4RQS

Crystal structure of fully glycosylated HIV-1 gp120 core bound to CD4 and 17b Fab


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 4.49 Å
  • R-Value Free: 0.322
  • R-Value Work: 0.276

Literature

Macromolecules
Sequence Display for 4RQS

Classification: IMMUNE SYSTEM

Total Structure Weight: 108761.33

Macromolecule Entities
Molecule Chains Length Organism Details
2-domain CD4 B 185 Homo sapiens Gene Name(s): CD4 Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
17b Fab Light Chain C 214 Homo sapiens
17b Fab Heavy Chain D 229 Homo sapiens
HIV-1 YU2 gp120 core chimeric protein G 313 Human immunodeficiency virus 1 Gene Name(s): env
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 3 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)
MAN
Query on MAN

G ALPHA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-PQMKYFCFSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
BMA
Query on BMA

G BETA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-RWOPYEJCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 4.49 Å
  • R-Value Free: 0.322
  • R-Value Work: 0.276
  • Space Group: P 43 21 2

Unit Cell:

Length (Å) Angle (°)
a = 171.32 α = 90.00
b = 171.32 β = 90.00
c = 151.86 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2014-11-05
  • Released Date: 2014-12-31
  • Deposition author(s): Kong, L., Wilson, I.A., Kwong, P.D.

Revision History

  • Version 1_0: 2014-12-31

    Type: Initial release

  • Version 1_1: 2015-01-14

    Type: Database references

  • Version 1_2: 2015-02-25

    Type: Database references

  • Version 1_3: 2017-06-28

    Type: Source and taxonomy