3HI1

Structure of HIV-1 gp120 (core with V3) in Complex with CD4-Binding-Site Antibody F105

Structural Biology Knowledgebase: 3HI1 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.243
  • R-Value Work: 0.202

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3HI1

Classification: STRUCTURAL PROTEIN / Immune System

Total Structure Weight: 172579.39

Macromolecule Entities
Molecule Chains Length Organism Details
Glycoprotein 120 G, J 321 Human immunodeficiency virus 1 Gene Name(s): env
F105 Light Chain A, L 215 Homo sapiens Gene Name(s): IGK@
F105 Heavy Chain B, H 225 Homo sapiens

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

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

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.243
  • R-Value Work: 0.202
  • Space Group: H 3 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 412.40 α = 90.00
b = 412.40 β = 90.00
c = 83.21 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2009-05-18
  • Released Date: 2009-11-17
  • Deposition author(s): Kwon, Y.D., Chen, L., Zhou, T., Wu, X., O'Dell, S., Cavacini, L., Hessell, A.J., Pancera, M., Tang, M., Xu, L., Yang, Z., Zhang, M.-Y., Arthos, J., Burton, D.R., Dimitrov, D., Nabel, G.J., Posner, M., Sodroski, J., Wyatt, R., Mascola, J.R., Kwong, P.D.

Revision History

  • 2011-07-13
    Type: Non-polymer description | Details: chemical name/synonym update
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4