SMTL ID : 4i3r.1

Crystal structure of the outer domain of HIV-1 gp120 in complex with VRC-PG04 space group P3221

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

hetero-1-1-1-mer

Ligands

4 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.1: 2 residues within 4Å: Chain A: N.50, N.51 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.51 NAG.2: 3 residues within 4Å: Chain A: N.11, G.12, N.157 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.11 NAG.3: 4 residues within 4Å: Chain A: N.58, T.60, Q.61, N.131 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.61 NAG.4: 4 residues within 4Å: Chain A: N.63, T.122, S.124, T.128 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Joyce, M.G. et al., Outer Domain of HIV-1 gp120: Antigenic Optimization, Structural Malleability, and Crystal Structure with Antibody VRC-PG04. J.Virol. (2013)

Release Date

2013-01-09

Peptides

Outer domain of HIV-1 gp120 (KER2018 OD4.2.2): A
Heavy chain of VRC-PG04 Fab: B
Light chain of VRC-PG04 Fab: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
G

B
H

C
L

Outer domain of HIV-1 gp120 (KER2018 OD4.2.2)

Heavy chain of VRC-PG04 Fab

Light chain of VRC-PG04 Fab

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