SMTL ID : 6v8y.1

Structure of a Sodium Potassium ion Channel

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.53 Å

Oligo State

homo-tetramer

Ligands

16 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.1: 5 residues within 4Å: Chain A: V.84, S.88 Chain B: L.12, L.15 Ligands: MPD.11 Ligand excluded by PLIP MPD.2: 4 residues within 4Å: Chain A: L.15, I.18, S.19, I.22 Ligand excluded by PLIP MPD.3: 9 residues within 4Å: Chain A: L.30, D.34, Y.37, F.38, D.48, N.50, F.51 Chain B: S.52, K.59 Ligand excluded by PLIP MPD.4: 5 residues within 4Å: Chain A: I.22, F.23, T.26, V.27, F.57 Ligand excluded by PLIP MPD.5: 9 residues within 4Å: Chain A: F.10, T.13, I.14, L.17, F.76, L.80 Chain B: L.64, F.67, I.68 Ligand excluded by PLIP MPD.10: 9 residues within 4Å: Chain B: L.30, D.34, Y.37, F.38, D.48, N.50, F.51 Chain C: S.52, K.59 Ligand excluded by PLIP MPD.11: 9 residues within 4Å: Chain A: V.84 Chain B: L.12, L.15, T.16, S.19, Y.65, I.68, L.72 Ligands: MPD.1 Ligand excluded by PLIP MPD.12: 9 residues within 4Å: Chain B: F.10, T.13, I.14, L.17, F.76, L.80 Chain C: I.63, L.64, F.67 Ligand excluded by PLIP MPD.14: 5 residues within 4Å: Chain C: V.84, S.88 Chain D: L.12, L.15 Ligands: MPD.24 Ligand excluded by PLIP MPD.15: 4 residues within 4Å: Chain C: L.15, I.18, S.19, I.22 Ligand excluded by PLIP MPD.16: 9 residues within 4Å: Chain C: L.30, D.34, Y.37, F.38, D.48, N.50, F.51 Chain D: S.52, K.59 Ligand excluded by PLIP MPD.17: 5 residues within 4Å: Chain C: I.22, F.23, T.26, V.27, F.57 Ligand excluded by PLIP MPD.18: 9 residues within 4Å: Chain C: F.10, T.13, I.14, L.17, F.76, L.80 Chain D: L.64, F.67, I.68 Ligand excluded by PLIP MPD.23: 9 residues within 4Å: Chain A: S.52, K.59 Chain D: L.30, D.34, Y.37, F.38, D.48, N.50, F.51 Ligand excluded by PLIP MPD.24: 9 residues within 4Å: Chain C: V.84 Chain D: L.12, L.15, T.16, S.19, Y.65, I.68, L.72 Ligands: MPD.14 Ligand excluded by PLIP MPD.25: 9 residues within 4Å: Chain A: I.63, L.64, F.67 Chain D: F.10, T.13, I.14, L.17, F.76, L.80 Ligand excluded by PLIP

6 x K: POTASSIUM ION(Non-covalent)

K.6: 7 residues within 4Å: Chain A: T.45 Chain B: T.45 Chain C: T.45 Chain D: T.45 Ligands: K.7, K.19, K.20 5 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B, 1 interactions with chain C, 1 interactions with chain D Metal complexes: A:T.45, B:T.45, B:T.45, C:T.45, D:T.45 K.7: 13 residues within 4Å: Chain A: T.45, V.46 Chain B: T.45, V.46 Chain C: T.45, V.46 Chain D: T.45, V.46 Ligands: K.6, NA.8, K.19, K.20, NA.21 5 PLIP interactions: 2 interactions with chain C, 2 interactions with chain D, 1 interactions with chain B Metal complexes: C:T.45, C:V.46, D:T.45, D:V.46, B:V.46 K.13: 7 residues within 4Å: Chain A: G.49 Chain B: G.49, N.50 Chain C: G.49 Chain D: G.49, N.50 Ligands: K.26 5 PLIP interactions: 1 interactions with chain B, 1 interactions with chain D, 3 Ligand-Water interactions Metal complexes: B:G.49, D:G.49, H2O.1, H2O.2, H2O.5 K.19: 7 residues within 4Å: Chain A: T.45 Chain B: T.45 Chain C: T.45 Chain D: T.45 Ligands: K.6, K.7, K.20 5 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B, 1 interactions with chain C, 2 interactions with chain D Metal complexes: A:T.45, B:T.45, C:T.45, D:T.45, D:T.45 K.20: 13 residues within 4Å: Chain A: T.45, V.46 Chain B: T.45, V.46 Chain C: T.45, V.46 Chain D: T.45, V.46 Ligands: K.6, K.7, NA.8, K.19, NA.21 5 PLIP interactions: 2 interactions with chain A, 1 interactions with chain D, 2 interactions with chain B Metal complexes: A:T.45, A:V.46, D:V.46, B:T.45, B:V.46 K.26: 7 residues within 4Å: Chain A: G.49 Chain B: G.49, N.50 Chain C: G.49 Chain D: G.49, N.50 Ligands: K.13 5 PLIP interactions: 1 interactions with chain B, 1 interactions with chain D, 3 Ligand-Water interactions Metal complexes: B:G.49, D:G.49, H2O.1, H2O.2, H2O.5

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

NA.8: 11 residues within 4Å: Chain A: V.46, G.47 Chain B: V.46, G.47 Chain C: V.46, G.47 Chain D: V.46, G.47 Ligands: K.7, K.20, NA.21 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:V.46 NA.9: 6 residues within 4Å: Chain A: F.38, D.48, F.51, S.52 Chain D: D.48, G.49 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain D Hydrogen bonds: A:S.52, D:G.49 Water bridges: A:D.48, A:F.51, D:D.48 NA.21: 11 residues within 4Å: Chain A: V.46, G.47 Chain B: V.46, G.47 Chain C: V.46, G.47 Chain D: V.46, G.47 Ligands: K.7, NA.8, K.20 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:V.46 NA.22: 6 residues within 4Å: Chain B: D.48, G.49 Chain C: F.38, D.48, F.51, S.52 4 PLIP interactions: 3 interactions with chain C, 1 interactions with chain B Hydrogen bonds: C:D.48, B:G.49 Water bridges: C:D.48, C:F.51

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Roy, R.N. et al., Structural plasticity of the selectivity filter in a nonselective ion channel. Iucrj (2021)

Release Date

2021-04-14

Peptides

Potassium channel protein: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Membrane

We predict this structure to be a membrane protein.
Show / Hide

Potassium channel protein

Related Entries With Identical Sequence