4TVP

Crystal Structure of the HIV-1 BG505 SOSIP.664 Env Trimer Ectodomain, Comprising Atomic-Level Definition of Pre-Fusion gp120 and gp41, in Complex with Human Antibodies PGT122 and 35O22


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.1 Å
  • R-Value Free: 0.248
  • R-Value Work: 0.213

Literature

Macromolecules
Sequence Display for 4TVP

Classification: VIRAL PROTEIN / IMMUNE SYSTEM

Total Structure Weight: 182082.78

Macromolecule Entities
Molecule Chains Length Organism Details
Envelope glycoprotein gp160 G 481 Human immunodeficiency virus 1 Fragment: UNP residues 30-505
Mutation: T332N, A501C
Gene Name(s): env
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Envelope glycoprotein gp160 B 153 Human immunodeficiency virus 1 Fragment: UNP residues 509-661
Mutation: I559P, T605C
Gene Name(s): env
PGT122 Light chain L 213 Homo sapiens
PGT122 Heavy chain H 235 Homo sapiens
35O22 Heavy chain D 243 Homo sapiens
35O22 Light chain E 216 Homo sapiens

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

B, G, H N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-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)
MAN
Query on MAN

G ALPHA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-PQMKYFCFSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

B, G, L SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.1 Å
  • R-Value Free: 0.248
  • R-Value Work: 0.213
  • Space Group: P 63

Unit Cell:

Length (Å) Angle (°)
a = 128.89 α = 90.00
b = 128.89 β = 90.00
c = 313.42 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2014-06-27
  • Released Date: 2014-10-08
  • Deposition author(s): Pancera, M., Zhou, T., Kwong, P.D.

Revision History

  • Version 1_0: 2014-10-08

    Type: Initial release

  • Version 1_1: 2014-10-22

    Type: Database references

  • Version 1_2: 2014-11-05

    Type: Database references

  • Version 1_3: 2015-04-22

    Type: Structure summary

  • Version 2_0: 2017-11-22

    Type: Atomic model, Database references, Derived calculations, Other, Refinement description, Source and taxonomy, Structure summary