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冠狀病毒
冠狀病毒,2020. 由David S. Goodsell @ RCSB PDB原圖修改

最近爆發的新型冠狀病毒傳染病(Novel Coronavirus disease 2019: COVID-19)對全世界的人們都構成了嚴重威脅。 為了儘早了解新病毒(Severe Acute Respiratory Syndrome Coronavirus 2: SARS-CoV-2)以開發出有效的抗病毒藥物,已經有很多科研人員開始了相關蛋白結構的研究,並且將所獲得結構數據存儲與PDB。 PDBj為用戶提供了COVID-19相關數據一覽的門戶頁面,並將於每週三更新當日新發佈的相關數據。

有關該病毒蛋白質的解說,請參見下面的“當月的分子”頁面。

“所有結構”標籤的頁面則逐一羅列了所有的數據,包括由同一研究組提交的系列數據群。 “代表性結構”標籤的頁面精選具有相同胺基酸序列的結構數據中的高分辨率數據,不重複選擇具有同一胺基酸序列的數據,即使該數據可能包含不同的配體。 “最新條目”標籤內包含本週新更新數據。

Created: 2020-03-11 (last edited: 4 weeks ago)2020-10-28
所有結構 (560)代表性結構 (235)最新條目 (9)
5S6Z
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PANDDA ANALYSIS GROUP DEPOSITION -- CRYSTAL STRUCTURE OF SARS-COV-2 NENDOU IN COMPLEX WITH PB2255187532
Descriptor:Uridylate-specific endoribonuclease, CITRIC ACID, 4-[(dimethylamino)methyl]-1,3-thiazol-2-amine
Authors:Godoy, A.S., Douangamath, A., Nakamura, A.M., Dias, A., Krojer, T., Noske, G.D., Gawiljuk, V.O., Fernandes, R.S., Fairhead, M., Powell, A., Dunnet, L., Aimon, A., Fearon, D., Brandao-Neto, J., Skyner, R., von Delft, F., Oliva, G.
Deposit date:2020-11-13
Release date:2020-11-25
Method:X-RAY DIFFRACTION (2.28 Å)
Cite:PanDDA analysis group deposition
To Be Published
7A25
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CRYO-EM STRUCTURE OF THE SARS-COV-2 SPIKE PROTEIN BOUND TO NEUTRALIZING SYBODIES (SB23)
Descriptor:Spike glycoprotein, Sybody 23, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, ...
Authors:Hallberg, B.M., Das, H.
Deposit date:2020-08-16
Release date:2020-11-25
Method:ELECTRON MICROSCOPY (3.06 Å)
Cite:Selection, biophysical and structural analysis of synthetic nanobodies that effectively neutralize SARS-CoV-2.
Nat Commun, 11, 2020
7JWY
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STRUCTURE OF SARS-COV-2 SPIKE AT PH 4.5
Descriptor: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
Authors:Zhou, T., Tsybovsky, Y., Kwong, P.D.
Deposit date:2020-08-26
Release date:2020-11-25
Method:ELECTRON MICROSCOPY (2.5 Å)
Cite:A pH-dependent switch mediates conformational masking of SARS-CoV-2 spike.
Biorxiv, 2020
5S72
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PANDDA ANALYSIS GROUP DEPOSITION -- CRYSTAL STRUCTURE OF SARS-COV-2 NENDOU IN COMPLEX WITH BBL029427
Descriptor:Uridylate-specific endoribonuclease, CITRIC ACID, N-(2-aminoethyl)-N'-phenylurea
Authors:Godoy, A.S., Douangamath, A., Nakamura, A.M., Dias, A., Krojer, T., Noske, G.D., Gawiljuk, V.O., Fernandes, R.S., Fairhead, M., Powell, A., Dunnet, L., Aimon, A., Fearon, D., Brandao-Neto, J., Skyner, R., von Delft, F., Oliva, G.
Deposit date:2020-11-13
Release date:2020-11-25
Method:X-RAY DIFFRACTION (2.512 Å)
Cite:PanDDA analysis group deposition
To Be Published
5S6Y
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PANDDA ANALYSIS GROUP DEPOSITION -- CRYSTAL STRUCTURE OF SARS-COV-2 NENDOU IN COMPLEX WITH Z56900771
Descriptor:Uridylate-specific endoribonuclease, CITRIC ACID, N-[(furan-2-yl)methyl]urea
Authors:Godoy, A.S., Douangamath, A., Nakamura, A.M., Dias, A., Krojer, T., Noske, G.D., Gawiljuk, V.O., Fernandes, R.S., Fairhead, M., Powell, A., Dunnet, L., Aimon, A., Fearon, D., Brandao-Neto, J., Skyner, R., von Delft, F., Oliva, G.
