4B41

Crystal structure of an amyloid-beta binding single chain antibody G7

• PDB DOI: https://doi.org/10.2210/pdb4B41/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Lama glama
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2012-07-27 Released: 2013-08-07 
• Deposition Author(s): Beringer, D.X., Dorresteijn, B., Rutten, L., Wienk, H., el Khattabi, M., Kroon-Batenburg, L.M.J., Verrips, C.T.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.19 Å
• R-Value Free: 0.162 
• R-Value Work: 0.136 
• R-Value Observed: 0.137 

Starting Model: experimental

Literature

Crystal Structure of an Amyloid-Beta Binding Single Chain Antibody G7

Beringer, D.X., Dorresteijn, B., Rutten, L., Wienk, H., El Khattabi, M., Kroon-Batenburg, L.M.J., Verrips, C.T.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 25.57 kDa 
• Atom Count: 2,234 
• Modelled Residue Count: 234 
• Deposited Residue Count: 236 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ANTIBODY G7	A, B	118	Lama glama	Mutation(s): 0

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	F [auth B]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
CL	C [auth A], D [auth A], E [auth B], G [auth B]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.19 Å
• R-Value Free: 0.162 
• R-Value Work: 0.136 
• R-Value Observed: 0.137 
• Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 29.178	α = 103.74
b = 32.596	β = 99.54
c = 52.197	γ = 90.62

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
SCALA	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-08-07 
Deposition Author(s): Beringer, D.X., Dorresteijn, B., Rutten, L., Wienk, H., el Khattabi, M., Kroon-Batenburg, L.M.J., Verrips, C.T.

Revision History  

• Version 1.0: 2013-08-07
  Type: Initial release
  
• Version 1.1: 2023-12-20
  Changes: Data collection, Database references, Derived calculations, Other, Refinement description
• Version 1.2: 2024-11-06
  Changes: Structure summary