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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。

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作成日: 2020-03-11 (最終更新日: yesterday)2020-08-13
全エントリー (325)代表構造 (124)最新のエントリー (8)
6XLU
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STRUCTURE OF SARS-COV-2 SPIKE AT PH 4.0
分子名称:Spike glycoprotein, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose
著者Zhou, T., Tsybovsky, Y., Olia, A., Kwong, P.D.
登録日2020-06-29
公開日2020-08-12
実験手法ELECTRON MICROSCOPY (2.4 Å)
主引用文献Cryo-EM Structures Delineate a pH-Dependent Switch that Mediates Endosomal Positioning of SARS-CoV-2 Spike Receptor-Binding Domains
Biorxiv, 2020
7CAH
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THE INTERFACE OF H014 FAB BINDS TO SARS-COV-2 S
分子名称:Light chain of H014 Fab, Heavy chain of H014 Fab, Spike glycoprotein
著者Zhe, L., Cao, L., Deng, Y., Sun, Y., Wang, N., Xie, L., Rao, Z., wang, Y., Qin, C., Wang, X.
登録日2020-06-08
公開日2020-08-12
実験手法ELECTRON MICROSCOPY (3.9 Å)
主引用文献Structural basis for neutralization of SARS-CoV-2 and SARS-CoV by a potent therapeutic antibody.
Science, 2020
6XM3
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STRUCTURE OF SARS-COV-2 SPIKE AT PH 5.5, SINGLE RBD UP, CONFORMATION 1
分子名称:Spike glycoprotein, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose
著者Zhou, T., Tsybovsky, Y., Olia, A., Kwong, P.D.
登録日2020-06-29
公開日2020-08-12
実験手法ELECTRON MICROSCOPY (2.9 Å)
主引用文献Cryo-EM Structures Delineate a pH-Dependent Switch that Mediates Endosomal Positioning of SARS-CoV-2 Spike Receptor-Binding Domains
Biorxiv, 2020
6XM0
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CONSENSUS STRUCTURE OF SARS-COV-2 SPIKE AT PH 5.5
分子名称:Spike glycoprotein, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose
著者Zhou, T., Tsybovsky, Y., Olia, A., Kwong, P.D.
登録日2020-06-29
公開日2020-08-12
実験手法ELECTRON MICROSCOPY (2.7 Å)
主引用文献Cryo-EM Structures Delineate a pH-Dependent Switch that Mediates Endosomal Positioning of SARS-CoV-2 Spike Receptor-Binding Domains
Biorxiv, 2020
6ZRU
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CRYSTAL STRUCTURE OF SARS COV2 MAIN PROTEASE IN COMPLEX WITH INHIBITOR BOCEPREVIR
分子名称:Main Protease, DIMETHYL SULFOXIDE, boceprevir (bound form)
著者Oerlemans, R., Wang, W., Lunev, S., Domling, A., Groves, M.R.
登録日2020-07-14
公開日2020-08-12
実験手法X-RAY DIFFRACTION (2.1 Å)
主引用文献Crystal structure of SARS CoV2 main protease in complex with inhibitor Boceprevir
To Be Published
7JN2
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THE CRYSTAL STRUCTURE OF PAPAIN-LIKE PROTEASE OF SARS COV-2 IN COMPLEX WITH PLP_SNYDER441
分子名称:Papain-Like Protease, 3-amino-2-methyl-N-[(1R)-1-(naphthalen-1-yl)ethyl]benzamide, ZINC ION, ...
著者Osipiuk, J., Tesar, C., Endres, M., Lisnyak, V., Maki, S., Taylor, C., Zhang, Y., Zhou, Z., Azizi, S.A., Jones, K., Kathayat, R., Snyder, S.A., Dickinson, B.C., Joachimiak, A., Center for Structural Genomics of Infectious Diseases (CSGID)
登録日2020-08-03
公開日2020-08-12
実験手法X-RAY DIFFRACTION (1.93 Å)
主引用文献The crystal structure of Papain-Like Protease of SARS CoV-2 in complex with PLP_Snyder441
to be published
6XM4
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STRUCTURE OF SARS-COV-2 SPIKE AT PH 5.5, SINGLE RBD UP, CONFORMATION 2
分子名称:Spike glycoprotein, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose
著者Zhou, T., Tsybovsky, Y., Olia, A., Kwong, P.D.