Deposit date:2020-11-13
Release date:2020-11-25
Method:X-RAY DIFFRACTION (2.32 Å)
Cite:PanDDA analysis group deposition
To Be Published
5S70
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PANDDA ANALYSIS GROUP DEPOSITION -- CRYSTAL STRUCTURE OF SARS-COV-2 NENDOU IN COMPLEX WITH EN300-181428
Descriptor:Uridylate-specific endoribonuclease, CITRIC ACID, (5R)-2-methyl-4,5,6,7-tetrahydro-1H-benzimidazol-5-amine
Authors:Godoy, A.S., Douangamath, A., Nakamura, A.M., Dias, A., Krojer, T., Noske, G.D., Gawiljuk, V.O., Fernandes, R.S., Fairhead, M., Powell, A., Dunnet, L., Aimon, A., Fearon, D., Brandao-Neto, J., Skyner, R., von Delft, F., Oliva, G.
Deposit date:2020-11-13
Release date:2020-11-25
Method:X-RAY DIFFRACTION (2.327 Å)
Cite:PanDDA analysis group deposition
To Be Published
7DDN
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SARS-COV2 S PROTEIN AT OPEN STATE
Descriptor:Spike glycoprotein
Authors:Cong, Y., Liu, C.X.
Deposit date:2020-10-29
Release date:2020-11-25
Method:ELECTRON MICROSCOPY (6.3 Å)
Cite:Development and structural basis of a two-MAb cocktail for treating SARS-CoV-2 infections
To Be Published
5S6X
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PANDDA ANALYSIS GROUP DEPOSITION -- CRYSTAL STRUCTURE OF SARS-COV-2 NENDOU IN COMPLEX WITH Z2889976755
Descriptor:Uridylate-specific endoribonuclease, CITRIC ACID, 1-(2,4-dimethyl-1H-imidazol-5-yl)methanamine
Authors:Godoy, A.S., Douangamath, A., Nakamura, A.M., Dias, A., Krojer, T., Noske, G.D., Gawiljuk, V.O., Fernandes, R.S., Fairhead, M., Powell, A., Dunnet, L., Aimon, A., Fearon, D., Brandao-Neto, J., Skyner, R., von Delft, F., Oliva, G.
Deposit date:2020-11-13
Release date:2020-11-25
Method:X-RAY DIFFRACTION (2.32 Å)
Cite:PanDDA analysis group deposition
To Be Published
5S71
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PANDDA ANALYSIS GROUP DEPOSITION -- CRYSTAL STRUCTURE OF SARS-COV-2 NENDOU IN COMPLEX WITH FUZS-5
Descriptor:Uridylate-specific endoribonuclease, CITRIC ACID, 5'-thiothymidine
Authors:Godoy, A.S., Douangamath, A., Nakamura, A.M., Dias, A., Krojer, T., Noske, G.D., Gawiljuk, V.O., Fernandes, R.S., Fairhead, M., Powell, A., Dunnet, L., Aimon, A., Fearon, D., Brandao-Neto, J., Skyner, R., von Delft, F., Oliva, G.
Deposit date:2020-11-13
Release date:2020-11-25
Method:X-RAY DIFFRACTION (1.941 Å)
Cite:PanDDA analysis group deposition
To Be Published
7DDD
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SARS-COV2 S PROTEIN AT CLOSE STATE
Descriptor:Spike glycoprotein
Authors:Cong, Y., Liu, C.X.
Deposit date:2020-10-28
Release date:2020-11-25
Method:ELECTRON MICROSCOPY (3 Å)
Cite:Development and structural basis of a two-MAb cocktail for treating SARS-CoV-2 infections
To Be Published
7KJR
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CRYO-EM STRUCTURE OF SARS-COV-2 ORF3A
Descriptor:Protein 3a, Apolipoprotein A-I, 1,2-Dioleoyl-sn-glycero-3-phosphoethanolamine
Authors:Kern, D.M., Hoel, C.M., Kotecha, A., Brohawn, S.G.
Deposit date:2020-10-26
Release date:2020-11-18
Method:ELECTRON MICROSCOPY (2.08 Å)
Cite:Cryo-EM structure of the SARS-CoV-2 3a ion channel in lipid nanodiscs.
Biorxiv, 2020
7KOL
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THE CRYSTAL STRUCTURE OF PAPAIN-LIKE PROTEASE OF SARS COV-2 IN COMPLEX WITH PLP_SNYDER496
Descriptor:Papain-Like Protease, 5-[(E)-(hydroxyimino)methyl]-2-methyl-N-[(1R)-1-(naphthalen-1-yl)ethyl]benzamide, ZINC ION, ...
