› 5x08

X-ray diffraction
1.49Å resolution

Crystal structure of broadly neutralizing anti-HIV-1 antibody 4E10, mutant Npro, with peptide bound

Released:
DOI: 10.2210/pdb5x08/pdb
PDB entry 5x08 coloured by chain, front view.
PDB entry 5x08 coloured by chain, side view.
PDB entry 5x08 coloured by chain, top view.
Source organisms:
Primary publication:
Functional Contacts between MPER and the Anti-HIV-1 Broadly Neutralizing Antibody 4E10 Extend into the Core of the Membrane.
Rujas E, Insausti S, García-Porras M, Sánchez-Eugenia R, Tsumoto K, Nieva JL, Caaveiro JM
J Mol Biol 429 1213-1226 (2017)
PMID: 28300601

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-209065 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Fab 4E10 Heavy chain Chain: H
Molecule details ›
Chain: H
Length: 230 amino acids
Theoretical weight: 24.18 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
Structure domains: Immunoglobulins
Fab 4E10 Light chain Chain: L
Molecule details ›
Chain: L
Length: 214 amino acids
Theoretical weight: 23.29 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
Structure domains: Immunoglobulins
Transmembrane protein gp41 Chain: P
Molecule details ›
Chain: P
Length: 16 amino acids
Theoretical weight: 2.19 KDa
Source organism: Human immunodeficiency virus type 1 (MAL ISOLATE)
Expression system: synthetic construct
UniProt:
  • Canonical: P04578 (Residues: 671-683; Coverage: 2%)
Gene name: env

Ligands and Environments

5 bound ligands:
Ligand GOL 2 x GOL
Ligand PGE 1 x PGE
Ligand P6G 1 x P6G
Ligand CL 1 x CL
Ligand ACT 1 x ACT
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ALBA BEAMLINE XALOC
Spacegroup: C2
Unit cell:
a: 157.509Å b: 44.5Å c: 85.13Å
α: 90° β: 113.7° γ: 90°
R-values:
R R work R free
0.13 0.129 0.169
Expression systems:
  • Escherichia coli
  • synthetic construct

Quick links

Citations

12 citation in other articles

An MPER antibody neutralizes HIV-1 using germline features shared among donors.
Zhang et al. (2019)
11 more

1 mention without citation

Functional Contacts between MPER and the Anti-HIV-1 Broadly Neutralizing Antibody 4E10 Extend into the Core of the Membrane.
Rujas et al. (2017)