1G9N

HIV-1 YU2 GP120 ENVELOPE GLYCOPROTEIN COMPLEXED WITH CD4 AND INDUCED NEUTRALIZING ANTIBODY 17B

Structural Biology Knowledgebase: 1G9N SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.295
  • R-Value Work: 0.207

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1G9N

Classification: Viral protein / Immune system

Total Structure Weight: 106405.24

Macromolecule Entities
Molecule Chains Length Organism Details
ENVELOPE GLYCOPROTEIN GP120 G 313 Human immunodeficiency virus 1 Fragment: CORE
Gene Name(s): env
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
T-CELL SURFACE GLYCOPROTEIN CD4 C 185 Homo sapiens Fragment: D1D2, N-TERMINAL TWO DOMAIN FRAGMENT
Mutation: S184N, I185T
Gene Name(s): CD4 Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
ANTIBODY 17B, LIGHT CHAIN L 214 Homo sapiens Fragment: ANTIGEN-BINDING FRAGMENT, FAB
ANTIBODY 17B, HEAVY CHAIN H 229 Homo sapiens Fragment: ANTIGEN-BINDING FRAGMENT, FAB

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

G 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
C8 H15 N O6
OVRNDRQMDRJTHS-PVFLNQBWSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NAG
Query on NAG

G 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: 0.295
  • R-Value Work: 0.207
  • Space Group: C 1 2 1

Unit Cell:

Length (Å) Angle (°)
a = 174.98 α = 90.00
b = 81.71 β = 90.37
c = 74.48 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2000-11-25
  • Released Date: 2000-12-27
  • Deposition author(s): Kwong, P.D., Wyatt, R., Majeed, S., Robinson, J., Sweet, R.W., Sodroski, J., Hendrickson, W.A.

Revision History

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