› 7ugq

Electron Microscopy
3.4Å resolution

Cryo-EM structure of BG24 Fabs with an inferred germline CDRL1 and 10-1074 Fabs in complex with HIV-1 Env 6405-SOSIP.664

Released:
DOI: 10.2210/pdb7ugq/pdb
PDB entry 7ugq coloured by chain, front view.
PDB entry 7ugq coloured by chain, side view.
PDB entry 7ugq coloured by chain, top view.
Source organisms:
Primary publication:
HIV-1 CD4-binding site germline antibody-Env structures inform vaccine design.
Dam KA, Barnes CO, Gristick HB, Schoofs T, Gnanapragasam PNP, Nussenzweig MC, Bjorkman PJ
Nat Commun 13 6123 (2022)
PMID: 36253376
Related structures: EMD-26496

Function and Biology Details

Biochemical function:
Biological process:
  • not assigned
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero octadecamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-224747 (preferred)
Entry contents:
6 distinct polypeptide molecules
Macromolecules (11 distinct):
Surface protein gp120 Chains: A, B, C
Molecule details ›
Chains: A, B, C
Length: 447 amino acids
Theoretical weight: 50.01 KDa
Source organism: Human immunodeficiency virus 1
Expression system: Homo sapiens
UniProt:
  • Canonical: D7S1H2 (Residues: 32-505; Coverage: 52%)
Gene name: env
Sequence domains: Envelope glycoprotein GP120
Envelope glycoprotein gp41 Chains: D, E, F
Molecule details ›
Chains: D, E, F
Length: 129 amino acids
Theoretical weight: 14.68 KDa
Source organism: Human immunodeficiency virus 1
Expression system: Homo sapiens
BG24 with an inferred germline CDRL1 Fab heavy chain Chains: G, H, I
Molecule details ›
Chains: G, H, I
Length: 125 amino acids
Theoretical weight: 13.76 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
BG24 with an inferred germline CDRL1 Fab light chain Chains: J, K, L
Molecule details ›
Chains: J, K, L
Length: 105 amino acids
Theoretical weight: 11.18 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
10-1074 Fab heavy chain Chains: M, N, O
Molecule details ›
Chains: M, N, O
Length: 133 amino acids
Theoretical weight: 14.79 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
10-1074 Fab light chain Chains: P, Q, R
Molecule details ›
Chains: P, Q, R
Length: 107 amino acids
Theoretical weight: 11.7 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, BMA
Ligand NAG 18 x NAG
Ligand BMA 9 x BMA
Carbohydrate polymer : NEW Components: NAG
Ligand NAG 42 x NAG
Carbohydrate polymer : NEW Components: NAG, BMA, MAN
Ligand NAG 6 x NAG
Ligand BMA 3 x BMA
Ligand MAN 6 x MAN
Carbohydrate polymer : NEW Components: NAG, BMA, MAN
Ligand NAG 4 x NAG
Ligand BMA 2 x BMA
Ligand MAN 12 x MAN
Carbohydrate polymer : NEW Components: NAG, BMA, MAN
Ligand NAG 2 x NAG
Ligand BMA 1 x BMA
Ligand MAN 5 x MAN
1 bound ligand:
Ligand NAG 24 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.4Å
Relevant EMDB volumes: EMD-26496
Expression system: Homo sapiens

Quick links

Citations

4 citation in other articles

CD4 binding site immunogens elicit heterologous anti-HIV-1 neutralizing antibodies in transgenic and wild-type animals.
Gristick et al. (2023)
3 more