Loading
PDBj
メニューPDBj@FacebookPDBj@X(formerly Twitter)PDBj@BlueSkyPDBj@YouTubewwPDB FoundationwwPDBDonate
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
8KEO
DownloadVisualize
BU of 8keo by Molmil
Structure of SARS-CoV-2 Omicron BA.1 Spike complexed with antibody PW5-570
分子名称: PW5-570 heavy chain, PW5-570 light chain, Spike glycoprotein
著者Sun, L, Mao, Q, Wang, Y.
登録日2023-08-13
公開日2024-08-14
最終更新日2025-07-02
実験手法ELECTRON MICROSCOPY (2.78 Å)
主引用文献Potent and broadly neutralizing antibodies against sarbecoviruses induced by sequential COVID-19 vaccination.
Cell Discov, 10, 2024
8KEP
DownloadVisualize
BU of 8kep by Molmil
The local refined map of SARS-CoV-2 Omicron BA.1 Spike complexed with antibody PW5-570
分子名称: PW5-570 heavy chain, PW5-570 light chain, Spike glycoprotein
著者Sun, L, Mao, Q, Wang, Y.
登録日2023-08-13
公開日2024-08-14
最終更新日2025-06-25
実験手法ELECTRON MICROSCOPY (2.93 Å)
主引用文献Potent and broadly neutralizing antibodies against sarbecoviruses induced by sequential COVID-19 vaccination.
Cell Discov, 10, 2024
8KEQ
DownloadVisualize
BU of 8keq by Molmil
State 1 of SARS-CoV-2 XBB Variant Spike protein trimer complexed with antibody PW5-5
分子名称: PW5-5 heavy chain, PW5-5 light chain, Spike glycoprotein
著者Sun, L, Mao, Q, Wang, Y.
登録日2023-08-13
公開日2024-08-14
最終更新日2025-07-02
実験手法ELECTRON MICROSCOPY (3.14 Å)
主引用文献Potent and broadly neutralizing antibodies against sarbecoviruses induced by sequential COVID-19 vaccination.
Cell Discov, 10, 2024
8KER
DownloadVisualize
BU of 8ker by Molmil
Structure of SARS-CoV-2 XBB Variant Spike protein complexed with broadly neutralizing antibody PW5-535
分子名称: PW5-535 heavy chain, PW5-535 light chain, Spike glycoprotein
著者Sun, L, Mao, Q, Wang, Y.
登録日2023-08-13
公開日2024-08-14
最終更新日2025-07-02
実験手法ELECTRON MICROSCOPY (2.95 Å)
主引用文献Potent and broadly neutralizing antibodies against sarbecoviruses induced by sequential COVID-19 vaccination.
Cell Discov, 10, 2024
8TQU
DownloadVisualize
BU of 8tqu by Molmil
MPI51 bound to Mpro of SARS-CoV-2
分子名称: 3C-like proteinase nsp5, UAW247
著者Blankenship, L.R, Liu, W.R.
登録日2023-08-08
公開日2024-08-14
最終更新日2024-10-16
実験手法X-RAY DIFFRACTION (1.85 Å)
主引用文献MPI51 bound to SARS-CoV-2 Mpro
To Be Published
9FJK
DownloadVisualize
BU of 9fjk by Molmil
Omicron BA.1 Spike protein with neutralizing NTD specific mAb K501SP6
分子名称: K501SP6 Fv Heavy Chain, K501SP6 Fv Light Chain, Spike glycoprotein,Fibritin
著者Bjoernsson, K.H, Walker, M.R, Raghavan, S.S.R, Ward, A.B, Barfod, L.K.
登録日2024-05-31
公開日2024-08-14
最終更新日2025-07-02
実験手法ELECTRON MICROSCOPY (2.84 Å)
主引用文献Broadly potent spike-specific human monoclonal antibodies inhibit SARS-CoV-2 Omicron sub-lineages.
Commun Biol, 7, 2024
8UPX
DownloadVisualize
BU of 8upx by Molmil
Omicron-S-MERS-RBD
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 glycoprotein,SARS-CoV-2 omicron spike with MERS RBD
著者Bu, F, Li, F, Liu, B.
登録日2023-10-23
公開日2024-08-21
最終更新日2024-10-30
実験手法ELECTRON MICROSCOPY (3.4 Å)
主引用文献Pan-beta-coronavirus subunit vaccine prevents SARS-CoV-2 Omicron, SARS-CoV, and MERS-CoV challenge.
