7DWU: Dengue virus serotype 1 strain WestPac 74

Cryo-EM structure of Dengue virus serotype 1 strain WestPac 74 in complex with human antibody 1C19 Fab at 37 deg C (Class 2 particle). Determined by electron microscopy at 19.0 Å resolution. Released 17 Feb 2021.

Method

Electron microscopy

Resolution

19.0 Å

Organisms

Dengue virus 1, Homo sapiens

Chains

5

Atoms

1,408

Mol. weight

186.49 kDa

Released

17 Feb 2021

Explore 7DWU in 3D Show helices and sheets RCSB PDB PDBe

Molecules and chains

>7DWU_1 envelope protein (chains A, B, C)
MRCVGIGNRDFVEGLSGATWVDVVLEHGSCVTTMAKDKPTLDIELLKTEVTNPAVLRKLC
IEAKISNTTTDSRCPTQGEATLVEEQDTNFVCRRTFVDRGWGNGCGLFGKGSLITCAKFK
CVTKLEGKIVQYENLKYSVIVTVHTGDQHQVGNETTEHGTIATITPQAPTSEIQLTDYGA
LTLDCSPRTGLDFNEMVLLTMEKKSWLVHKQWFLDLPLPWTSGASTSQETWNRQDLLVTF
KTAHAKKQEVVVLGSQEGAMHTALTGATEIQTSGTTTIFAGHLKCRLKMDKLTLKGMSYV
MCTGSFKLEKEVAETQHGTVLVQVKYEGTDAPCKIPFSSQDEKGVTQNGRLITANPIVTD
KEKPVNIEAEPPFGESYIVVGAGEKALKLSWFKKGSSIGKMFEATARGARRMAILGDTAW
DFGSIGGVFTSVGKLIHQIFGTAYGVLFSGVSWTMKIGIGILLTWLGLNSRSTSLSMTCI
AVGMVTLYLGVMVQA

>7DWU_2 Anti-dengue virus human monoclonal antibody 1C19 Fab heavy chain (chains H)
QVQLVESGGGVVQPGRSLRLSCAASGFIFSNYGMHWVRQAPGKGLEWVAVISYDGSDKRY
ADSVRGRFTISRDNSKNTLFLQVTSLRAEDTAVYYCAKELSGYDPGFEYWGQGTPVTVSS

>7DWU_3 Anti-dengue virus human monoclonal antibody 1C19 Fab light chain (chains L)
DIQMTQSPSTLSASVGDRVTITCRASQSINTWLAWYQQKPGKAPKLLIYKASSLESGVPS
RFSGSGSGTEFTLTISSLQPDDFATYYCQQYESYATFGQGTKVDIK

Primary citation

Antibody affinity versus dengue morphology influences neutralization. Fibriansah, G., Lim, E.X.Y., Marzinek, J.K. et al. PLoS Pathog (2021) 17:e1009331-e1009331. DOI 10.1371/journal.ppat.1009331 · PubMed

Related structures

Other PDB entries of the same protein (UniProt P17763 (AlphaFold model), which also has an AlphaFold model), best resolution first:

• 4LCY 1.6 Å, Crystal structure of HLA-b46 at 1.6 angstrom resolution
• 4AL8 1.66 Å, Structure of Dengue virus DIII in complex with Fab 2H12
• 4GSX 1.9 Å, High resolution structure of dengue virus serotype 1 sE containing stem
• 3LKW 2.0 Å, Crystal Structure of Dengue Virus 1 NS2B/NS3 protease active site mutant
• 3L6P 2.2 Å, Crystal Structure of Dengue Virus 1 NS2B/NS3 protease
• 4GT0 2.57 Å, Structure of dengue virus serotype 1 sE containing stem to residue 421
• 4OIG 2.69 Å, Dengue Virus Non-structural Protein NS1
• 8VPR 2.7 Å, Crystal structure of mouse Importin alpha in complex with Dengue 1 NS5 central NLS peptide
• 5WKF 2.95 Å, D30 TCR in complex with HLA-A*11:01-GTS1
• 5VIC 3.0 Å, Crystal structure of anti-Zika antibody Z004 bound to DENV-1 Envelope protein DIII
• 5WJL 3.15 Å, Crystal Structure of HLA-A*11:01 with GTS1 peptide
• 7DWT 19.0 Å, Cryo-EM structure of Dengue virus serotype 1 strain WestPac 74 in complex with human…

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