PDB 8g4t structure summary ‹ Protein Data Bank in Europe (PDBe) ‹ EMBL-EBI

Electron Microscopy

2.81Å resolution

Vaccine-elicited human antibody 2C09 in complex with HIV-1 envelope trimer BG505 DS-SOSIP

Released: 12 Jul 2023

DOI: 10.2210/pdb8g4t/pdb

Source organisms:

Primary publication:
HIV-1 neutralizing antibodies elicited in humans by a prefusion-stabilized envelope trimer form a reproducible class targeting fusion peptide.

Wang S, Matassoli F, Zhang B, Liu T, Shen CH, Bylund T, Johnston T, Henry AR, Teng IT, Tripathi P, Becker JE, Changela A, Chaudhary R, Cheng C, Gaudinski M, Gorman J, Harris DR, Lee M, Morano NC, Novik L, O'Dell S, Olia AS, Parchment DK, Rawi R, Roberts-Torres J, Stephens T, Tsybovsky Y, Wang D, Van Wazer DJ, Zhou T, Doria-Rose NA, Koup RA, Shapiro L, Douek DC, McDermott AB, Kwong PD

Cell Rep 42 112755 (2023)

PMID: 37436899

Related structures: EMD-29731

Function and Biology Details

Biochemical function:

structural molecule activity

Biological process:

not assigned

Cellular component:

viral envelope

Structure analysis Details

Assembly composition:

hetero dodecamer (preferred)

PDBe Complex ID:

PDB-CPX-226252 (preferred)

Entry contents:

4 distinct polypeptide molecules

Macromolecules (8 distinct):

Transmembrane protein gp41 Chains: A, B, F

Molecule details ›

Chains: A, B, F
Length: 153 amino acids
Theoretical weight: 17.16 KDa
Source organism: Human immunodeficiency virus 1
Expression system: Cricetulus griseus
UniProt:

Canonical: Q2N0S7 (Residues: 509-661; Coverage: 18%)

Gene name: env
Sequence domains: Retroviral envelope protein

Envelope glycoprotein gp160 Chains: C, G, I

Molecule details ›

Chains: C, G, I
Length: 473 amino acids
Theoretical weight: 52.99 KDa
Source organism: Human immunodeficiency virus 1
Expression system: Cricetulus griseus
UniProt:

Canonical: Q2N0S6 (Residues: 30-502; Coverage: 55%)

Gene name: env
Sequence domains: Envelope glycoprotein GP120

Fab 2C09 heavy chain Chains: D, H, J

Molecule details ›

Chains: D, H, J
Length: 232 amino acids
Theoretical weight: 24.76 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens

Fab 2C09 light chain Chains: E, K, L

Molecule details ›

Chains: E, K, L
Length: 214 amino acids
Theoretical weight: 23.28 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens

Ligands and Environments

Carbohydrate polymer : NEW

Carbohydrate polymer

Carbohydrate polymer : NEW

Carbohydrate polymer

Carbohydrate polymer : NEW

Carbohydrate polymer

Carbohydrate polymer : NEW

Carbohydrate polymer

1 bound ligand:

No modified residues

Experiments and Validation Details

Entry percentile scores

Resolution: 2.81Å

Relevant EMDB volumes: EMD-29731

Expression systems:

Cricetulus griseus
Homo sapiens

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Citations

1 mention without citation

HIV-1 neutralizing antibodies elicited in humans by a prefusion-stabilized envelope trimer form a reproducible class targeting fusion peptide.

Wang et al. (2023)