› 1rzg

X-ray diffraction
2Å resolution

Crystal structure of Human anti-HIV-1 GP120 reactive antibody 412d

Released:
DOI: 10.2210/pdb1rzg/pdb
PDB entry 1rzg coloured by chain, front view.
PDB entry 1rzg coloured by chain, side view.
PDB entry 1rzg coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural basis of tyrosine sulfation and VH-gene usage in antibodies that recognize the HIV type 1 coreceptor-binding site on gp120.
Huang CC, Venturi M, Majeed S, Moore MJ, Phogat S, Zhang MY, Dimitrov DS, Hendrickson WA, Robinson J, Sodroski J, Wyatt R, Choe H, Farzan M, Kwong PD
Proc Natl Acad Sci U S A 101 2706-11 (2004)
PMID: 14981267

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-213084 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (3 distinct):
Fab 412d light chain Chains: A, C
Molecule details ›
Chains: A, C
Length: 231 amino acids
Theoretical weight: 24.76 KDa
Source organism: Homo sapiens
Expression system: Human gammaherpesvirus 4
Structure domains: Immunoglobulins
Fab 412d heavy chain Chains: B, D
Molecule details ›
Chains: B, D
Length: 214 amino acids
Theoretical weight: 23.48 KDa
Source organism: Homo sapiens
Expression system: Human gammaherpesvirus 4
Structure domains: Immunoglobulins

Ligands and Environments

Carbohydrate polymer : NEW Components: GLC, FRU
Carbohydrate polymer
2 bound ligands:
Ligand CYS 1 x CYS
Ligand ASP 1 x ASP
1 modified residue:
Ligand TYS 2 x TYS

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X4A
Spacegroup: P21
Unit cell:
a: 63.088Å b: 89.313Å c: 85.863Å
α: 90° β: 110.31° γ: 90°
R-values:
R R work R free
0.201 0.201 0.251
Expression system: Human gammaherpesvirus 4

Quick links

Citations

37 review citations

Broadly neutralizing antibodies and the search for an HIV-1 vaccine: the end of the beginning.
Kwong et al. (2013)
36 more

6 mentions without citation

Structural basis of tyrosine sulfation and VH-gene usage in antibodies that recognize the HIV type 1 coreceptor-binding site on gp120.
Huang et al. (2004)
5 more