3J8D: Glycoprotein DIII

Cryoelectron microscopy of dengue-Fab E104 complex at pH 5.5. Determined by electron microscopy at 26.0 Å resolution. Released 12 Nov 2014.

Method

Electron microscopy

Resolution

26.0 Å

Organisms

Dengue virus 2 Thailand/16681/84, Mus musculus

Chains

7

Atoms

1,990

Mol. weight

245.97 kDa

Released

12 Nov 2014

Explore 3J8D in 3D Show helices and sheets RCSB PDB PDBe

Molecules and chains

>3J8D_1 glycoprotein DIII (chains B, F)
YVMCTGSFKLEKEVAETQHGTVLVQVKYEGTDAPCKIPFSSQDEKGVTQNGRLITANPIV
TDKEKPVNIEAEPPFGESYIVVGAGEKALKLSWFKKG

>3J8D_2 antibody E111 Fab fragment (chains A, D)
NIVLTQSPASLAVSLGQRATISCRASESVDSFIYWYQQKPGQPPKLLIYLASNLESGVPA
RFSGSGSETDFTLTIDSVETDDAATYYCQQNNEDPYTFGGGTKLEIKQVQLLQPGAELVK
PGASMKLSCKASGYTFTNWWMHWVRLRPGRGLEWIGRIDPNSDVNKYNEKFENRASLTVD
KHSSTAYMQLTSEDSAIYYCARWFFPWYFDVWGTGTTVTVSRADAAPTVSIFPPSSEQLT
SGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEY
ERHNSYTCEATHKTSTSPIVKSFNRSAKTTAPSVYPLAPVCGGTTGSSVTLGCLVKGYFP
EPVTLTWNSGSLSSGVHTFPALLQSGLYTLSSSVTVTSNTWPSQTITCNVAHPASSTKVD
KKIES

>3J8D_3 Envelope protein E (chains G, H, I)
MRCIGISNRDFVEGVSGGSWVDIVLEHGSCVTTMAKNKPTLDFELIKTEAKQPATLRKYC
IEAKLTNTTTESRCPTQGEPTLNEEQDKRFVCKHSMVDRGWGNGCGLFGKGGIVTCAMFT
CKKNMEGKIVQPENLEYTVVITPHSGEEHAVGNDTGKHGKEVKITPQSSITEAELTGYGT
VTMECSPRTGLDFNEMVLLQMKDKAWLVHRQWFLDLPLPWLPGADTQGSNWIQKETLVTF
KNPHAKKQDVVVLGSQEGAMHTALTGATEIQMSSGNLLFTGHLKCRLRMDKLQLKGMSYS
MCTGKFKVVKEIAETQHGTIVIRVQYEGDGSPCKIPFEIMDLEKRHVLGRLITVNPIVTE
KDSPVNIEAEPPFGDSYIIIGVEPGQLKLNWFKK

Primary citation

Structure of Acidic pH Dengue Virus Showing the Fusogenic Glycoprotein Trimers. Zhang, X., Sheng, J., Austin, S.K. et al. J Virol (2015) 89:743-750. DOI 10.1128/JVI.02411-14 · 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…

Browse structure collections

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