登録日2020-06-29
公開日2020-08-12
実験手法ELECTRON MICROSCOPY (2.9 Å)
主引用文献Cryo-EM Structures Delineate a pH-Dependent Switch that Mediates Endosomal Positioning of SARS-CoV-2 Spike Receptor-Binding Domains
Biorxiv, 2020
6ZRT
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CRYSTAL STRUCTURE OF SARS COV2 MAIN PROTEASE IN COMPLEX WITH INHIBITOR TELAPREVIR
分子名称:Main Protease, DIMETHYL SULFOXIDE, (1S,3aR,6aS)-2-[(2S)-2-({(2S)-2-cyclohexyl-2-[(pyrazin-2-ylcarbonyl)amino]acetyl}amino)-3,3-dimethylbutanoyl]-N-[(2R,3S)-1-(cyclopropylamino)-2-hydroxy-1-oxohexan-3-yl]octahydrocyclopenta[c]pyrrole-1-carboxamide
著者Oerlemans, R., Wang, W., Lunev, S., Domling, A., Groves, M.R.
登録日2020-07-14
公開日2020-08-12
実験手法X-RAY DIFFRACTION (2.1 Å)
主引用文献Crystal structure of SARS CoV2 main protease in complex with inhibitor Telaprevir
To Be Published
7JIT
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THE CRYSTAL STRUCTURE OF PAPAIN-LIKE PROTEASE OF SARS COV-2 , C111S MUTANT, IN COMPLEX WITH PLP_SNYDER495
分子名称:Papain-like protease, 5-[(carbamoylcarbamoyl)amino]-2-methyl-N-[(1R)-1-(naphthalen-1-yl)ethyl]benzamide, ZINC ION, ...
著者Osipiuk, J., Tesar, C., Endres, M., Lisnyak, V., Maki, S., Taylor, C., Zhang, Y., Zhou, Z., Azizi, S.A., Jones, K., Kathayat, R., Snyder, S.A., Dickinson, B.C., Joachimiak, A., Center for Structural Genomics of Infectious Diseases (CSGID)
登録日2020-07-23
公開日2020-08-05
実験手法X-RAY DIFFRACTION (1.95 Å)
主引用文献The crystal structure of Papain-Like Protease of SARS CoV-2 , C111S mutant, in complex with PLP_Snyder495
to be published
7JIW
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THE CRYSTAL STRUCTURE OF PAPAIN-LIKE PROTEASE OF SARS COV-2 IN COMPLEX WITH PLP_SNYDER530
分子名称:Papain-Like Protease, 5-(acryloylamino)-2-methyl-N-[(1R)-1-(naphthalen-1-yl)ethyl]benzamide, ZINC ION, ...
著者Osipiuk, J., Tesar, C., Endres, M., Lisnyak, V., Maki, S., Taylor, C., Zhang, Y., Zhou, Z., Azizi, S.A., Jones, K., Kathayat, R., Snyder, S.A., Dickinson, B.C., Joachimiak, A., Center for Structural Genomics of Infectious Diseases (CSGID)
登録日2020-07-23
公開日2020-08-05
実験手法X-RAY DIFFRACTION (2.3 Å)
主引用文献The crystal structure of Papain-Like Protease of SARS CoV-2 in complex with PLP_Snyder530
to be published
7JIV
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THE CRYSTAL STRUCTURE OF PAPAIN-LIKE PROTEASE OF SARS COV-2 , C111S MUTANT, IN COMPLEX WITH PLP_SNYDER530
分子名称:Papain-like protease, 5-(acryloylamino)-2-methyl-N-[(1R)-1-(naphthalen-1-yl)ethyl]benzamide, ZINC ION, ...
著者Osipiuk, J., Tesar, C., Endres, M., Lisnyak, V., Maki, S., Taylor, C., Zhang, Y., Zhou, Z., Azizi, S.A., Jones, K., Kathayat, R., Snyder, S.A., Dickinson, B.C., Joachimiak, A., Center for Structural Genomics of Infectious Diseases (CSGID)
登録日2020-07-23
公開日2020-08-05
実験手法X-RAY DIFFRACTION (2.05 Å)
主引用文献The crystal structure of Papain-Like Protease of SARS CoV-2 , C111S mutant, in complex with PLP_Snyder530
to be published
7JIR
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THE CRYSTAL STRUCTURE OF PAPAIN-LIKE PROTEASE OF SARS COV-2 , C111S MUTANT, IN COMPLEX WITH PLP_SNYDER457
分子名称:Papain-like protease, 5-amino-2-methyl-N-[(1R)-1-naphthalen-1-ylethyl]benzamide, ZINC ION, ...