Authors: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)
Deposit date:2020-11-09
Release date:2020-11-18
Method:X-RAY DIFFRACTION (2.58 Å)
Cite:The crystal structure of Papain-Like Protease of SARS CoV-2 in complex with PLP_Snyder496
to be published
7CDJ
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CRYSTAL STRUCTURE OF SARS-COV-2 ANTIBODY P2C-1A3 WITH RBD
Descriptor:Spike protein S1, antibody P2C-1A3 heavy chain, antibody P2C-1A3 light chain, ...
Authors:Wang, X., Zhang, L., Ge, J., Wang, R.
Deposit date:2020-06-19
Release date:2020-11-18
Method:X-RAY DIFFRACTION (3.396 Å)
Cite:Crystal structure of SARS-CoV-2 antibody P2C-1A3 and RBD
To Be Published
7KOK
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THE CRYSTAL STRUCTURE OF PAPAIN-LIKE PROTEASE OF SARS COV-2, C111S MUTANT, IN COMPLEX WITH PLP_SNYDER496
Descriptor:Papain-like protease, 5-[(E)-(hydroxyimino)methyl]-2-methyl-N-[(1R)-1-(naphthalen-1-yl)ethyl]benzamide, ZINC ION, ...
Authors: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)
Deposit date:2020-11-09
Release date:2020-11-18
Method:X-RAY DIFFRACTION (2 Å)
Cite:The crystal structure of Papain-Like Protease of SARS CoV-2, C111S mutant, in complex with PLP_Snyder496
to be published
7CDI
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CRYSTAL STRUCTURE OF SARS-COV-2 ANTIBODY P2C-1F11 WITH RBD
Descriptor:Spike protein S1, antibody P2C-1F11 heavy chain, antibody P2C-1F11 light chain, ...
Authors:Wang, X., Zhang, L., Ge, J., Wang, R.
Deposit date:2020-06-19
Release date:2020-11-18
Method:X-RAY DIFFRACTION (2.96 Å)
Cite:Crystal structure of SARS-CoV-2 antibody P2C-1F11 and RBD
To be published
7KOJ
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THE CRYSTAL STRUCTURE OF PAPAIN-LIKE PROTEASE OF SARS COV-2, C111S MUTANT, IN COMPLEX WITH PLP_SNYDER494
Descriptor:Papain-like protease, 2-methyl-N-[(1R)-1-(naphthalen-1-yl)ethyl]-5-{[(prop-2-en-1-yl)carbamoyl]amino}benzamide, ZINC ION, ...
Authors: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)
Deposit date:2020-11-09
Release date:2020-11-18
Method:X-RAY DIFFRACTION (2.02 Å)
Cite:The crystal structure of Papain-Like Protease of SARS CoV-2, C111S mutant, in complex with PLP_Snyder494
to be published
7CT5
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S PROTEIN OF SARS-COV-2 IN COMPLEX BOUND WITH T-ACE2
Descriptor:Spike glycoprotein, Angiotensin-converting enzyme 2, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, ...
Authors:Guo, L., Bi, W.W., Zhang, Y.Y., Yan, R.H., Li, Y.N., Zhou, Q., Dang, B.B.
Deposit date:2020-08-18
Release date:2020-11-18
Method:ELECTRON MICROSCOPY (4 Å)
Cite:Engineered Trimeric ACE2 Binds "Three-up" Spike Protein to Potently Inhibit SARS-CoVs and Mutants
To Be Published
7KOA
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ROOM TEMPERATURE STRUCTURE OF SARS-COV-2 NSP10/16 METHYLTRANSFERASE IN A COMPLEX WITH CAP-0 AND SAM DETERMINED BY PINK-BEAM SERIAL CRYSTALLOGRAPHY
Descriptor:2'-O-methyltransferase, Non-structural protein 10, P1-7-METHYLGUANOSINE-P3-ADENOSINE-5',5'-TRIPHOSPHATE, ...
Authors:Wilamowski, M., Sherrell, D.A., Minasov, G., Shuvalova, L., Lavens, A., Henning, R., Maltseva, N., Rosas-Lemus, M., Kim, Y., Satchell, K.J.F., Srajer, V., Joachimiak, A., Center for Structural Genomics of Infectious Diseases (CSGID)
Deposit date:2020-11-07
Release date:2020-11-18
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Room Temperature Structure of SARS-CoV-2 Nsp10/Nsp16 Methyltransferase in a Complex with Cap-0 and SAM Determined by Pink-Beam Serial Crystallography
To Be Published
7KPH
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SARS-COV-2 MAIN PROTEASE IN MATURE FORM
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:2020-11-11
Release date:2020-11-18
Method:X-RAY DIFFRACTION (1.46 Å)
Cite:SARS-CoV-2 Main Protease in mature form
To Be Published
7KL9
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STRUCTURE OF THE SARS-COV-2 S 6P TRIMER IN COMPLEX WITH THE ACE2 PROTEIN DECOY, CTC-445.2 (STATE 4)
Descriptor:Spike glycoprotein, CTC-445.2 inhibitor, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, ...
