› 4q6i

X-ray diffraction
3.65Å resolution

Crystal structure of murine 2D5 Fab, a potent anti-CD4 HIV-1-neutralizing antibody in complex with CD4

Released:
DOI: 10.2210/pdb4q6i/pdb
PDB entry 4q6i coloured by chain, front view.
PDB entry 4q6i coloured by chain, side view.
PDB entry 4q6i coloured by chain, top view.
Source organisms:
Primary publication:
Neutralizing antibodies to HIV-1 envelope protect more effectively in vivo than those to the CD4 receptor.
Pegu A, Yang ZY, Boyington JC, Wu L, Ko SY, Schmidt SD, McKee K, Kong WP, Shi W, Chen X, Todd JP, Letvin NL, Huang J, Nason MC, Hoxie JA, Kwong PD, Connors M, Rao SS, Mascola JR, Nabel GJ
Sci Transl Med 6 243ra88 (2014)
PMID: 24990883

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-208508 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Light chain of murine 2D5 Fab Chains: A, D, F, L
Molecule details ›
Chains: A, D, F, L
Length: 218 amino acids
Theoretical weight: 24.16 KDa
Source organism: Mus musculus
Structure domains: Immunoglobulins
Heavy chain of murine 2D5 Fab Chains: B, E, G, H
Molecule details ›
Chains: B, E, G, H
Length: 230 amino acids
Theoretical weight: 24.83 KDa
Source organism: Mus musculus
Structure domains: Immunoglobulins
T-cell surface glycoprotein CD4 Chains: C, I, J, K
Molecule details ›
Chains: C, I, J, K
Length: 208 amino acids
Theoretical weight: 23 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: P01730 (Residues: 1-208; Coverage: 42%)
Gene name: CD4
Sequence domains:
Structure domains: Immunoglobulins

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 22-BM
Spacegroup: P4
Unit cell:
a: 149.547Å b: 149.547Å c: 183.867Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.228 0.226 0.257
Expression system: Homo sapiens

Quick links

Citations

42 review citations

Broadly Neutralizing Antibodies to HIV and Their Role in Vaccine Design.
Burton et al. (2016)
41 more

2 mentions without citation

Neutralizing antibodies to HIV-1 envelope protect more effectively in vivo than those to the CD4 receptor.
Pegu et al. (2014)
1 more