SMTL ID : 5wie.1 (1 other biounit)

Crystal structure of a Kv1.2-2.1 chimera K+ channel V406W mutant in an inactivated state

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.30 Å

Oligo State

hetero-4-4-mer

Ligands

4 x NAP: NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NAP.1: 30 residues within 4Å: Chain A: G.21, T.22, W.23, Q.29, D.51, Y.56, K.84, N.124, S.154, R.155, Q.180, W.209, S.210, P.211, L.212, A.213, C.214, G.215, K.220, S.229, R.230, P.270, L.287, L.288, G.289, A.290, S.291, Q.295, E.298, N.299 28 PLIP interactions: 28 interactions with chain A Hydrophobic interactions: A:W.23 Hydrogen bonds: A:T.22, A:W.23, A:Q.29, A:D.51, A:D.51, A:K.84, A:S.154, A:S.154, A:R.155, A:S.210, A:L.212, A:C.214, A:G.215, A:S.218, A:K.220, A:R.230, A:R.230, A:G.289, A:S.291, A:Q.295, A:Q.295, A:E.298, A:N.299 Salt bridges: A:K.220, A:R.230 pi-Stacking: A:W.209, A:W.209 NAP.11: 30 residues within 4Å: Chain C: G.21, T.22, W.23, Q.29, D.51, Y.56, K.84, N.124, S.154, R.155, Q.180, W.209, S.210, P.211, L.212, A.213, C.214, G.215, K.220, S.229, R.230, P.270, L.287, L.288, G.289, A.290, S.291, Q.295, E.298, N.299 28 PLIP interactions: 28 interactions with chain C Hydrophobic interactions: C:W.23 Hydrogen bonds: C:T.22, C:W.23, C:Q.29, C:D.51, C:D.51, C:K.84, C:S.154, C:S.154, C:R.155, C:S.210, C:L.212, C:C.214, C:G.215, C:S.218, C:K.220, C:R.230, C:R.230, C:G.289, C:S.291, C:Q.295, C:Q.295, C:E.298, C:N.299 Salt bridges: C:K.220, C:R.230 pi-Stacking: C:W.209, C:W.209 NAP.21: 30 residues within 4Å: Chain E: G.21, T.22, W.23, Q.29, D.51, Y.56, K.84, N.124, S.154, R.155, Q.180, W.209, S.210, P.211, L.212, A.213, C.214, G.215, K.220, S.229, R.230, P.270, L.287, L.288, G.289, A.290, S.291, Q.295, E.298, N.299 28 PLIP interactions: 28 interactions with chain E Hydrophobic interactions: E:W.23 Hydrogen bonds: E:T.22, E:W.23, E:Q.29, E:D.51, E:D.51, E:K.84, E:S.154, E:S.154, E:R.155, E:S.210, E:L.212, E:C.214, E:G.215, E:S.218, E:K.220, E:R.230, E:R.230, E:G.289, E:S.291, E:Q.295, E:Q.295, E:E.298, E:N.299 Salt bridges: E:K.220, E:R.230 pi-Stacking: E:W.209, E:W.209 NAP.31: 30 residues within 4Å: Chain G: G.21, T.22, W.23, Q.29, D.51, Y.56, K.84, N.124, S.154, R.155, Q.180, W.209, S.210, P.211, L.212, A.213, C.214, G.215, K.220, S.229, R.230, P.270, L.287, L.288, G.289, A.290, S.291, Q.295, E.298, N.299 28 PLIP interactions: 28 interactions with chain G Hydrophobic interactions: G:W.23 Hydrogen bonds: G:T.22, G:W.23, G:Q.29, G:D.51, G:D.51, G:K.84, G:S.154, G:S.154, G:R.155, G:S.210, G:L.212, G:C.214, G:G.215, G:S.218, G:K.220, G:R.230, G:R.230, G:G.289, G:S.291, G:Q.295, G:Q.295, G:E.298, G:N.299 Salt bridges: G:K.220, G:R.230 pi-Stacking: G:W.209, G:W.209

20 x PGW: (1R)-2-{[(S)-{[(2S)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(hexadecanoyloxy)methyl]ethyl (9Z)-octadec-9-enoate(Non-covalent)

