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신종 코로나바이러스 특집 콘텐츠

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코로나 바이러스
코로나 바이러스, 2020. David S. Goodsell @ RCSB PDB에 의한 오리지널 일러스트를 수정

신종 코로나바이러스 감염증 (Novel Coronavirus disease 2019:COVID-19)의 확산이 세계적으로 매우 큰 문제가 되고 있습니다. 시급히 새로운 바이러스(Severe Acute Respiratory Syndrome Coronavirus 2: SARS-CoV-2)를 이해하고 효과적인 약을 개발하기 위해, 신속하게 구조 생물학 연구가 시작되고 있습니다. PDBj는 사용자의 편의를 도모하기 위해 신종 코로나바이러스의 특집 페이지를 제공하고 있습니다. 매주 수요일에 최신 항목이 추가됩니다.

바이러스 단백질에 관한 해설기사는 아래의 「이달의 분자」 페이지를 참조하십시오.

「전체 엔트리」 탭에는, 모든 PDB ID가 포함되어 있습니다. 이용자가 전체의 독립된 엔트리를 검색하고 싶을 때 사용하실 수 있으며, 동일 저자에 의한 그룹등록의 엔트리도 전부 구별되어 있습니다. 「대표구조」 탭에는, 분해능이 가장 높은 대표구조만을 표지하고 있습니다. 아미노산 서열이 100 % 일치하는 PDB 엔트리의 경우, 다른 리간드를 포함하여도 대표구조에는 제외됩니다. 「최신 엔트리」 탭은, 이번주 공개된 가장 최근의 엔트리 입니다.


Created: 2020-09-03 (last edited: more than 1 year ago)2022-09-02
7NLL
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BU of 7nll by Molmil
SARS-CoV-2 Spike RBD (dimer) in complex with two Fu2 nanobodies
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, Nanobody Fu2, Spike protein S1
Authors:Das, H, Hallberg, B.M.
Deposit date:2021-02-22
Release date:2022-02-02
Last modified:2023-09-27
Method:ELECTRON MICROSCOPY (2.89 Å)
Cite:A bispecific monomeric nanobody induces spike trimer dimers and neutralizes SARS-CoV-2 in vivo.
Nat Commun, 13, 2022
7NS6
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BU of 7ns6 by Molmil
SARS-CoV-2 Spike (dimers) in complex with six Fu2 nanobodies
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, Fu2 nanobody, Spike glycoprotein,Fibritin, ...
Authors:Das, H, Hallberg, B.M.
Deposit date:2021-03-05
Release date:2022-02-02
Method:ELECTRON MICROSCOPY (3.18 Å)
Cite:A bispecific monomeric nanobody induces spike trimer dimers and neutralizes SARS-CoV-2 in vivo.
Nat Commun, 13, 2022
7NT4
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BU of 7nt4 by Molmil
X-ray structure of SCoV2-PLpro in complex with small molecule inhibitor
Descriptor: 1,2-ETHANEDIOL, Non-structural protein 3, PROFLAVIN, ...
Authors:Napolitano, V, Mourao, A, Bostock, M, Matsuda, A, Czarna, A, Popowicz, G.M.
Deposit date:2021-03-09
Release date:2022-02-02
Last modified:2024-01-31
Method:X-RAY DIFFRACTION (2.68 Å)
Cite:Acriflavine, a clinically approved drug, inhibits SARS-CoV-2 and other betacoronaviruses.
Cell Chem Biol, 29, 2022
7PQY
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BU of 7pqy by Molmil
Crystal structure of the receptor binding domain of SARS-CoV-2 Spike glycoprotein in complex with FI-3A Fab
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose, FI-3A Fab heavy chain, FI-3A Fab light chain, ...
Authors:Zhou, D, Ren, J, Stuart, D.
Deposit date:2021-09-20
Release date:2022-02-02
Last modified:2024-01-31
Method:X-RAY DIFFRACTION (3 Å)
Cite:Structures and therapeutic potential of anti-RBD human monoclonal antibodies against SARS-CoV-2.
Theranostics, 12, 2022
7PQZ
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BU of 7pqz by Molmil
Crystal structure of the receptor binding domain of SARS-CoV-2 Spike glycoprotein in complex with FI-3A and FD-11A Fabs
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, FD-11A Fab heavy chain, FD-11A Fab light chain, ...
