SMTL ID : 9ned.1

AcA-EI-shaker with free peptide conformation B

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-hexamer

Ligands

32 x POV: (2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate(Non-covalent)(Non-functional Binders)

POV.1: 9 residues within 4Å: Chain A: V.311, M.312, F.373, S.376, L.382, Q.383, G.386, R.387, K.390 Ligand excluded by PLIP POV.2: 2 residues within 4Å: Chain A: G.397 Ligands: POV.4 Ligand excluded by PLIP POV.3: 2 residues within 4Å: Chain A: M.393, G.397 Ligand excluded by PLIP POV.4: 3 residues within 4Å: Chain A: F.401, F.404 Ligands: POV.2 Ligand excluded by PLIP POV.5: 5 residues within 4Å: Chain A: A.417, W.454, V.458 Chain B: R.362, L.366 Ligand excluded by PLIP POV.6: 3 residues within 4Å: Chain A: L.239, V.242, F.279 Ligand excluded by PLIP POV.7: 3 residues within 4Å: Chain A: L.246 Chain C: F.433 Ligands: POV.22 Ligand excluded by PLIP POV.10: 7 residues within 4Å: Chain A: V.453, K.456, I.457, S.460 Chain B: P.430, F.433 Ligands: POV.34 Ligand excluded by PLIP POV.11: 9 residues within 4Å: Chain B: V.311, M.312, I.315, S.376, L.382, Q.383, G.386, R.387, K.390 Ligand excluded by PLIP POV.12: 2 residues within 4Å: Chain B: G.397 Ligands: POV.26 Ligand excluded by PLIP POV.13: 2 residues within 4Å: Chain B: M.393, G.397 Ligand excluded by PLIP POV.14: 3 residues within 4Å: Chain B: F.416, W.454 Chain D: L.366 Ligand excluded by PLIP POV.15: 1 residues within 4Å: Chain B: L.239 Ligand excluded by PLIP POV.16: 4 residues within 4Å: Chain A: F.433 Chain B: V.242, L.246 Ligands: POV.17 Ligand excluded by PLIP POV.17: 7 residues within 4Å: Chain A: P.430, F.433 Chain C: V.453, K.456, I.457, S.460 Ligands: POV.16 Ligand excluded by PLIP POV.18: 8 residues within 4Å: Chain C: V.311, M.312, F.373, S.376, L.382, Q.383, G.386, K.390 Ligand excluded by PLIP POV.19: 2 residues within 4Å: Chain C: G.397 Ligands: POV.21 Ligand excluded by PLIP POV.20: 1 residues within 4Å: Chain C: G.397 Ligand excluded by PLIP POV.21: 3 residues within 4Å: Chain A: H.378 Chain C: F.401 Ligands: POV.19 Ligand excluded by PLIP POV.22: 5 residues within 4Å: Chain C: F.433 Chain D: V.453, K.456, S.460 Ligands: POV.7 Ligand excluded by PLIP POV.23: 4 residues within 4Å: Chain A: L.366 Chain C: A.417, W.454, V.458 Ligand excluded by PLIP POV.24: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP POV.25: 4 residues within 4Å: Chain C: V.242, L.246 Chain D: F.433 Ligands: POV.31 Ligand excluded by PLIP POV.26: 4 residues within 4Å: Chain B: F.401, F.404 Chain D: H.378 Ligands: POV.12 Ligand excluded by PLIP POV.27: 8 residues within 4Å: Chain D: V.311, F.373, S.376, L.382, Q.383, G.386, L.389, K.390 Ligand excluded by PLIP POV.28: 2 residues within 4Å: Chain D: G.397 Ligands: POV.30 Ligand excluded by PLIP POV.29: 2 residues within 4Å: Chain D: M.393, G.397 Ligand excluded by PLIP POV.30: 4 residues within 4Å: Chain C: H.378 Chain D: F.401, F.404 Ligands: POV.28 Ligand excluded by PLIP POV.31: 7 residues within 4Å: Chain B: V.453, K.456, I.457, S.460 Chain D: P.430, F.433 Ligands: POV.25 Ligand excluded by PLIP POV.32: 2 residues within 4Å: Chain C: L.366 Chain D: W.454 Ligand excluded by PLIP POV.33: 3 residues within 4Å: Chain D: L.239, I.243, F.279 Ligand excluded by PLIP POV.34: 3 residues within 4Å: Chain B: F.433 Chain D: L.246 Ligands: POV.10 Ligand excluded by PLIP

2 x K: POTASSIUM ION(Non-covalent)

K.8: 9 residues within 4Å: Chain A: T.442, V.443 Chain B: T.442, V.443 Chain C: T.442, V.443 Chain D: T.442, V.443 Ligands: K.9 5 PLIP interactions: 2 interactions with chain A, 1 interactions with chain D, 1 interactions with chain C, 1 interactions with chain B Metal complexes: A:T.442, A:V.443, D:T.442, C:V.443, B:V.443 K.9: 5 residues within 4Å: Chain A: T.442 Chain B: T.442 Chain C: T.442 Chain D: T.442 Ligands: K.8 5 PLIP interactions: 1 interactions with chain B, 1 interactions with chain D, 2 interactions with chain C, 1 interactions with chain A Metal complexes: B:T.442, D:T.442, C:T.442, C:T.442, A:T.442

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tan, X. et al., Structural basis of fast N-type inactivation in Kv channels. Nature (2025)

Release Date

2025-08-06

Peptides

Potassium voltage-gated channel protein Shaker: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
G

F
H

Membrane

We predict this structure to be a membrane protein.
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Potassium voltage-gated channel protein Shaker

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