著者Osipiuk, J., Tesar, C., Endres, M., Lisnyak, V., Maki, S., Taylor, C., Zhang, Y., Zhou, Z., Azizi, S.A., Jones, K., Kathayat, R., Snyder, S.A., Dickinson, B.C., Joachimiak, A., Center for Structural Genomics of Infectious Diseases (CSGID)
登録日2020-07-23
公開日2020-08-05
実験手法X-RAY DIFFRACTION (2.09 Å)
主引用文献The crystal structure of Papain-Like Protease of SARS CoV-2 , C111S mutant, in complex with PLP_Snyder457
to be published
6WC1
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PEPTIDE-BOUND SARS-COV-2 NSP9 RNA-REPLICASE
分子名称:SARS-coV-2 Non-structural protein 9, SULFATE ION
著者Littler, D.R., Gully, B.S., Rossjohn, J.
登録日2020-03-28
公開日2020-08-05
実験手法X-RAY DIFFRACTION (2.4 Å)
主引用文献Identification of a putative peptide-binding site at the dimer interface of the SARS-CoV-2 Nsp9 RNA-replicase.
To Be Published
6ZLW
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SARS-COV-2 NSP1 BOUND TO THE HUMAN 40S RIBOSOMAL SUBUNIT
分子名称:40S ribosomal protein SA, 40S ribosomal protein S3a, 40S ribosomal protein S2, ...
著者Thoms, M., Buschauer, R., Ameismeier, M., Denk, T., Kratzat, H., Mackens-Kiani, T., Cheng, J., Berninghausen, O., Becker, T., Beckmann, R.
登録日2020-07-01
公開日2020-07-29
実験手法ELECTRON MICROSCOPY (2.6 Å)
主引用文献Structural basis for translational shutdown and immune evasion by the Nsp1 protein of SARS-CoV-2.
Science, 2020
6ZP7
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SARS-COV-2 SPIKE IN PREFUSION STATE (FLEXIBILITY ANALYSIS, 1-UP OPEN CONFORMATION)
分子名称:Spike glycoprotein, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, ...
著者Martinez, M., Marabini, R., Carazo, J.M.
登録日2020-07-08
公開日2020-07-29
実験手法ELECTRON MICROSCOPY (3.3 Å)
主引用文献Continuous flexibility analysis of SARS-CoV-2 Spike prefusion structures.
Biorxiv, 2020
6ZON
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SARS-COV-2 NSP1 BOUND TO A HUMAN 43S PREINITIATION RIBOSOME COMPLEX - STATE 1
分子名称:40S ribosomal protein SA, 40S ribosomal protein S3a, 40S ribosomal protein S2, ...
著者Thoms, M., Buschauer, R., Ameismeier, M., Denk, T., Kratzat, H., Mackens-Kiani, T., Cheng, J., Berninghausen, O., Becker, T., Beckmann, R.
登録日2020-07-07
公開日2020-07-29
実験手法ELECTRON MICROSCOPY (3 Å)
主引用文献Structural basis for translational shutdown and immune evasion by the Nsp1 protein of SARS-CoV-2.
Science, 2020
6ZSL
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CRYSTAL STRUCTURE OF THE SARS-COV-2 HELICASE AT 1.94 ANGSTROM RESOLUTION
分子名称:SARS-CoV-2 helicase NSP13, ZINC ION, PHOSPHATE ION
著者Newman, J.A., Yosaatmadja, Y., Douangamath, A., Arrowsmith, C.H., von Delft, F., Edwards, A., Bountra, C., Gileadi, O.
登録日2020-07-15
公開日2020-07-29
実験手法X-RAY DIFFRACTION (1.94 Å)
主引用文献Crystal structure of the SARS-CoV-2 helicase at 1.94 Angstrom resolution
To Be Published
6ZOW
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SARS-COV-2 SPIKE IN PREFUSION STATE
分子名称:Spike glycoprotein, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, ...
著者Martinez, M., Marabini, R., Carazo, J.M.
登録日2020-07-07
公開日2020-07-29
実験手法ELECTRON MICROSCOPY (3 Å)
主引用文献Continuous flexibility analysis of SARS-CoV-2 Spike prefusion structures.