Authors:Zhou, D, Ren, J, Stuart, D.I.
Deposit date:2021-09-20
Release date:2022-02-02
Last modified:2024-01-31
Method:X-RAY DIFFRACTION (3.2 Å)
Cite:Structures and therapeutic potential of anti-RBD human monoclonal antibodies against SARS-CoV-2.
Theranostics, 12, 2022
7PR0
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BU of 7pr0 by Molmil
Crystal structure of the receptor binding domain of SARS-CoV-2 Spike glycoprotein in complex with FD-5D Fab
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, CHLORIDE ION, FD-5D Fab heavy chain, ...
Authors:Zhou, D, Ren, J, Stuart, D.I.
Deposit date:2021-09-20
Release date:2022-02-02
Last modified:2024-01-31
Method:X-RAY DIFFRACTION (2.92 Å)
Cite:Structures and therapeutic potential of anti-RBD human monoclonal antibodies against SARS-CoV-2.
Theranostics, 12, 2022
7QIF
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BU of 7qif by Molmil
Crystal structure of SARS-CoV-2 NSP14 in complex with 7MeGpppG.
Descriptor: 7-METHYL-GUANOSINE-5'-TRIPHOSPHATE-5'-GUANOSINE, PHOSPHATE ION, Proofreading exoribonuclease nsp14, ...
Authors:Newman, J.A, Imprachim, N, Yosaatmadja, Y, Gileadi, O.
Deposit date:2021-12-14
Release date:2022-02-02
Last modified:2024-02-07
Method:X-RAY DIFFRACTION (2.53 Å)
Cite:Crystal structures and fragment screening of SARS-CoV-2 NSP14 reveal details of exoribonuclease activation and mRNA capping and provide starting points for antiviral drug development.
Nucleic Acids Res., 51, 2023
7SC1
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BU of 7sc1 by Molmil
Structure of the SARS-CoV-2 S 6P trimer in complex with the human neutralizing antibody Fab fragment, R40-1G8
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, R40-1G8 Fab heavy chain, R40-1G8 Fab light chain, ...
Authors:Fan, C, Bjorkman, P.J.
Deposit date:2021-09-26
Release date:2022-02-02
Method:ELECTRON MICROSCOPY (3.2 Å)
Cite:Discovery of ultrapotent broadly neutralizing antibodies from SARS-CoV-2 elite neutralizers.
Cell Host Microbe, 30, 2022
7TLA
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BU of 7tla by Molmil
Down-state locked rS2d SARS-CoV-2 spike ectodomain in the RBD-down conformation, State 1
Descriptor: Spike glycoprotein
Authors:Henderson, R, Acharya, P.
Deposit date:2022-01-18
Release date:2022-02-02
Last modified:2023-04-12
Method:ELECTRON MICROSCOPY (3.13 Å)
Cite:Structural diversity of the SARS-CoV-2 Omicron spike.
Mol.Cell, 82, 2022
7TLB
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BU of 7tlb by Molmil
Down-state locked rS2d SARS-CoV-2 spike ectodomain in the RBD-down conformation, State 2
Descriptor: Spike glycoprotein
Authors:Henderson, R, Acharya, P.
Deposit date:2022-01-18
Release date:2022-02-02
Last modified:2023-04-12
Method:ELECTRON MICROSCOPY (3.06 Å)
Cite:Structural diversity of the SARS-CoV-2 Omicron spike.
Mol.Cell, 82, 2022
7TLC
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BU of 7tlc by Molmil
Down-state locked, S2 stabilized rS2d-HexaPro SARS-CoV-2 spike ectodomain in the RBD-down conformation, State 1
Descriptor: Spike glycoprotein
Authors:Henderson, R, Acharya, P.
Deposit date:2022-01-18
Release date:2022-02-02
Last modified:2023-04-12
Method:ELECTRON MICROSCOPY (2.83 Å)
Cite:Structural diversity of the SARS-CoV-2 Omicron spike.
Mol.Cell, 82, 2022
7TLD
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BU of 7tld by Molmil
Down-state locked, S2 stabilized rS2d-HexaPro SARS-CoV-2 spike ectodomain in the RBD-down conformation, State 2
Descriptor: Spike glycoprotein
Authors:Henderson, R, Acharya, P.
