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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
7N06
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BU of 7n06 by Molmil
SARS-CoV-2 Nsp15 endoribonuclease post-cleavage state
Descriptor: RNA (5'-R(*AP*UP*A)-3'), Uridylate-specific endoribonuclease
Authors:Frazier, M.N, Dillard, L.B, Krahn, J.M, Stanley, R.E.
Deposit date:2021-05-25
Release date:2021-06-02
Last modified:2024-05-29
Method:ELECTRON MICROSCOPY (2.2 Å)
Cite:Characterization of SARS2 Nsp15 nuclease activity reveals it's mad about U.
Nucleic Acids Res., 49, 2021
7N0G
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BU of 7n0g by Molmil
CryoEm structure of SARS-CoV-2 spike protein (S-6P, 1-up) in complex with sybodies (Sb45)
Descriptor: 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, ...
Authors:Jiang, J, Huang, R, Margulies, D.
Deposit date:2021-05-25
Release date:2021-06-02
Last modified:2021-10-20
Method:ELECTRON MICROSCOPY (3.02 Å)
Cite:Structures of synthetic nanobody-SARS-CoV-2 receptor-binding domain complexes reveal distinct sites of interaction.
J.Biol.Chem., 297, 2021
7N0R
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BU of 7n0r by Molmil
Structure of the SARS-CoV-2 N protein RNA-binding domain bound to single-domain antibody C2
Descriptor: Nucleoprotein, SULFATE ION, Single-domain antibody C2
Authors:Ye, Q, Corbett, K.D.
Deposit date:2021-05-25
Release date:2021-06-02
Last modified:2023-10-18
Method:X-RAY DIFFRACTION (1.42 Å)
Cite:Structural Basis for SARS-CoV-2 Nucleocapsid Protein Recognition by Single-Domain Antibodies.
Front Immunol, 12, 2021
7O7Y
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BU of 7o7y by Molmil
Rabbit 80S ribosome stalled close to the mutated SARS-CoV-2 slippery site by a pseudoknot (high resolution)
Descriptor: 18S rRNA, 28S rRNA, 40S ribosomal protein S11, ...
Authors:Bhatt, P.R, Scaiola, A, Leibundgut, M.A, Atkins, J.F, Ban, N.
Deposit date:2021-04-14
Release date:2021-06-02
Last modified:2024-04-24
Method:ELECTRON MICROSCOPY (2.2 Å)
Cite:Structural basis of ribosomal frameshifting during translation of the SARS-CoV-2 RNA genome.
Science, 372, 2021
7O7Z
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BU of 7o7z by Molmil
Rabbit 80S ribosome stalled close to the mutated SARS-CoV-2 slippery site by a pseudoknot (classified for pseudoknot)
Descriptor: 18S rRNA, 28S rRNA, 40S ribosomal protein S11, ...
Authors:Bhatt, P.R, Scaiola, A, Leibundgut, M.A, Atkins, J.F, Ban, N.
Deposit date:2021-04-14
Release date:2021-06-02
Last modified:2024-04-24
Method:ELECTRON MICROSCOPY (2.4 Å)
Cite:Structural basis of ribosomal frameshifting during translation of the SARS-CoV-2 RNA genome.
Science, 372, 2021
7O80
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BU of 7o80 by Molmil
Rabbit 80S ribosome in complex with eRF1 and ABCE1 stalled at the STOP codon in the mutated SARS-CoV-2 slippery site
Descriptor: 18S rRNA, 28S rRNA, 40S ribosomal protein S11, ...
Authors:Bhatt, P.R, Scaiola, A, Leibundgut, M.A, Atkins, J.F, Ban, N.
Deposit date:2021-04-14
Release date:2021-06-02
Last modified:2024-04-24
Method:ELECTRON MICROSCOPY (2.9 Å)
Cite:Structural basis of ribosomal frameshifting during translation of the SARS-CoV-2 RNA genome.
Science, 372, 2021
7O81
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BU of 7o81 by Molmil
Rabbit 80S ribosome colliding in another ribosome stalled by the SARS-CoV-2 pseudoknot
Descriptor: 18S rRNA, 28S rRNA, 40S ribosomal protein S11, ...
Authors:Bhatt, P.R, Scaiola, A, Leibundgut, M.A, Atkins, J.F, Ban, N.
Deposit date:2021-04-14
Release date:2021-06-02
Last modified:2024-04-24
Method:ELECTRON MICROSCOPY (3.1 Å)
Cite:Structural basis of ribosomal frameshifting during translation of the SARS-CoV-2 RNA genome.
Science, 372, 2021
7CYH
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BU of 7cyh by Molmil
Binding interface of SARS-CoV-2 RBD and its neutralizing antibody HB27
Descriptor: Heavy chain of HB27, Light chain of HB27, Spike glycoprotein
Authors:Wang, X, Zhu, L.