Biorxiv, 2020
7C7P
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CRYSTAL STRUCTURE OF THE SARS-COV-2 MAIN PROTEASE IN COMPLEX WITH TELAPREVIR
分子名称:main protease, (1S,3aR,6aS)-2-[(2S)-2-({(2S)-2-cyclohexyl-2-[(pyrazin-2-ylcarbonyl)amino]acetyl}amino)-3,3-dimethylbutanoyl]-N-[(2R,3S)-1-(cyclopropylamino)-2-hydroxy-1-oxohexan-3-yl]octahydrocyclopenta[c]pyrrole-1-carboxamide, CHLORIDE ION, ...
著者Zeng, R., Qiao, J.X., Wang, Y.F., Li, Y.S., Yao, R., Yang, S.Y., Lei, J.
登録日2020-05-26
公開日2020-07-29
実験手法X-RAY DIFFRACTION (1.74 Å)
主引用文献Crystal structure of the SARS-CoV-2 main protease in complex with Telaprevir
To Be Published
7JFQ
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THE CRYSTAL STRUCTURE OF 3CL MAINPRO OF SARS-COV-2 WITH DE-OXIDIZED C145
分子名称:3C-like proteinase, 1,2-ETHANEDIOL, FORMIC ACID
著者Tan, K., Maltseva, N.I., Welk, L.F., Jedrzejczak, R.P., Joachimiak, A., Center for Structural Genomics of Infectious Diseases (CSGID)
登録日2020-07-17
公開日2020-07-29
実験手法X-RAY DIFFRACTION (1.55 Å)
主引用文献The crystal structure of 3CL MainPro of SARS-CoV-2 with de-oxidized C145
To Be Published
6XM5
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STRUCTURE OF SARS-COV-2 SPIKE AT PH 5.5, ALL RBDS DOWN
分子名称:Spike glycoprotein, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose
著者Zhou, T., Tsybovsky, Y., Olia, A., Kwong, P.D.
登録日2020-06-29
公開日2020-07-29
最終更新日2020-08-12
実験手法ELECTRON MICROSCOPY (3.1 Å)
主引用文献Cryo-EM Structures Delineate a pH-Dependent Switch that Mediates Endosomal Positioning of SARS-CoV-2 Spike Receptor-Binding Domains
Biorxiv, 2020
6XQB
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SARS-COV-2 RDRP/RNA COMPLEX
分子名称:RNA-directed RNA polymerase, Non-structural protein 8, Non-structural protein 7, ...
著者Liu, B., Shi, W., Yang, Y.
登録日2020-07-09
公開日2020-07-29
実験手法ELECTRON MICROSCOPY (3.4 Å)
主引用文献Structure of SARS-CoV-2 RdRp/RNA complex at 3.4 Angstroms resolution
To Be Published
6ZDG
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ASSOCIATION OF THREE COMPLEXES OF LARGELY STRUCTURALLY DISORDERED SPIKE ECTODOMAIN WITH BOUND 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2020-07-29
最終更新日2020-08-12
実験手法ELECTRON MICROSCOPY (4.7 Å)
主引用文献Structural basis for the neutralization of SARS-CoV-2 by an antibody from a convalescent patient.
Nat.Struct.Mol.Biol., 2020
6XEZ
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STRUCTURE OF SARS-COV-2 REPLICATION-TRANSCRIPTION COMPLEX BOUND TO NSP13 HELICASE - NSP13(2)-RTC
分子名称:nsp12, nsp8, nsp7, ...
著者Chen, J., Malone, B., Llewellyn, E.C., Campbell, E.A., Darst, S.A.
登録日2020-06-14
公開日2020-07-29
最終更新日2020-08-05
実験手法ELECTRON MICROSCOPY (3.5 Å)
主引用文献Structural basis for helicase-polymerase coupling in the SARS-CoV-2 replication-transcription complex.
Biorxiv, 2020
6ZBP
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H11-H4 COMPLEX WITH SARS-COV-2
分子名称:Spike glycoprotein, H11-H4, 2-acetamido-2-deoxy-beta-D-glucopyranose, ...
著者Naismith, J.H., Huo, J., Mikolajek, H., Ward, P., Dumoux, M., Owens, R.J., LeBas, A.
登録日2020-06-08
公開日2020-07-29
実験手法X-RAY DIFFRACTION (1.85 Å)
主引用文献H11-D4 complex with SARS-CoV-2 RBD
To Be Published
167518
件を2020-08-12に公開中