Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content

• Total Structure Weight: 74.51 kDa 
• Atom Count: 4806 
• Modelled Residue Count: 577 
• Deposited Residue Count: 646 
• Unique protein chains: 1

6S41

CRYSTAL STRUCTURE OF PXR IN COMPLEX WITH XPC-7455

• PDB DOI: 10.2210/pdb6S41/pdb

• Classification: NUCLEAR PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2019-06-26 Released: 2019-10-02 
• Deposition Author(s): Focken, T., Maskos, K., Griessner, A., Krapp, S.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free: 0.259 
• R-Value Work: 0.213 
• R-Value Observed: 0.214 

Literature

Identification of CNS-Penetrant Aryl Sulfonamides as Isoform-Selective NaV1.6 Inhibitors with Efficacy in Mouse Models of Epilepsy.

Focken, T., Burford, K., Grimwood, M.E., Zenova, A., Andrez, J.C., Gong, W., Wilson, M., Taron, M., Decker, S., Lofstrand, V., Chowdhury, S., Shuart, N., Lin, S., Goodchild, S.J., Young, C., Soriano, M., Tari, P.K., Waldbrook, M., Nelkenbrecher, K., Kwan, R., Lindgren, A., de Boer, G., Lee, S., Sojo, L., DeVita, R.J., Cohen, C.J., Wesolowski, S.S., Johnson Jr., J.P., Dehnhardt, C.M., Empfield, J.R.

(2019) J Med Chem 62: 9618-9641

• PubMed: 31525968 
• DOI: 10.1021/acs.jmedchem.9b01032
• Primary Citation of Related Structures:  
  6S41


• PubMed Abstract: 
  

Nonselective antagonists of voltage-gated sodium (Na _V ) channels have been long used for the treatment of epilepsies. The efficacy of these drugs is thought to be due to the block of sodium channels on excitatory neurons, primarily Na _V 1.6 and Na _V 1.2. However, these currently marketed drugs require high drug exposure and suffer from narrow therapeutic indices. Selective inhibition of Na _V 1.6, while sparing Na _V 1.1, is anticipated to provide a more effective and better tolerated treatment for epilepsies. In addition, block of Na _V 1.2 may complement the anticonvulsant activity of Na _V 1.6 inhibition. We discovered a novel series of aryl sulfonamides as CNS-penetrant, isoform-selective Na _V 1.6 inhibitors, which also displayed potent block of Na _V 1.2. Optimization focused on increasing selectivity over Na _V 1.1, improving metabolic stability, reducing active efflux, and addressing a pregnane X-receptor liability. We obtained compounds 30-32 , which produced potent anticonvulsant activity in mouse seizure models, including a direct current maximal electroshock seizure assay.

---

Organizational Affiliation: 

Xenon Pharmaceuticals Inc. , 200-3650 Gilmore Way , Burnaby , British Columbia V5G 4W8 , Canada.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Nuclear receptor subfamily 1 group I member 2	A, B	323	Homo sapiens	Mutation(s): 0  Gene Names: NR1I2, PXR
UniProt & NIH Common Fund Data Resources
Find proteins for O75469 (Homo sapiens) Explore O75469  Go to UniProtKB:  O75469
PHAROS:  O75469 GTEx:  ENSG00000144852

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
KUB (Subject of Investigation/LOI)	C [auth A], D [auth B]	4-[[(1~{S})-1-[2,5-bis(fluoranyl)phenyl]ethyl]amino]-5-chloranyl-2-fluoranyl-~{N}-(1,3-thiazol-4-yl)benzenesulfonamide C17 H13 Cl F3 N3 O2 S2 KLWKJFRXLGLTIH-VIFPVBQESA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free: 0.259 
• R-Value Work: 0.213 
• R-Value Observed: 0.214 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 84.318	α = 90
b = 89.002	β = 90
c = 105.815	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XSCALE	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2019-06-26 
• Released Date: 2019-10-02 
Deposition Author(s): Focken, T., Maskos, K., Griessner, A., Krapp, S.

Revision History  

• Version 1.0: 2019-10-02
  Type: Initial release
  
• Version 1.1: 2019-10-30
  Changes: Data collection, Source and taxonomy, Structure summary
• Version 1.2: 2019-11-27
  Changes: Database references