Crystal structure of WNK1 in complex with WNK463

Experimental Data Snapshot

  • Resolution: 1.65 Å
  • R-Value Free: 0.240 
  • R-Value Work: 0.197 
  • R-Value Observed: 0.199 

wwPDB Validation   3D Report Full Report

Ligand Structure Quality Assessment 

This is version 1.3 of the entry. See complete history


Small-molecule WNK inhibition regulates cardiovascular and renal function.

Yamada, K.Park, H.M.Rigel, D.F.DiPetrillo, K.Whalen, E.J.Anisowicz, A.Beil, M.Berstler, J.Brocklehurst, C.E.Burdick, D.A.Caplan, S.L.Capparelli, M.P.Chen, G.Chen, W.Dale, B.Deng, L.Fu, F.Hamamatsu, N.Harasaki, K.Herr, T.Hoffmann, P.Hu, Q.Y.Huang, W.J.Idamakanti, N.Imase, H.Iwaki, Y.Jain, M.Jeyaseelan, J.Kato, M.Kaushik, V.K.Kohls, D.Kunjathoor, V.LaSala, D.Lee, J.Liu, J.Luo, Y.Ma, F.Mo, R.Mowbray, S.Mogi, M.Ossola, F.Pandey, P.Patel, S.J.Raghavan, S.Salem, B.Shanado, Y.H.Trakshel, G.M.Turner, G.Wakai, H.Wang, C.Weldon, S.Wielicki, J.B.Xie, X.Xu, L.Yagi, Y.I.Yasoshima, K.Yin, J.Yowe, D.Zhang, J.H.Zheng, G.Monovich, L.

(2016) Nat Chem Biol 12: 896-898

  • DOI: https://doi.org/10.1038/nchembio.2168
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    The With-No-Lysine (K) (WNK) kinases play a critical role in blood pressure regulation and body fluid and electrolyte homeostasis. Herein, we introduce the first orally bioavailable pan-WNK-kinase inhibitor, WNK463, that exploits unique structural features of the WNK kinases for both affinity and kinase selectivity. In rodent models of hypertension, WNK463 affects blood pressure and body fluid and electro-lyte homeostasis, consistent with WNK-kinase-associated physiology and pathophysiology.

  • Organizational Affiliation

    Novartis Institutes for BioMedical Research, Cambridge, Massachusetts, USA.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Serine/threonine-protein kinase WNK1291Rattus norvegicusMutation(s): 1 
Gene Names: Wnk1Hsn2Prkwnk1
Find proteins for Q9JIH7 (Rattus norvegicus)
Explore Q9JIH7 
Go to UniProtKB:  Q9JIH7
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9JIH7
Sequence Annotations
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
Query on 5FJ

Download Ideal Coordinates CCD File 
B [auth A]N-tert-butyl-1-(1-{5-[5-(trifluoromethyl)-1,3,4-oxadiazol-2-yl]pyridin-2-yl}piperidin-4-yl)-1H-imidazole-5-carboxamide
C21 H24 F3 N7 O2
Binding Affinity Annotations 
IDSourceBinding Affinity
5FJ Binding MOAD:  5DRB Kd: 3.71 (nM) from 1 assay(s)
Experimental Data & Validation

Experimental Data

  • Resolution: 1.65 Å
  • R-Value Free: 0.240 
  • R-Value Work: 0.197 
  • R-Value Observed: 0.199 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 38.642α = 90
b = 57.67β = 89.9
c = 65.532γ = 90
Software Package:
Software NamePurpose
XDSdata reduction
XSCALEdata scaling
Cootmodel building

Structure Validation

View Full Validation Report

Ligand Structure Quality Assessment 

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2016-09-07
    Type: Initial release
  • Version 1.1: 2016-09-21
    Changes: Database references
  • Version 1.2: 2016-11-02
    Changes: Database references
  • Version 1.3: 2024-03-06
    Changes: Data collection, Database references, Derived calculations