Deposit date:2020-09-03
Release date:2021-06-09
Method:ELECTRON MICROSCOPY (3.9 Å)
Cite:Binding interface of SARS-CoV-2 RBD and its neutralizing antibody HB27
To Be Published
7CYP
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BU of 7cyp by Molmil
Complex of SARS-CoV-2 spike trimer with its neutralizing antibody HB27
Descriptor: 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 HB27, ...
Authors:Wang, X, Zhu, L.
Deposit date:2020-09-04
Release date:2021-06-09
Last modified:2022-02-23
Method:ELECTRON MICROSCOPY (3.5 Å)
Cite:Double lock of a potent human therapeutic monoclonal antibody against SARS-CoV-2.
Natl Sci Rev, 8, 2021
7DJZ
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BU of 7djz by Molmil
Crystal structure of SARS-CoV-2 Spike RBD in complex with MW01 Fab
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, CITRIC ACID, MW01 heavy chain, ...
Authors:Wang, J, Jiao, S, Wang, R, Zhang, J, Zhang, M, Wang, M.
Deposit date:2020-11-22
Release date:2021-06-09
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.397 Å)
Cite:Antibody-dependent enhancement (ADE) of SARS-CoV-2 pseudoviral infection requires Fc gamma RIIB and virus-antibody complex with bivalent interaction.
Commun Biol, 5, 2022
7DK0
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BU of 7dk0 by Molmil
Crystal structure of SARS-CoV-2 Spike RBD in complex with MW05 Fab
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, MW05 heavy chain, MW05 light chain, ...
Authors:Wang, J, Jiao, S, Wang, R, Zhang, J, Zhang, M, Wang, M.
Deposit date:2020-11-22
Release date:2021-06-09
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (3.199 Å)
Cite:Antibody-dependent enhancement (ADE) of SARS-CoV-2 pseudoviral infection requires Fc gamma RIIB and virus-antibody complex with bivalent interaction.
Commun Biol, 5, 2022
7E7X
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BU of 7e7x by Molmil
SARS-CoV-2 Spike Protein N terminal domain in Complex with N11 Fab
Descriptor: N11 Fab Light chain, N11 Fab heavy chain, Spike protein S1
Authors:Zhang, Z, Shuo, D, Xiao, J.
Deposit date:2021-02-28
Release date:2021-06-09
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.78 Å)
Cite:Humoral immune response to circulating SARS-CoV-2 variants elicited by inactivated and RBD-subunit vaccines.
Cell Res., 31, 2021
7E7Y
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BU of 7e7y by Molmil
Crystal structure of the SARS-CoV-2 S RBD in complex with BD-623 Fab
Descriptor: BD-623 Fab H, BD-623 Fab L, Spike protein S1
Authors:Wei, Y, Xiao, J.
Deposit date:2021-02-28
Release date:2021-06-09
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.41 Å)
Cite:Humoral immune response to circulating SARS-CoV-2 variants elicited by inactivated and RBD-subunit vaccines.
Cell Res., 31, 2021
7E86
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BU of 7e86 by Molmil
Crystal structure of the SARS-CoV-2 S RBD in complex with BD-508 Fab
Descriptor: BD-508 Fab Heavy Chain, BD-508 Fab Light Chain, Spike protein S1
Authors:Gao, C, Xiao, J.
Deposit date:2021-03-01
Release date:2021-06-09
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.9 Å)
Cite:Humoral immune response to circulating SARS-CoV-2 variants elicited by inactivated and RBD-subunit vaccines.
Cell Res., 31, 2021
7E88
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BU of 7e88 by Molmil
Crystal structure of the SARS-CoV-2 S RBD in complex with BD-515 Fab
Descriptor: BD-515 Fab Heavy Chain, BD-515 Fab Light Chain, Spike protein S1
Authors:Gao, C, Wei, Y, Xiao, J.
Deposit date:2021-03-01
Release date:2021-06-09
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (3.14 Å)
Cite:Humoral immune response to circulating SARS-CoV-2 variants elicited by inactivated and RBD-subunit vaccines.
Cell Res., 31, 2021
7E8C
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BU of 7e8c by Molmil
SARS-CoV-2 S-6P in complex with 9 Fabs
Descriptor: 368-2 H, 368-2 L, 604 H, ...
Authors:Du, S, Xiao, J, Zhang, Z.
Deposit date:2021-03-01
Release date:2021-06-09
Last modified:2021-07-14
Method:ELECTRON MICROSCOPY (3.16 Å)
Cite:Humoral immune response to circulating SARS-CoV-2 variants elicited by inactivated and RBD-subunit vaccines.
Cell Res., 31, 2021
7E8F
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BU of 7e8f by Molmil
SARS-CoV-2 NTD in complex with N9 Fab
Descriptor: 368-2 H, 368-2 L, 604 H, ...