J.Virol., 98, 2024
8YE4
DownloadVisualize
BU of 8ye4 by Molmil
The complex of TCR NYN-I and HLA-A24 bound to SARS-CoV-2 Spike448-456 peptide NYNYLYRLF
分子名称: Beta-2-microglobulin, MHC class I antigen precusor, Spike protein S1, ...
著者Deng, S.S, Jin, T.C, Xu, Z.H, Wang, M.H.
登録日2024-02-21
公開日2024-08-21
最終更新日2024-10-23
実験手法X-RAY DIFFRACTION (3.2 Å)
主引用文献Structural insights into immune escape at killer T cell epitope by SARS-CoV-2 Spike Y453F variants.
J.Biol.Chem., 300, 2024
8ZHE
DownloadVisualize
BU of 8zhe by Molmil
SARS-CoV-2 spike trimer (6P) in complex with three R1-26 Fabs
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, Heavy chain of R1-26 Fab, ...
著者Yan, Q, Gao, X, Liu, B, Hou, R, He, P, Li, Z, Chen, Q, Wang, J, He, J, Chen, L, Zhao, J, Xiong, X.
登録日2024-05-10
公開日2024-08-21
最終更新日2024-10-23
実験手法ELECTRON MICROSCOPY (3.16 Å)
主引用文献Antibodies utilizing VL6-57 light chains target a convergent cryptic epitope on SARS-CoV-2 spike protein and potentially drive the genesis of Omicron variants.
Nat Commun, 15, 2024
8ZHG
DownloadVisualize
BU of 8zhg by Molmil
SARS-CoV-2 spike trimer (6P) in complex with R1-26 Fab, focused refinement of RBD-Fab region
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Heavy chain of R1-26 Fab, Light chain of R1-26 Fab, ...
著者Yan, Q, Gao, X, Liu, B, Hou, R, He, P, Li, Z, Chen, Q, Wang, J, He, J, Chen, L, Zhao, J, Xiong, X.
登録日2024-05-10
公開日2024-08-21
最終更新日2024-10-30
実験手法ELECTRON MICROSCOPY (3.51 Å)
主引用文献Antibodies utilizing VL6-57 light chains target a convergent cryptic epitope on SARS-CoV-2 spike protein and potentially drive the genesis of Omicron variants.
Nat Commun, 15, 2024
8ZHH
DownloadVisualize
BU of 8zhh by Molmil
SARS-CoV-2 spike trimer (6P) in complex with two H18 Fabs
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, Heavy chain of H18 Fab, ...
著者Yan, Q, Gao, X, Liu, B, Hou, R, He, P, Li, Z, Chen, Q, Wang, J, He, J, Chen, L, Zhao, J, Xiong, X.
登録日2024-05-10
公開日2024-08-21
最終更新日2024-11-20
実験手法ELECTRON MICROSCOPY (5.55 Å)
主引用文献Antibodies utilizing VL6-57 light chains target a convergent cryptic epitope on SARS-CoV-2 spike protein and potentially drive the genesis of Omicron variants.
Nat Commun, 15, 2024
8ZHM
DownloadVisualize
BU of 8zhm by Molmil
SARS-CoV-2 spike trimer (6P) in complex with three H18 and three R1-32 Fabs
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, Heavy chain of H18 Fab, ...
著者Yan, Q, Gao, X, Liu, B, Hou, R, He, P, Li, Z, Chen, Q, Wang, J, He, J, Chen, L, Zhao, J, Xiong, X.
登録日2024-05-11
公開日2024-08-21
最終更新日2024-10-23
実験手法ELECTRON MICROSCOPY (3.39 Å)
主引用文献Antibodies utilizing VL6-57 light chains target a convergent cryptic epitope on SARS-CoV-2 spike protein and potentially drive the genesis of Omicron variants.
Nat Commun, 15, 2024
8ZHO
DownloadVisualize
BU of 8zho by Molmil
SARS-CoV-2 S1 in complex with H18 and R1-32 Fab
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, Heavy chain of H18 Fab, Heavy chain of R1-32 Fab, ...
著者Yan, Q, Gao, X, Liu, B, Hou, R, He, P, Li, Z, Chen, Q, Wang, J, He, J, Chen, L, Zhao, J, Xiong, X.
