SMTL ID : 6j8e.1

Human Nav1.2-beta2-KIIIA ternary complex

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-mer

Ligands

1 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.1: 5 residues within 4Å: Chain B: N.319, W.359, N.383, I.395, C.396 No protein-ligand interaction detected (PLIP)

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.2: 4 residues within 4Å: Chain B: N.1424, N.1425, S.1427, E.1428 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 5 residues within 4Å: Chain B: N.1411, T.1413, T.1414, F.1418, Q.1437 No protein-ligand interaction detected (PLIP)

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

NAG.4: 3 residues within 4Å: Chain B: E.1434, S.1435, N.1436 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.1436

1 x 9Z9: (3beta,14beta,17beta,25R)-3-[4-methoxy-3-(methoxymethyl)butoxy]spirost-5-en(Non-covalent)

9Z9.5: 15 residues within 4Å: Chain B: L.464, A.468, F.1021, L.1022, L.1025, L.1026, I.1516, N.1520, F.1807, V.1811, Y.1814, I.1815, I.1818, L.1819, F.1822 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:L.464, B:F.1021, B:L.1025, B:L.1026, B:I.1516, B:F.1807, B:Y.1814, B:Y.1814, B:I.1815, B:I.1818, B:I.1818

1 x NA: SODIUM ION(Non-functional Binders)

NA.6: 4 residues within 4Å: Chain B: D.427, F.428, E.985, E.988 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:E.985, B:E.985

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pan, X. et al., Molecular basis for pore blockade of human Na+channel Nav1.2 by the mu-conotoxin KIIIA. Science (2019)

Release Date

2019-02-27

Peptides

Sodium channel subunit beta-2: A
Sodium channel protein type 2 subunit alpha: B
Mu-conotoxin KIIIA: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
A

C
D

Membrane

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

Sodium channel protein type 2 subunit alpha

Mu-conotoxin KIIIA