5FEC

Crystal structure of 3BNC60 Fab germline precursor in complex with 426c.TM4deltaV1-3 gp120


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.17 Å
  • R-Value Free: 0.266
  • R-Value Work: 0.202

Literature

Macromolecules
Sequence Display for 5FEC

Classification: IMMUNE SYSTEM

Total Structure Weight: 261027.98

Macromolecule Entities
Molecule Chains Length Organism Details
germline 3BNC60 heavy chain A, H 230 Homo sapiens
germline 3BNC60 light chain B, L 210 Homo sapiens
426c.TM4deltaV1-3 gp120 C, D, G, I 353 Human immunodeficiency virus 1 Gene Name(s): env
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

C, D, G, I N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MAN
Query on MAN

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

C, D, G BETA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-RWOPYEJCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.17 Å
  • R-Value Free: 0.266
  • R-Value Work: 0.202
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 103.07 α = 90.00
b = 134.10 β = 90.00
c = 194.96 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2015-12-16
  • Released Date: 2016-05-04
  • Deposition author(s): Scharf, L., Bjorkman, P.J.

Revision History

  • Version 1_0: 2016-05-04

    Type: Initial release

  • Version 1_1: 2017-09-27

    Type: Author supporting evidence, Derived calculations