登録日2024-05-11
公開日2024-08-21
最終更新日2024-10-23
実験手法ELECTRON MICROSCOPY (3.54 Å)
主引用文献Antibodies utilizing VL6-57 light chains target a convergent cryptic epitope on SARS-CoV-2 spike protein and potentially drive the genesis of Omicron variants.
Nat Commun, 15, 2024
8ZV9
DownloadVisualize
BU of 8zv9 by Molmil
Complex structure of HLA2402 with recognizing SARS-CoV-2 Y453F epitope NYNYLFRLF
分子名称: 1,2-ETHANEDIOL, Beta-2-microglobulin, MHC class I antigen, ...
著者Deng, S.S, Jin, T.C, Xu, Z.H, Wang, M.H.
登録日2024-06-11
公開日2024-08-21
最終更新日2024-11-13
実験手法X-RAY DIFFRACTION (2.6 Å)
主引用文献Structural insights into immune escape at killer T cell epitope by SARS-CoV-2 Spike Y453F variants.
J.Biol.Chem., 300, 2024
9F9Y
DownloadVisualize
BU of 9f9y by Molmil
SARS-CoV-2 BA-2.87.1 Spike ectodomain
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 glycoprotein,Fibritin
著者Ren, J, Stuart, D.I, Duyvesteyn, H.M.E.
登録日2024-05-09
公開日2024-08-21
最終更新日2024-10-16
実験手法ELECTRON MICROSCOPY (2.8 Å)
主引用文献Concerted deletions eliminate a neutralizing supersite in SARS-CoV-2 BA.2.87.1 spike.
Structure, 32, 2024
8UG9
DownloadVisualize
BU of 8ug9 by Molmil
XBB.1.5 spike/Nb5 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, Nanosota-5, ...
著者Ye, G, Bu, F, Liu, B, Li, F.
登録日2023-10-05
公開日2024-08-28
最終更新日2024-11-20
実験手法ELECTRON MICROSCOPY (3.49 Å)
主引用文献Dual-role epitope on SARS-CoV-2 spike enhances and neutralizes viral entry across different variants.
Plos Pathog., 20, 2024
9FEH
DownloadVisualize
BU of 9feh by Molmil
Crystal structure of SARS-CoV-2 nsp14 methyltransferase domain in complex with the STM957 inhibitor
分子名称: Transcription factor ETV6,Guanine-N7 methyltransferase nsp14, ZINC ION, ~{N}-[[(2~{R},3~{S},4~{R},5~{R})-5-[4-azanyl-5-(2-pyridin-3-ylethynyl)pyrrolo[2,3-d]pyrimidin-7-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl]-3-cyano-~{N}-ethyl-4-methoxy-benzenesulfonamide
著者Zilecka, E, Klima, M, Boura, E.
登録日2024-05-20
公開日2024-08-28
最終更新日2024-09-04
実験手法X-RAY DIFFRACTION (1.99 Å)
主引用文献Structure of SARS-CoV-2 MTase nsp14 with the inhibitor STM957 reveals inhibition mechanism that is shared with a poxviral MTase VP39.
J Struct Biol X, 10, 2024
8KEH
DownloadVisualize
BU of 8keh by Molmil
State 2 of SARS-CoV-2 XBB Variant Spike protein trimer complexed with antibody PW5-5
分子名称: PW5-5 heavy chain, PW5-5 light chain, Spike glycoprotein
著者Sun, L, Mao, Q, Wang, Y.
登録日2023-08-11
公開日2024-09-04
最終更新日2025-07-02
実験手法ELECTRON MICROSCOPY (3.21 Å)
主引用文献Potent and broadly neutralizing antibodies against sarbecoviruses induced by sequential COVID-19 vaccination.
Cell Discov, 10, 2024
8Y4C
DownloadVisualize
BU of 8y4c by Molmil
BA.2.86 S-trimer in complex with Nab XGv280
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, Spike glycoprotein, XGv280 Heavy chain, ...
著者Zhu, Q, Liu, P.
登録日2024-01-30
公開日2024-09-04
最終更新日2024-11-06
実験手法ELECTRON MICROSCOPY (3.75 Å)
主引用文献Enhancing RBD exposure and S1 shedding by an extremely conserved SARS-CoV-2 NTD epitope.
