6AWV

Ara h 8.01 in complex with epicatechin


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.55 Å
  • R-Value Free: 0.262 
  • R-Value Work: 0.219 
  • R-Value Observed: 0.221 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.1 of the entry. See complete history


Literature

Structure of PR-10 Allergen Ara h 8.01.

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

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Ara h 8 allergen
A, B, C
156Arachis hypogaeaMutation(s): 0 
UniProt
Find proteins for Q6VT83 (Arachis hypogaea)
Explore Q6VT83 
Go to UniProtKB:  Q6VT83
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ6VT83
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
28E (Subject of Investigation/LOI)
Query on 28E

Download Ideal Coordinates CCD File 
D [auth A],
G [auth B],
I [auth C],
J [auth C]
(2R,3R)-2-(3,4-dihydroxyphenyl)-3,4-dihydro-2H-chromene-3,5,7-triol
C15 H14 O6
PFTAWBLQPZVEMU-UKRRQHHQSA-N
BEZ (Subject of Investigation/LOI)
Query on BEZ

Download Ideal Coordinates CCD File 
E [auth A]BENZOIC ACID
C7 H6 O2
WPYMKLBDIGXBTP-UHFFFAOYSA-N
NA (Subject of Investigation/LOI)
Query on NA

Download Ideal Coordinates CCD File 
F [auth B],
H [auth C]
SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.55 Å
  • R-Value Free: 0.262 
  • R-Value Work: 0.219 
  • R-Value Observed: 0.221 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 177.519α = 90
b = 52.232β = 96.87
c = 56.449γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
HKL-2000refinement
HKL-2000data scaling
MOLREPphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2018-09-12
    Type: Initial release
  • Version 1.1: 2023-10-04
    Changes: Data collection, Database references, Derived calculations, Refinement description