.9 Å)
主引用文献SARS CoV-2 PLpro in complex with ISG15 C-terminal domain propargylamide
To Be Published
6M5I
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CRYSTAL STRUCTURE OF 2019-NCOV NSP7-NSP8C COMPLEX
分子名称:SARS-CoV-2 nsp8, SARS-CoV-2 nsp7
著者Yan, L.M., Ge, J., Zhao, Y., Lou, Z.Y., Rao, Z.H.
登録日2020-03-10
公開日2020-06-17
実験手法X-RAY DIFFRACTION (2.496 Å)
主引用文献Crystal structure of 2019-nCoV nsp7-nsp8c complex
To Be Published