5F9O

Crystal structure of broadly neutralizing VH1-46 germline-derived CD4-binding site-directed antibody CH235.09 in complex with HIV-1 clade A/E 93TH057 gp120


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.86 Å
  • R-Value Free: 0.221
  • R-Value Work: 0.204

Literature

Macromolecules
Sequence Display for 5F9O

Classification: IMMUNE SYSTEM

Total Structure Weight: 92493.98

Macromolecule Entities
Molecule Chains Length Organism Details
clade A/E 93TH057 HIV-1 gp120 core G 352 Human immunodeficiency virus 1 Gene Name(s): HIV-1 Env
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
CH235.9 Heavy chain H 234 Homo sapiens
CH235.09 Light chain L 213 Homo sapiens

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
15P
Query on 15P

G POLYETHYLENE GLYCOL (N=34)
PEG 1500 (Synonym)
C69 H140 O35
VUYXVWGKCKTUMF-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
EPE
Query on EPE

G 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
HEPES (Synonym)
C8 H18 N2 O4 S
JKMHFZQWWAIEOD-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
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: 1.86 Å
  • R-Value Free: 0.221
  • R-Value Work: 0.204
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 63.53 α = 90.00
b = 67.80 β = 90.00
c = 225.62 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2015-12-10
  • Released Date: 2016-03-16
  • Deposition author(s): Joyce, M.G., Mascola, J.R., Kwong, P.D.

Revision History

  • Version 1_0: 2016-03-16

    Type: Initial release

  • Version 1_1: 2016-03-23

    Type: Database references

  • Version 1_2: 2016-04-20

    Type: Database references