PGW.2: 9 residues within 4Å: Chain B: P.395, D.396, F.398, W.399, V.402 Chain H: I.418, K.421, I.422, S.425 4 PLIP interactions: 2 interactions with chain H, 2 interactions with chain B Hydrogen bonds: H:K.421, H:K.421 Hydrophobic interactions: B:F.398, B:V.402 PGW.3: 1 residues within 4Å: Chain B: I.331 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:I.331 PGW.4: 2 residues within 4Å: Chain H: G.419, I.422 1 PLIP interactions: 1 interactions with chain H Hydrophobic interactions: H:I.422 PGW.5: 2 residues within 4Å: Chain B: L.350 Chain H: T.434 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:L.350 PGW.6: 7 residues within 4Å: Chain B: Q.251, S.252, T.253, F.260, T.264, Y.303, E.311 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:F.260, B:T.264 PGW.12: 9 residues within 4Å: Chain D: P.395, D.396, F.398, W.399, V.402 Chain F: I.418, K.421, I.422, S.425 4 PLIP interactions: 2 interactions with chain F, 2 interactions with chain D Hydrogen bonds: F:K.421, F:K.421 Hydrophobic interactions: D:F.398, D:V.402 PGW.13: 1 residues within 4Å: Chain D: I.331 1 PLIP interactions: 1 interactions with chain D Hydrophobic interactions: D:I.331 PGW.14: 2 residues within 4Å: Chain F: G.419, I.422 1 PLIP interactions: 1 interactions with chain F Hydrophobic interactions: F:I.422 PGW.15: 2 residues within 4Å: Chain D: L.350 Chain F: T.434 1 PLIP interactions: 1 interactions with chain D Hydrophobic interactions: D:L.350 PGW.16: 7 residues within 4Å: Chain D: Q.251, S.252, T.253, F.260, T.264, Y.303, E.311 2 PLIP interactions: 2 interactions with chain D Hydrophobic interactions: D:F.260, D:T.264 PGW.22: 9 residues within 4Å: Chain B: I.418, K.421, I.422, S.425 Chain F: P.395, D.396, F.398, W.399, V.402 4 PLIP interactions: 2 interactions with chain F, 2 interactions with chain B Hydrophobic interactions: F:F.398, F:V.402 Hydrogen bonds: B:K.421, B:K.421 PGW.23: 1 residues within 4Å: Chain F: I.331 1 PLIP interactions: 1 interactions with chain F Hydrophobic interactions: F:I.331 PGW.24: 2 residues within 4Å: Chain B: G.419, I.422 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:I.422 PGW.25: 2 residues within 4Å: Chain B: T.434 Chain F: L.350 1 PLIP interactions: 1 interactions with chain F Hydrophobic interactions: F:L.350 PGW.26: 7 residues within 4Å: Chain F: Q.251, S.252, T.253, F.260, T.264, Y.303, E.311 2 PLIP interactions: 2 interactions with chain F Hydrophobic interactions: F:F.260, F:T.264 PGW.32: 9 residues within 4Å: Chain D: I.418, K.421, I.422, S.425 Chain H: P.395, D.396, F.398, W.399, V.402 4 PLIP interactions: 2 interactions with chain D, 2 interactions with chain H Hydrogen bonds: D:K.421, D:K.421 Hydrophobic interactions: H:F.398, H:V.402 PGW.33: 1 residues within 4Å: Chain H: I.331 1 PLIP interactions: 1 interactions with chain H Hydrophobic interactions: H:I.331 PGW.34: 2 residues within 4Å: Chain D: G.419, I.422 1 PLIP interactions: 1 interactions with chain D Hydrophobic interactions: D:I.422 PGW.35: 2 residues within 4Å: Chain D: T.434 Chain H: L.350 1 PLIP interactions: 1 interactions with chain H Hydrophobic interactions: H:L.350 PGW.36: 7 residues within 4Å: Chain H: Q.251, S.252, T.253, F.260, T.264, Y.303, E.311 2 PLIP interactions: 2 interactions with chain H Hydrophobic interactions: H:F.260, H:T.264

16 x K: POTASSIUM ION(Non-covalent)(Non-functional Binders)

