› 3tv3

X-ray diffraction
1.29Å resolution

Crystal structure of broad and potent HIV-1 neutralizing antibody PGT128 in complex with Man9

Released:
DOI: 10.2210/pdb3tv3/pdb
PDB entry 3tv3 coloured by chain, front view.
PDB entry 3tv3 coloured by chain, side view.
PDB entry 3tv3 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
A potent and broad neutralizing antibody recognizes and penetrates the HIV glycan shield.
Pejchal R, Doores KJ, Walker LM, Khayat R, Huang PS, Wang SK, Stanfield RL, Julien JP, Ramos A, Crispin M, Depetris R, Katpally U, Marozsan A, Cupo A, Maloveste S, Liu Y, McBride R, Ito Y, Sanders RW, Ogohara C, Paulson JC, Feizi T, Scanlan CN, Wong CH, Moore JP, Olson WC, Ward AB, Poignard P, Schief WR, Burton DR, Wilson IA
Science 334 1097-103 (2011)
PMID: 21998254

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-208627 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (3 distinct):
PGT128 light chain, Ig lambda-2 chain C regions Chain: L
Molecule details ›
Chain: L
Length: 211 amino acids
Theoretical weight: 22.22 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
Structure domains: Immunoglobulins
Immunoglobulin heavy constant gamma 1 Chain: H
Molecule details ›
Chain: H
Length: 239 amino acids
Theoretical weight: 25.56 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

Ligands and Environments

Carbohydrate polymer : NEW Components: MAN
Carbohydrate polymer
3 bound ligands:
Ligand GOL 4 x GOL
Ligand AML 1 x AML
Ligand EPE 1 x EPE
1 modified residue:
Ligand PCA 1 x PCA

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL12-2
Spacegroup: C2221
Unit cell:
a: 72.143Å b: 106.017Å c: 145.311Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.159 0.159 0.184
Expression system: Homo sapiens

Quick links

Citations

122 review citations

Biological roles of glycans.
Varki A. (2017)
121 more

14 mentions without citation

A potent and broad neutralizing antibody recognizes and penetrates the HIV glycan shield.
Pejchal et al. (2011)
13 more