› 8f0q

Electron Microscopy
2.5Å resolution

Structure of VSD4-NaV1.7-NaVPas channel chimera bound to the acylsulfonamide inhibitor GDC-0310

Released:
DOI: 10.2210/pdb8f0q/pdb
PDB entry 8f0q coloured by chain, front view.
PDB entry 8f0q coloured by chain, side view.
PDB entry 8f0q coloured by chain, top view.
Source organisms:
Primary publication:
Cryo-EM reveals an unprecedented binding site for NaV1.7 inhibitors enabling rational design of potent hybrid inhibitors.
Kschonsak M, Jao CC, Arthur CP, Rohou AL, Bergeron P, Ortwine DF, McKerrall SJ, Hackos DH, Deng L, Chen J, Li T, Dragovich PS, Volgraf M, Wright MR, Payandeh J, Ciferri C, Tellis JC
OpenAccess logo Elife 12 (2023)
PMID: 36975198
Related structures: EMD-28777

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-111947 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (2 distinct):
Sodium channel protein PaFPC1; Sodium channel protein type 9 subunit alpha Chain: A
Molecule details ›
Chain: A
Length: 1608 amino acids
Theoretical weight: 184.48 KDa
Source organisms: Expression system: Homo sapiens
UniProt:
  • Canonical: D0E0C2 (Residues: 1-269, 289-1155, 1287-1553; Coverage: 90%)
  • Canonical: Q15858 (Residues: 257-275, 1501-1631; Coverage: 8%)
Gene names: NENA, SCN9A
Sequence domains:

Ligands and Environments

Carbohydrate polymer : NEW Components: BMA, NAG
Ligand BMA 2 x BMA
Ligand NAG 2 x NAG
5 bound ligands:
Ligand BMA 1 x BMA
Ligand NAG 2 x NAG
Ligand X7R 1 x X7R
Ligand PEE 5 x PEE
Ligand Y01 1 x Y01
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 2.5Å
Relevant EMDB volumes: EMD-28777
Expression system: Homo sapiens

Quick links

Citations

1 mention without citation

A structural atlas of druggable sites on Nav channels.
Li et al. (2024)