SMTL ID : 6j8h.1

Structure of human voltage-gated sodium channel Nav1.7 in complex with auxiliary beta subunits, huwentoxin-IV and saxitoxin (Y1755 down)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-mer

Ligands

2 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 4 residues within 4Å: Chain B: N.1395, T.1397, D.1398, S.1420 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 3 residues within 4Å: Chain B: N.1409, S.1411, E.1412 No protein-ligand interaction detected (PLIP)

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

NAG.3: 6 residues within 4Å: Chain A: S.64, N.66, T.68, M.79, Q.82, R.137 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.64, A:Q.82, A:R.137 NAG.4: 1 residues within 4Å: Chain B: N.1418 No protein-ligand interaction detected (PLIP) NAG.5: 1 residues within 4Å: Chain B: N.326 No protein-ligand interaction detected (PLIP) NAG.7: 2 residues within 4Å: Chain C: N.93, R.96 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.93 NAG.8: 1 residues within 4Å: Chain C: N.110 No protein-ligand interaction detected (PLIP) NAG.9: 3 residues within 4Å: Chain C: E.84, R.89, N.114 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.114 NAG.10: 2 residues within 4Å: Chain C: Y.124, N.135 No protein-ligand interaction detected (PLIP)

1 x 9SL: [(3aS,4R,10aS)-2,6-diamino-10,10-dihydroxy-3a,4,9,10-tetrahydro-3H,8H-pyrrolo[1,2-c]purin-4-yl]methyl carbamate(Non-covalent)

9SL.6: 12 residues within 4Å: Chain B: Y.405, E.407, E.970, E.973, F.1448, K.1449, G.1450, W.1451, T.1452, I.1453, G.1742, D.1744 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:Y.405, B:Y.405, B:F.1448, B:G.1450, B:T.1452, B:G.1742 Salt bridges: B:E.407, B:E.970, B:E.973

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shen, H. et al., Structures of human Nav1.7 channel in complex with auxiliary subunits and animal toxins. Science (2019)

Release Date

2019-02-27

Peptides

Sodium channel subunit beta-2: A
Sodium channel protein type 9 subunit alpha: B
Sodium channel subunit beta-1: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
A

C
B

Membrane

We predict this structure to be a membrane protein.
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Sodium channel subunit beta-2

Sodium channel protein type 9 subunit alpha

Sodium channel subunit beta-1

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