Deposit date:2022-01-18
Release date:2022-02-02
Last modified:2023-04-12
Method:ELECTRON MICROSCOPY (2.89 Å)
Cite:Structural diversity of the SARS-CoV-2 Omicron spike.
Mol.Cell, 82, 2022
7TLY
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BU of 7tly by Molmil
SARS-CoV-2 S B.1.1.529 Omicron variant (RBD + S309 Local Refinement)
Descriptor: S309 Fab heavy chain, S309 Fab light chain, Spike glycoprotein, ...
Authors:McCallum, M, Veesler, D, Seattle Structural Genomics Center for Infectious Disease (SSGCID)
Deposit date:2022-01-19
Release date:2022-02-02
Last modified:2022-03-09
Method:ELECTRON MICROSCOPY (3 Å)
Cite:Structural basis of SARS-CoV-2 Omicron immune evasion and receptor engagement.
Science, 375, 2022
7TM0
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BU of 7tm0 by Molmil
SARS-CoV-2 S B.1.1.529 Omicron variant + S309 + S2L20 Global Refinement
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, S2L20 Fab heavy chain, ...
Authors:McCallum, M, Veesler, D, Seattle Structural Genomics Center for Infectious Disease (SSGCID)
Deposit date:2022-01-19
Release date:2022-02-02
Last modified:2022-03-09
Method:ELECTRON MICROSCOPY (3.1 Å)
Cite:Structural basis of SARS-CoV-2 Omicron immune evasion and receptor engagement.
Science, 375, 2022
7TN0
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BU of 7tn0 by Molmil
SARS-CoV-2 Omicron RBD in complex with human ACE2 and S304 Fab and S309 Fab
Descriptor: 1,2-ETHANEDIOL, 2-acetamido-2-deoxy-beta-D-glucopyranose, Angiotensin-converting enzyme 2, ...
Authors:McCallum, M, Czudnochowski, N, Nix, J.C, Croll, T.I, SSGCID, Dillen, J.R, Snell, G, Veesler, D, Seattle Structural Genomics Center for Infectious Disease (SSGCID)
Deposit date:2022-01-20
Release date:2022-02-02
Last modified:2023-10-18
Method:X-RAY DIFFRACTION (2.85 Å)
Cite:Structural basis of SARS-CoV-2 Omicron immune evasion and receptor engagement.
Science, 375, 2022
7TOB
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BU of 7tob by Molmil
Crystal structure of the SARS-CoV-2 Omicron main protease (Mpro) in complex with inhibitor GC376
Descriptor: (1S,2S)-2-({N-[(benzyloxy)carbonyl]-L-leucyl}amino)-1-hydroxy-3-[(3S)-2-oxopyrrolidin-3-yl]propane-1-sulfonic acid, 3C-like proteinase nsp5, DI(HYDROXYETHYL)ETHER
Authors:Sacco, M.D, Wang, J, Chen, Y.
Deposit date:2022-01-24
Release date:2022-02-02
Last modified:2023-10-18
Method:X-RAY DIFFRACTION (2.05 Å)
Cite:The P132H mutation in the main protease of Omicron SARS-CoV-2 decreases thermal stability without compromising catalysis or small-molecule drug inhibition.
Cell Res., 32, 2022
7WCR
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BU of 7wcr by Molmil
RBD-1 of SARS-CoV-2 Beta spike in complex with S5D2 Fab
Descriptor: Heavy chain of S5D2 Fab, Light chain of S5D2 Fab, Spike glycoprotein
Authors:Wang, Y.F, Cong, Y.
Deposit date:2021-12-20
Release date:2022-02-02
Method:ELECTRON MICROSCOPY (3.5 Å)
Cite:Mapping cross-variant neutralizing sites on the SARS-CoV-2 spike protein.
Emerg Microbes Infect, 11, 2022
7WCZ
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BU of 7wcz by Molmil
SARS-CoV-2 Beta spike in complex with one S5D2 Fab
Descriptor: Heavy chain of S5D2 Fab, Light chain of S5D2 Fab, Spike glycoprotein
Authors:Wang, Y.F, Cong, Y.
