5O2B

Crystal structure of WNK3 kinase domain in a diphosphorylated state and in a complex with the inhibitor PP-121

• PDB DOI: https://doi.org/10.2210/pdb5O2B/pdb

• Classification: STRUCTURAL GENOMICS
• Organism(s): Homo sapiens
• Expression System: Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 2017-05-19 Released: 2017-06-28 
• Deposition Author(s): Pinkas, D.M., Bufton, J.C., Newman, J.A., Borkowska, O., Chalk, R., Burgess-Brown, N.A., von Delft, F., Arrowsmith, C.H., Edwards, A.M., Bountra, C., Bullock, A., Structural Genomics Consortium (SGC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.04 Å
• R-Value Free: 0.240 
• R-Value Work: 0.199 
• R-Value Observed: 0.201 

Literature

Crystal structure of WNK3 kinase domain in a diphosphorylated state and in a complex with the inhibitor PP-121

Pinkas, D.M., Daubner, G.M., Bufton, J.C., Bartual, S.G., Sanvitale, C.E., Alessi, D.R., Bullock, A.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 65.97 kDa 
• Atom Count: 4,330 
• Modelled Residue Count: 526 
• Deposited Residue Count: 570 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Serine/threonine-protein kinase WNK3	A, B	285	Homo sapiens	Mutation(s): 0  Gene Names: WNK3, KIAA1566, PRKWNK3 EC: 2.7.11.1
UniProt & NIH Common Fund Data Resources
Find proteins for Q9BYP7 (Homo sapiens) Explore Q9BYP7  Go to UniProtKB:  Q9BYP7
PHAROS:  Q9BYP7 GTEx:  ENSG00000196632

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
KS1	C [auth A], E [auth B]	1-cyclopentyl-3-(1H-pyrrolo[2,3-b]pyridin-5-yl)-1H-pyrazolo[3,4-d]pyrimidin-4-amine C17 H17 N7 NVRXTLZYXZNATH-UHFFFAOYSA-N
NA	D [auth A]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.04 Å
• R-Value Free: 0.240 
• R-Value Work: 0.199 
• R-Value Observed: 0.201 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 60.16	α = 90
b = 71.253	β = 103.88
c = 67.8	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2017-06-28 
Deposition Author(s): Pinkas, D.M., Bufton, J.C., Newman, J.A., Borkowska, O., Chalk, R., Burgess-Brown, N.A., von Delft, F., Arrowsmith, C.H., Edwards, A.M., Bountra, C., Bullock, A., Structural Genomics Consortium (SGC)

Revision History  

• Version 1.0: 2017-06-28
  Type: Initial release
  
• Version 2.0: 2017-07-19
  Changes: Atomic model, Derived calculations, Non-polymer description, Structure summary
• Version 2.1: 2019-10-16
  Changes: Data collection
• Version 2.2: 2024-05-08
  Changes: Data collection, Database references, Derived calculations