K.7: 15 residues within 4Å: Chain B: V.408, G.409 Chain D: V.408, G.409 Chain F: V.408, G.409 Chain H: V.408, G.409 Ligands: K.8, K.17, K.18, K.27, K.28, K.37, K.38 Ligand excluded by PLIP K.8: 19 residues within 4Å: Chain B: T.407, V.408 Chain D: T.407, V.408 Chain F: T.407, V.408 Chain H: T.407, V.408 Ligands: K.7, K.9, K.17, K.18, K.19, K.27, K.28, K.29, K.37, K.38, K.39 Ligand excluded by PLIP K.9: 11 residues within 4Å: Chain B: T.407 Chain D: T.407 Chain F: T.407 Chain H: T.407 Ligands: K.8, K.18, K.19, K.28, K.29, K.38, K.39 Ligand excluded by PLIP K.10: 3 residues within 4Å: Ligands: K.20, K.30, K.40 Ligand excluded by PLIP K.17: 15 residues within 4Å: Chain B: V.408, G.409 Chain D: V.408, G.409 Chain F: V.408, G.409 Chain H: V.408, G.409 Ligands: K.7, K.8, K.18, K.27, K.28, K.37, K.38 Ligand excluded by PLIP K.18: 19 residues within 4Å: Chain B: T.407, V.408 Chain D: T.407, V.408 Chain F: T.407, V.408 Chain H: T.407, V.408 Ligands: K.7, K.8, K.9, K.17, K.19, K.27, K.28, K.29, K.37, K.38, K.39 Ligand excluded by PLIP K.19: 11 residues within 4Å: Chain B: T.407 Chain D: T.407 Chain F: T.407 Chain H: T.407 Ligands: K.8, K.9, K.18, K.28, K.29, K.38, K.39 Ligand excluded by PLIP K.20: 3 residues within 4Å: Ligands: K.10, K.30, K.40 Ligand excluded by PLIP K.27: 15 residues within 4Å: Chain B: V.408, G.409 Chain D: V.408, G.409 Chain F: V.408, G.409 Chain H: V.408, G.409 Ligands: K.7, K.8, K.17, K.18, K.28, K.37, K.38 Ligand excluded by PLIP K.28: 19 residues within 4Å: Chain B: T.407, V.408 Chain D: T.407, V.408 Chain F: T.407, V.408 Chain H: T.407, V.408 Ligands: K.7, K.8, K.9, K.17, K.18, K.19, K.27, K.29, K.37, K.38, K.39 Ligand excluded by PLIP K.29: 11 residues within 4Å: Chain B: T.407 Chain D: T.407 Chain F: T.407 Chain H: T.407 Ligands: K.8, K.9, K.18, K.19, K.28, K.38, K.39 Ligand excluded by PLIP K.30: 3 residues within 4Å: Ligands: K.10, K.20, K.40 Ligand excluded by PLIP K.37: 15 residues within 4Å: Chain B: V.408, G.409 Chain D: V.408, G.409 Chain F: V.408, G.409 Chain H: V.408, G.409 Ligands: K.7, K.8, K.17, K.18, K.27, K.28, K.38 Ligand excluded by PLIP K.38: 19 residues within 4Å: Chain B: T.407, V.408 Chain D: T.407, V.408 Chain F: T.407, V.408 Chain H: T.407, V.408 Ligands: K.7, K.8, K.9, K.17, K.18, K.19, K.27, K.28, K.29, K.37, K.39 Ligand excluded by PLIP K.39: 11 residues within 4Å: Chain B: T.407 Chain D: T.407 Chain F: T.407 Chain H: T.407 Ligands: K.8, K.9, K.18, K.19, K.28, K.29, K.38 Ligand excluded by PLIP K.40: 3 residues within 4Å: Ligands: K.10, K.20, K.30 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pau, V. et al., Crystal structure of an inactivated mutant mammalian voltage-gated K(+) channel. Nat. Struct. Mol. Biol. (2017)

Release Date

2017-08-30

Peptides

Voltage-gated potassium channel subunit beta-2: ACEG
Potassium voltage-gated channel subfamily A member 2,Potassium voltage-gated channel subfamily A member 2: BDFH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

E
A

G
A

B
B

D
B

F
B

H
B

Membrane

We predict this structure to be a membrane protein.
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Voltage-gated potassium channel subunit beta-2

Potassium voltage-gated channel subfamily A member 2,Potassium voltage-gated channel subfamily A member 2

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