Authors:Du, S, Xiao, J, Zhang, Z.
Deposit date:2021-03-01
Release date:2021-06-09
Last modified:2021-07-14
Method:ELECTRON MICROSCOPY (3.18 Å)
Cite:Humoral immune response to circulating SARS-CoV-2 variants elicited by inactivated and RBD-subunit vaccines.
Cell Res., 31, 2021
7EK6
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BU of 7ek6 by Molmil
Structure of viral peptides IPB19/N52
Descriptor: Spike protein S2
Authors:Yu, D, Qin, B, Cui, S, He, Y.
Deposit date:2021-04-04
Release date:2021-06-09
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.243 Å)
Cite:Structure-based design and characterization of novel fusion-inhibitory lipopeptides against SARS-CoV-2 and emerging variants.
Emerg Microbes Infect, 10, 2021
7EQ4
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BU of 7eq4 by Molmil
Crystal Structure of the N-terminus of Nonstructural protein 1 from SARS-CoV-2
Descriptor: Host translation inhibitor nsp1
Authors:Liu, Y, Ke, Z, Hu, H, Zhao, K, Xiao, J, Xia, Y, Li, Y.
Deposit date:2021-04-29
Release date:2021-06-09
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.25 Å)
Cite:Structural Basis and Function of the N Terminus of SARS-CoV-2 Nonstructural Protein 1.
Microbiol Spectr, 9, 2021
7N0I
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BU of 7n0i by Molmil
Structure of the SARS-CoV-2 N protein C-terminal domain bound to single-domain antibody E2
Descriptor: ACETATE ION, MAGNESIUM ION, Nucleoprotein, ...
Authors:Ye, Q, Corbett, K.D.
Deposit date:2021-05-25
Release date:2021-06-09
Last modified:2023-10-18
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Structural Basis for SARS-CoV-2 Nucleocapsid Protein Recognition by Single-Domain Antibodies.
Front Immunol, 12, 2021
7N33
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BU of 7n33 by Molmil
SARS-CoV-2 Nsp15 endoribonuclease pre-cleavage state
Descriptor: RNA (5'-R(*A)-D(*(UFT))-R(P*A)-3'), Uridylate-specific endoribonuclease
Authors:Frazier, M.N, Dillard, L.B, Krahn, J.M, Stanley, R.E.
Deposit date:2021-05-31
Release date:2021-06-09
Last modified:2024-05-29
Method:ELECTRON MICROSCOPY (2.5 Å)
Cite:Characterization of SARS2 Nsp15 nuclease activity reveals it's mad about U.
Nucleic Acids Res., 49, 2021
7EXM
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BU of 7exm by Molmil
The N-terminal crystal structure of SARS-CoV-2 NSP2
Descriptor: GLYCEROL, Non-structural protein 2, ZINC ION
Authors:Ma, J, Chen, Z.
Deposit date:2021-05-27
Release date:2021-06-16
Last modified:2024-05-29
Method:X-RAY DIFFRACTION (1.96 Å)
Cite:Structure and Function of N-Terminal Zinc Finger Domain of SARS-CoV-2 NSP2.
Virol Sin, 36, 2021
7MY2
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BU of 7my2 by Molmil
CryoEM structure of neutralizing nanobody Nb30 in complex with SARS-CoV2 spike
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Nanobody Nb30, ...
Authors:Xu, K, Kwong, P.D.
Deposit date:2021-05-20
Release date:2021-06-16
Last modified:2021-07-28
Method:ELECTRON MICROSCOPY (2.65 Å)
Cite:Nanobodies from camelid mice and llamas neutralize SARS-CoV-2 variants.
Nature, 595, 2021
7MY3
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BU of 7my3 by Molmil
CryoEM structure of neutralizing nanobody Nb12 in complex with SARS-CoV2 spike
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Nanobody Nb12, ...
Authors:Xu, K, Kwong, P.D.
Deposit date:2021-05-20
Release date:2021-06-16
Last modified:2021-07-28
Method:ELECTRON MICROSCOPY (2.9 Å)
Cite:Nanobodies from camelid mice and llamas neutralize SARS-CoV-2 variants.
Nature, 595, 2021
7N5Z
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BU of 7n5z by Molmil
SARS-CoV-2 Main protease C145S mutant
Descriptor: 3C-like proteinase
Authors:Noske, G.D, Nakamura, A.M, Gawriljuk, V.O, Lima, G.M.A, Zeri, A.C.M, Nascimento, A.F.Z, Oliva, G, Godoy, A.S.
Deposit date:2021-06-07
Release date:2021-06-16
Last modified:2023-10-18
Method:X-RAY DIFFRACTION (1.76 Å)
Cite:A Crystallographic Snapshot of SARS-CoV-2 Main Protease Maturation Process.
J.Mol.Biol., 433, 2021

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