6V8L | pdb_00006v8l

Crystal structure of Ara h 8.0201

• PDB DOI: https://doi.org/10.2210/pdb6V8L/pdb

• Classification: ALLERGEN
• Organism(s): Arachis hypogaea
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2019-12-11 Released: 2020-12-16 
• Deposition Author(s): Pote, S., Offermann, L.R., Hurlburt, B.K., McBride, J.K., Chruszcz, M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free: 
  0.258 (Depositor), 0.264 (DCC) 
• R-Value Work: 
  0.218 (Depositor), 0.227 (DCC) 
• R-Value Observed: 
  0.220 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of Ara h 8.0201

Pote, S., Offermann, L.R., Hurlburt, B.K., McBride, J.K., Chruszcz, M.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Biological Assembly 3  

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

Biological assembly 3 assigned by authors.

Biological Assembly 4  

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

Biological assembly 4 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 66.43 kDa 
• Atom Count: 4,745 
• Modeled Residue Count: 598 
• Deposited Residue Count: 612 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Ara h 8 allergen isoform	A, B, C, D	153	Arachis hypogaea	Mutation(s): 0  Gene Names: Ahy_Scaffold6g108211
UniProt
Find proteins for B0YIU5 (Arachis hypogaea) Explore B0YIU5  Go to UniProtKB:  B0YIU5

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
DCR	I [auth D]	icosanoic acid C20 H40 O2 VKOBVWXKNCXXDE-UHFFFAOYSA-N
SO4	E [auth A], F [auth B], G [auth C], H [auth C]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free:  0.258 (Depositor), 0.264 (DCC) 
• R-Value Work:  0.218 (Depositor), 0.227 (DCC) 
• R-Value Observed: 0.220 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 39.913	α = 90
b = 110.565	β = 96.58
c = 65.772	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-2000	data reduction
HKL-2000	data scaling
MOLREP	phasing
Coot	model building

Structure Validation

Entry History 

Deposition Data

• Released Date: 2020-12-16 
Deposition Author(s): Pote, S., Offermann, L.R., Hurlburt, B.K., McBride, J.K., Chruszcz, M.

Revision History  

• Version 1.0: 2020-12-16
  Type: Initial release
  
• Version 1.1: 2023-10-11
  Changes: Data collection, Database references, Refinement description