Authors:Barnes, C.O., Bjorkman, P.J.
Deposit date:2020-10-29
Release date:2020-11-11
Last modified:2020-11-25
Method:ELECTRON MICROSCOPY (4.1 Å)
Cite:De novo design of potent and resilient hACE2 decoys to neutralize SARS-CoV-2.
Science, 2020
7CZ4
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STRUCTURE OF SARS-COV-2 MACRO DOMAIN IN COMPLEX WITH ADP-RIBOSE
Descriptor:Macro domain from non-structural protein 3, ADENOSINE-5-DIPHOSPHORIBOSE
Authors:Lin, M.H., Hsu, C.H.
Deposit date:2020-09-07
Release date:2020-11-11
Method:X-RAY DIFFRACTION (2.64 Å)
Cite:Structural, Biophysical, and Biochemical Elucidation of the SARS-CoV-2 Nonstructural Protein 3 Macro Domain.
Acs Infect Dis., 2020
7C33
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MACRO DOMAIN OF SARS-COV-2 IN COMPLEX WITH ADP-RIBOSE
Descriptor:Macro domain from non-structural protein 3, ADENOSINE-5-DIPHOSPHORIBOSE
Authors:Lin, M.H., Hsu, C.H.
Deposit date:2020-05-11
Release date:2020-11-11
Method:X-RAY DIFFRACTION (3.83 Å)
Cite:Structural, Biophysical, and Biochemical Elucidation of the SARS-CoV-2 Nonstructural Protein 3 Macro Domain.
Acs Infect Dis., 2020
7KJ2
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SARS-COV-2 SPIKE GLYCOPROTEIN WITH ONE ACE2 BOUND
Descriptor:Spike glycoprotein, Angiotensin-converting enzyme 2, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, ...
Authors:Zhang, J., Xiao, T.S., Cai, Y.F., Chen, B.
Deposit date:2020-10-25
Release date:2020-11-11
Method:ELECTRON MICROSCOPY (3.6 Å)
Cite:A trimeric human angiotensin-converting enzyme 2 as an anti-SARS-CoV-2 agent in vitro.
Biorxiv, 2020
7KKK
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SARS-COV-2 SPIKE IN COMPLEX WITH NEUTRALIZING NANOBODY NB6
Descriptor:SARS-CoV-2 spike glycoprotein, Synthetic nanobody Nb6, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, ...
Authors:Schoof, M.S., Faust, B.F., Saunders, R.A., Sangwan, S., Rezelj, V., Hoppe, N., Boone, M., Billesboelle, C.B., Puchades, C., Azumaya, C.M., Kratochvil, H.T., Zimanyi, M., Desphande, I., Liang, J., Dickinson, S., Nguyen, H.C., Chio, C.M., Merz, G.E., Thompson, M.C., Diwanji, D., Schaefer, K., Anand, A.A., Dobzinski, N., Zha, B.S., Simoneau, C.R., Leon, K., White, K.M., Chio, U.S., Gupta, M., Jin, M., Li, F., Liu, Y., Zhang, K., Bulkley, D., Sun, M., Smith, A.M., Rizo, A.N., Moss, F., Brilot, A.F., Pourmal, S., Trenker, R., Pospiech, T., Gupta, S., Barsi-Rhyne, B., Belyy, V., Barile-Hill, A.W., Nock, S., Liu, Y., Krogan, N.J., Ralston, C.Y., Swaney, D.L., Garcia-Sastre, A., Ott, M., Vignuzzi, M., Walter, P., Manglik, A., QCRG Structural Biology Consortium
Deposit date:2020-10-27
Release date:2020-11-11
Last modified:2020-11-25
Method:ELECTRON MICROSCOPY (3.03 Å)
Cite:An ultrapotent synthetic nanobody neutralizes SARS-CoV-2 by stabilizing inactive Spike.
Science, 2020
7KJ5
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SARS-COV-2 SPIKE GLYCOPROTEIN, PREFUSION WITH ONE RBD UP CONFORMATION
Descriptor: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
Authors:Zhang, J., Xiao, T.S., Cai, Y.F., Chen, B.
Deposit date:2020-10-25
Release date:2020-11-11
Method:ELECTRON MICROSCOPY (3.6 Å)
Cite:A trimeric human angiotensin-converting enzyme 2 as an anti-SARS-CoV-2 agent in vitro.
Biorxiv, 2020
171313
數據於2020-11-18公開中