4LSS

Crystal structure of broadly and potently neutralizing antibody VRC01 in complex with HIV-1 clade A strain KER_2018_11 gp120


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.59 Å
  • R-Value Free: 0.263
  • R-Value Work: 0.192

Literature

Macromolecules
Sequence Display for 4LSS

Classification: viral protein / immune system

Total Structure Weight: 90644.45

Macromolecule Entities
Molecule Chains Length Organism Details
envelope glycoprotein GP120 G 359 Human immunodeficiency virus 1 Gene Name(s): env
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
HEAVY CHAIN OF ANTIBODY VRC01 H 224 Homo sapiens
LIGHT CHAIN OF ANTIBODY VRC01 with N72T mutation L 210 Homo sapiens

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
EPE
Query on EPE

G, H 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)
IPA
Query on IPA

G ISOPROPYL ALCOHOL
2-PROPANOL (Synonym)
C3 H8 O
KFZMGEQAYNKOFK-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NA
Query on NA

G, L SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.59 Å
  • R-Value Free: 0.263
  • R-Value Work: 0.192
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 54.64 α = 90.00
b = 65.27 β = 90.00
c = 259.15 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-07-23
  • Released Date: 2013-08-21
  • Deposition author(s): Zhou, T., Moquin, S., Kwong, P.D.

Revision History

  • Version 1_0: 2013-08-21

    Type: Initial release

  • Version 1_1: 2013-09-04

    Type: Database references

  • Version 1_2: 2013-09-25

    Type: Database references

  • Version 1_3: 2014-05-07

    Type: Other