Electron Microscopy Data Bank

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Inactivated tick-borne encephalitis virus (TBEV) vaccine strain Sofjin-Chumakov

Release date: June 5, 2024
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 8qrh
Q-score: 0.441

Moiseenko A, Zhang Y, Vorovitch M, Khvatov E, Ivanova A, Liu Z, Osolodkin D, Ishmukhametov A, Sokolova O

To Be Published

Sample:

Small envelope protein m (7 kDa, Protein from Orthoflavivirus encephalitidis)
Genome polyprotein (53 kDa, Protein from Orthoflavivirus encephalitidis)
Tick-borne encephalitis virus (strain sofjin-chumakov) (Virus from Tick-borne encephalitis virus (STRAIN Sofjin-Chumakov))
2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)

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EMD-37419

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CryoEM structure of non-structural protein 1 dimer from dengue virus type 4

Release date: May 22, 2024
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8wbb

Pan Q, Jiao H, Zhang W, Chen Q, Zhang G, Yu J, Zhao W, Hu H

Sci Adv (2024) 10 pp. eadm8275-eadm8275 [ Pubmed: 38691607 DOI: doi:10.1126/sciadv.adm8275 ]

Sample:

Genome polyprotein (40 kDa, Protein from Dengue virus 4 Philippines/H241/1956)
Dengue virus type 4 non-structural protein 1 dimer (Complex from dengue virus type 4)

EMD-37420

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CryoEM structure of non-structural protein 1 tetramer from dengue virus type 4

Release date: May 22, 2024
Resolution: 3.03 Å
EM Method: Single-particle
Fitted PDBs: 8wbc

Pan Q, Jiao H, Zhang W, Chen Q, Zhang G, Yu J, Zhao W, Hu H

Sci Adv (2024) 10 pp. eadm8275-eadm8275 [ Pubmed: 38691607 DOI: doi:10.1126/sciadv.adm8275 ]

Sample:

Genome polyprotein (40 kDa, Protein from Dengue virus 4 Philippines/H241/1956)
Dengue virus type 4 non-structural protein 1 tetramer (Complex from dengue virus type 4)

EMD-37421

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CryoEM structure of non-structural protein 1 hexamer 1 from dengue virus type 4

Release date: May 22, 2024
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8wbd

Pan Q, Jiao H, Zhang W, Chen Q, Zhang G, Yu J, Zhao W, Hu H

Sci Adv (2024) 10 pp. eadm8275-eadm8275 [ Pubmed: 38691607 DOI: doi:10.1126/sciadv.adm8275 ]

Sample:

Genome polyprotein (40 kDa, Protein from Dengue virus 4 Philippines/H241/1956)
Tristearoylglycerol (891 Da, Ligand)
Dengue virus type 4 non-structural protein 1 hexamer (Complex from dengue virus type 4)

EMD-37423

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CryoEM structure of non-structural protein 1 tetramer from ZIKA virus

Release date: May 22, 2024
Resolution: 2.99 Å
EM Method: Single-particle
Fitted PDBs: 8wbf
Q-score: 0.548

Pan Q, Jiao H, Zhang W, Chen Q, Zhang G, Yu J, Zhao W, Hu H

Sci Adv (2024) 10 pp. eadm8275-eadm8275 [ Pubmed: 38691607 DOI: doi:10.1126/sciadv.adm8275 ]

Sample:

Genome polyprotein (44 kDa, Protein from dengue virus type 4)
Zika virus non-structural protein 1 tetramer (Complex from dengue virus type 4)

EMD-37424

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CryoEM structure of non-structural protein 1 tetramer from ZIKA virus

Release date: May 22, 2024
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 8wbg

Pan Q, Jiao H, Zhang W, Chen Q, Zhang G, Yu J, Zhao W, Hu H

Sci Adv (2024) 10 pp. eadm8275-eadm8275 [ Pubmed: 38691607 DOI: doi:10.1126/sciadv.adm8275 ]

Sample:

Genome polyprotein (44 kDa, Protein from dengue virus type 4)
Zika virus non-structural protein 1 tetramer (Complex from dengue virus type 4)

EMD-37425

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CryoEM structure of non-structural protein 1 tetramer from Japanese encephalitis virus

Release date: May 22, 2024
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 8wbh

Pan Q, Jiao H, Zhang W, Chen Q, Zhang G, Yu J, Zhao W, Hu H

Sci Adv (2024) 10 pp. eadm8275-eadm8275 [ Pubmed: 38691607 DOI: doi:10.1126/sciadv.adm8275 ]

Sample:

Japanese encephalitis virus non-structural protein 1 tetramer (Complex from Japanese encephalitis virus)
Genome polyprotein (40 kDa, Protein from Japanese encephalitis virus)

EMD-18944

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Structure of coxsackievirus B5 capsid (mutant CVB5F.cas.genogroupB) - E particle

Release date: March 27, 2024
Resolution: 2.6 Å
EM Method: Single-particle
Fitted PDBs: 8r5z
Q-score: 0.573

Torii S, Gouttenoire J, Kumar K, Antanasijevic A, Kohn T

Environ Sci Technol. (2024) 58 pp. 5279-5289 [ DOI: doi:10.1021/acs.est.3c10409 Pubmed: 38488515 ]

Sample:

Coxsackievirus b5 (Virus from Coxsackievirus B5)
Genome polyprotein (93 kDa, Protein from Coxsackievirus B5)

EMD-17053

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Head-to-tail double ring assembly from truncated PVY coat protein

Release date: Jan. 24, 2024
Resolution: 2.93 Å
EM Method: Single-particle
Fitted PDBs: 8oph
Q-score: 0.474

Kavcic L, Kezar A, Koritnik N, Znidaric MT, Klobucar T, Vicic Z, Merzel F, Holden E, Benesch JLP, Podobnik M

Commun Chem (2024) 7 pp. 14-14 [ Pubmed: 38233506 DOI: doi:10.1038/s42004-024-01100-x ]

Sample:

Genome polyprotein (22 kDa, Protein from Potato virus Y strain NTN)
Truncated coat protein (dn49c40) with c-terminal his tag (Complex from Potato virus Y strain NTN)

EMD-17062

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Global refinement of cubic assembly from truncated PVY coat protein with K176C mutation

Release date: Jan. 24, 2024
Resolution: 2.99 Å
EM Method: Single-particle
Fitted PDBs: 8opj
Q-score: 0.421

Kavcic L, Kezar A, Koritnik N, Znidaric MT, Klobucar T, Vicic Z, Merzel F, Holden E, Benesch JLP, Podobnik M

Commun Chem (2024) 7 pp. 14-14 [ Pubmed: 38233506 DOI: doi:10.1038/s42004-024-01100-x ]

Sample:

Genome polyprotein (fragment) (22 kDa, Protein from Potato virus Y strain NTN)
Truncated coat protein (dn49c40) with c-terminal his tag and k176c mutation (1 MDa, Complex from Potato virus Y strain NTN)

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