› 3u7y

X-ray diffraction
2.45Å resolution

Structure of NIH45-46 Fab in complex with gp120 of 93TH057 HIV

Released:
DOI: 10.2210/pdb3u7y/pdb
PDB entry 3u7y coloured by chain, front view.
PDB entry 3u7y coloured by chain, side view.
PDB entry 3u7y coloured by chain, top view.
Source organisms:
Primary publication:
Increasing the potency and breadth of an HIV antibody by using structure-based rational design.
Diskin R, Scheid JF, Marcovecchio PM, West AP, Klein F, Gao H, Gnanapragasam PN, Abadir A, Seaman MS, Nussenzweig MC, Bjorkman PJ
Science 334 1289-93 (2011)
PMID: 22033520

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-102401 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (4 distinct):
Immunoglobulin heavy constant gamma 1 Chain: H
Molecule details ›
Chain: H
Length: 229 amino acids
Theoretical weight: 25.09 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: P01857 (Residues: 1-104; Coverage: 26%)
Gene name: IGHG1
Sequence domains: Immunoglobulin C1-set domain
Structure domains: Immunoglobulins
Human immunodeficiency virus 1 envelope glycoprotein Gp120 domain-containing protein Chain: G
Molecule details ›
Chain: G
Length: 361 amino acids
Theoretical weight: 40.2 KDa
Source organism: Human immunodeficiency virus 1
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: A0A0M3KKW9 (Residues: 1-80, 83-185, 192-353; Coverage: 98%)
Gene name: HIV-1 Env
Sequence domains: Envelope glycoprotein GP120
Structure domains: Human immunodeficiency virus 1, Gp160, envelope glycoprotein
Immunoglobulin kappa constant Chain: L
Molecule details ›
Chain: L
Length: 210 amino acids
Theoretical weight: 23 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: P01834 (Residues: 1-107; Coverage: 100%)
Gene name: IGKC
Sequence domains: Immunoglobulin C1-set domain
Structure domains: Immunoglobulins

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, BMA, MAN
Carbohydrate polymer
3 bound ligands:
Ligand FLC 1 x FLC
Ligand NAG 6 x NAG
Ligand CL 1 x CL
1 modified residue:
Ligand PCA 1 x PCA

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL12-2
Spacegroup: P212121
Unit cell:
a: 69.13Å b: 70.5Å c: 217.74Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.21 0.207 0.256
Expression systems:
  • Homo sapiens
  • Spodoptera frugiperda

Quick links

Citations

63 review citations

Human antibodies that neutralize HIV-1: identification, structures, and B cell ontogenies.
Kwong et al. (2012)
62 more

24 mentions without citation

HIV-1 envelope glycoprotein structure.
Merk et al. (2013)
23 more