4I3R

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


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.0 Å
  • R-Value Free: 0.245
  • R-Value Work: 0.183

Literature

Macromolecules
Sequence Display for 4I3R

Classification: Viral Protein / Immune System

Total Structure Weight: 69377.59

Macromolecule Entities
Molecule Chains Length Organism Details
Outer domain of HIV-1 gp120 (KER2018 OD4.2.2) G 190 Human immunodeficiency virus Gene Name(s): env
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Heavy chain of VRC-PG04 Fab H 228 Homo sapiens
Light chain of VRC-PG04 Fab L 208 Homo sapiens

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
NAG
Query on NAG

G N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.0 Å
  • R-Value Free: 0.245
  • R-Value Work: 0.183
  • Space Group: P 32 2 1

Unit Cell:

Length (Å) Angle (°)
a = 158.91 α = 90.00
b = 158.91 β = 90.00
c = 80.27 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-11-26
  • Released Date: 2013-01-09
  • Deposition author(s): Joyce, M.G., Biertumpfel, C., Nabel, G.J., Kwong, P.D.

Revision History

  • Version 1_0: 2013-01-09

    Type: Initial release

  • Version 1_1: 2013-01-23

    Type: Database references

  • Version 1_2: 2013-02-13

    Type: Database references