Deposit date:2021-12-20
Release date:2022-02-02
Method:ELECTRON MICROSCOPY (3.5 Å)
Cite:Mapping cross-variant neutralizing sites on the SARS-CoV-2 spike protein.
Emerg Microbes Infect, 11, 2022
7WD0
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BU of 7wd0 by Molmil
SARS-CoV-2 Beta spike in complex with two S5D2 Fabs
Descriptor: Heavy chain of S5D2 Fab, Light chain of S5D2 Fab, Spike glycoprotein
Authors:Wang, Y.F, Cong, Y.
Deposit date:2021-12-20
Release date:2022-02-02
Method:ELECTRON MICROSCOPY (3.3 Å)
Cite:Mapping cross-variant neutralizing sites on the SARS-CoV-2 spike protein.
Emerg Microbes Infect, 11, 2022
7WD7
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BU of 7wd7 by Molmil
SARS-CoV-2 Beta spike in complex with three S5D2 Fabs
Descriptor: Heavy chain of S5D2 Fab, Light chain of S5D2 Fab, Spike glycoprotein
Authors:Wang, Y.F, Cong, Y.
Deposit date:2021-12-21
Release date:2022-02-02
Method:ELECTRON MICROSCOPY (3.5 Å)
Cite:Mapping cross-variant neutralizing sites on the SARS-CoV-2 spike protein.
Emerg Microbes Infect, 11, 2022
7WD8
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BU of 7wd8 by Molmil
SARS-CoV-2 Beta spike SD1 in complex with S3H3 Fab
Descriptor: Heavy chain of S3H3 Fab, Light chain of S3H3 Fab, Spike glycoprotein
Authors:Wang, Y.F, Cong, Y.
Deposit date:2021-12-21
Release date:2022-02-02
Method:ELECTRON MICROSCOPY (4.3 Å)
Cite:Mapping cross-variant neutralizing sites on the SARS-CoV-2 spike protein.
Emerg Microbes Infect, 11, 2022
7WD9
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BU of 7wd9 by Molmil
SARS-CoV-2 Beta spike in complex with three S3H3 Fabs
Descriptor: Heavy chain of S3H3 Fab, Light chain of S3H3 Fab, Spike glycoprotein
Authors:Wang, Y.F, Cong, Y.
Deposit date:2021-12-21
Release date:2022-02-02
Method:ELECTRON MICROSCOPY (3.7 Å)
Cite:Mapping cross-variant neutralizing sites on the SARS-CoV-2 spike protein.
Emerg Microbes Infect, 11, 2022
7WDF
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BU of 7wdf by Molmil
SARS-CoV-2 Beta spike in complex with two S3H3 Fabs
Descriptor: Heavy chain of S3H3 Fab, Light chain of S3H3 Fab, Spike glycoprotein
Authors:Wang, Y.F, Cong, Y.
Deposit date:2021-12-21
Release date:2022-02-02
Method:ELECTRON MICROSCOPY (3.9 Å)
Cite:Mapping cross-variant neutralizing sites on the SARS-CoV-2 spike protein.
Emerg Microbes Infect, 11, 2022
7WK4
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BU of 7wk4 by Molmil
Cryo-EM structure of SARS-CoV-2 Omicron spike protein with ACE2, C1 state
Descriptor: Angiotensin-converting enzyme 2, Spike glycoprotein
Authors:Han, W.Y, Wang, Y.F.
Deposit date:2022-01-08
Release date:2022-02-02
Last modified:2022-05-04
Method:ELECTRON MICROSCOPY (3.69 Å)
Cite:Molecular basis of receptor binding and antibody neutralization of Omicron
Nature, 604, 2022
7WK5
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BU of 7wk5 by Molmil
Cryo-EM structure of Omicron S-ACE2, C2 state
Descriptor: Angiotensin-converting enzyme 2, Spike glycoprotein
Authors:Han, W.Y, Wang, Y.F.
Deposit date:2022-01-08
Release date:2022-02-02
Last modified:2022-03-09
Method:ELECTRON MICROSCOPY (3.66 Å)
Cite:Molecular basis of SARS-CoV-2 Omicron variant receptor engagement and antibody evasion and neutralization
Biorxiv, 2022

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