Signal Transduct Target Ther, 9, 2024
8ZER
DownloadVisualize
BU of 8zer by Molmil
Crystal structure of the complex of Wuhan SARS-CoV-2 RBD (319-541) with P2C5 nanobody
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Nanobody P2C5, Spike protein S1, ...
著者Sluchanko, N.N, Varfolomeeva, L.A, Shcheblyakov, D.V, Logunov, D.Y, Gintsburg, A.L, Popov, V.O, Boyko, K.M.
登録日2024-05-06
公開日2024-09-04
最終更新日2024-11-06
実験手法X-RAY DIFFRACTION (3.1 Å)
主引用文献Structural Basis for Evasion of New SARS-CoV-2 Variants from the Potent Virus-Neutralizing Nanobody Targeting the S-Protein Receptor-Binding Domain.
Biochemistry Mosc., 89, 2024
8ZES
DownloadVisualize
BU of 8zes by Molmil
Crystal structure of the Wuhan SARS-CoV-2 RBD (333-541) complexed with P2C5 nanobody
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, Nanobody P2C5, ...
著者Sluchanko, N.N, Varfolomeeva, L.A, Shcheblyakov, D.V, Logunov, D.Y, Gintsburg, A.L, Popov, V.O, Boyko, K.M.
登録日2024-05-06
公開日2024-09-04
最終更新日2024-10-16
実験手法X-RAY DIFFRACTION (3.7 Å)
主引用文献Structural Basis for Evasion of New SARS-CoV-2 Variants from the Potent Virus-Neutralizing Nanobody Targeting the S-Protein Receptor-Binding Domain.
Biochemistry Mosc., 89, 2024
9EO6
DownloadVisualize
BU of 9eo6 by Molmil
SARS-CoV2 major protease in complex with a covalent inhibitor SLL11.
分子名称: 3C-like proteinase nsp5, Inhibitor SLL11, POTASSIUM ION
著者Moche, M, Lennerstrand, J, Nyman, T, Strandback, E, Akaberi, D.
登録日2024-03-14
公開日2024-09-04
最終更新日2024-10-16
実験手法X-RAY DIFFRACTION (2.11 Å)
主引用文献Identification of novel and potent inhibitors of SARS-CoV-2 main protease from DNA-encoded chemical libraries.
Antimicrob.Agents Chemother., 68, 2024
9EOR
DownloadVisualize
BU of 9eor by Molmil
SARS-CoV2 major protease in complex with a covalent inhibitor SLL12.
分子名称: 3C-like proteinase nsp5, Inhibitor SLL12, POTASSIUM ION
著者Moche, M, Lennerstrand, J, Nyman, T, Strandback, E, Akaberi, D.
登録日2024-03-15
公開日2024-09-04
最終更新日2024-10-16
実験手法X-RAY DIFFRACTION (2.25 Å)
主引用文献Identification of novel and potent inhibitors of SARS-CoV-2 main protease from DNA-encoded chemical libraries.
Antimicrob.Agents Chemother., 68, 2024
9EOX
DownloadVisualize
BU of 9eox by Molmil
SARS-CoV2 major protease in covalent complex with a soluble inhibitor.
分子名称: 3C-like proteinase nsp5, POTASSIUM ION, Soluble inhibitor
著者Moche, M, Lennerstrand, J, Nyman, T, Strandback, E, Akaberi, D.
登録日2024-03-15
公開日2024-09-04
最終更新日2024-10-16
実験手法X-RAY DIFFRACTION (2.54 Å)
主引用文献Identification of novel and potent inhibitors of SARS-CoV-2 main protease from DNA-encoded chemical libraries.
Antimicrob.Agents Chemother., 68, 2024
8Y4A
DownloadVisualize
BU of 8y4a by Molmil
BA.2.86 S-trimer in complex with Nab XG2v046
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 glycoprotein, ...
著者Zhu, Q, Liu, P.
登録日2024-01-30
公開日2024-09-11
最終更新日2024-10-09
実験手法ELECTRON MICROSCOPY (3.4 Å)
主引用文献Enhancing RBD exposure and S1 shedding by an extremely conserved SARS-CoV-2 NTD epitope.
Signal Transduct Target Ther, 9, 2024

238582

件を2025-07-09に公開中

PDB statisticsPDBj update infoContact PDBjnumon