SMTL ID : 6lqa.1

voltage-gated sodium channel Nav1.5 with quinidine

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

monomer

Ligands

9 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.1: 1 residues within 4Å: Chain A: N.326 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.326 NAG.2: 1 residues within 4Å: Chain A: N.331 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.331 NAG.3: 1 residues within 4Å: Chain A: N.334 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.334 NAG.4: 2 residues within 4Å: Chain A: N.361, D.1733 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.361, A:D.1733 NAG.5: 5 residues within 4Å: Chain A: H.321, N.371, R.383, C.384, L.385 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.371, A:R.383, A:C.384 NAG.6: 4 residues within 4Å: Chain A: N.1408, T.1410, E.1411, E.1435 No protein-ligand interaction detected (PLIP) NAG.7: 4 residues within 4Å: Chain A: S.916, N.1417, T.1419, W.1483 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:W.1483 Hydrogen bonds: A:S.916, A:T.1419 NAG.8: 2 residues within 4Å: Chain A: N.1422, N.1423 No protein-ligand interaction detected (PLIP) NAG.9: 6 residues within 4Å: Chain A: E.1428, N.1431, G.1434, L.1436, Y.1437, W.1438 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:W.1438 Hydrogen bonds: A:N.1431, A:L.1436

1 x QDN: Quinidine(Non-covalent)

QDN.10: 9 residues within 4Å: Chain A: Q.414, F.445, V.448, T.1460, T.1751, S.1753, S.1802, F.1803, V.1806 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:V.448, A:V.1806 Hydrogen bonds: A:Q.414, A:T.1460

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, Z. et al., Structural Basis for Pore Blockade of the Human Cardiac Sodium Channel Na v 1.5 by the Antiarrhythmic Drug Quinidine*. Angew.Chem.Int.Ed.Engl. (2021)

Release Date

2021-03-24

Peptides

Sodium channel protein type 5 subunit alpha: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Membrane

We predict this structure to be a membrane protein.
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Sodium channel protein type 5 subunit alpha