SMTL ID : 7phi.1

Human voltage-gated potassium channel Kv3.1 (with Zn)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-tetramer

Ligands

8 x PCF: 1,2-DIACYL-SN-GLYCERO-3-PHOSHOCHOLINE(Non-covalent)

PCF.1: 8 residues within 4Å: Chain A: Q.409, W.411, M.414, L.415, A.418 Chain C: P.388, I.389, V.395 6 PLIP interactions: 5 interactions with chain A, 1 interactions with chain C Hydrophobic interactions: A:W.411, A:M.414, A:L.415, A:A.418, C:P.388 Hydrogen bonds: A:W.411 PCF.2: 4 residues within 4Å: Chain A: N.276, S.277, L.331, L.334 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.334 PCF.8: 4 residues within 4Å: Chain B: N.276, S.277, L.331, L.334 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:L.334 PCF.11: 9 residues within 4Å: Chain B: P.388, I.389, V.395 Chain C: Q.409, W.411, M.414, L.415, A.418 Chain D: H.212 6 PLIP interactions: 1 interactions with chain B, 5 interactions with chain C Hydrophobic interactions: B:P.388, C:W.411, C:M.414, C:L.415, C:A.418 Hydrogen bonds: C:W.411 PCF.12: 4 residues within 4Å: Chain C: N.276, S.277, L.331, L.334 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:L.334 PCF.14: 9 residues within 4Å: Chain B: Q.409, W.411, M.414, L.415, A.418 Chain D: L.352, P.388, I.389, V.395 7 PLIP interactions: 5 interactions with chain B, 2 interactions with chain D Hydrophobic interactions: B:W.411, B:M.414, B:L.415, B:A.418, D:L.352, D:P.388 Hydrogen bonds: B:W.411 PCF.15: 8 residues within 4Å: Chain A: P.388, I.389, V.395 Chain D: Q.409, W.411, M.414, L.415, A.418 6 PLIP interactions: 5 interactions with chain D, 1 interactions with chain A Hydrophobic interactions: D:W.411, D:M.414, D:L.415, D:A.418, A:P.388 Hydrogen bonds: D:W.411 PCF.16: 4 residues within 4Å: Chain D: N.276, S.277, L.331, L.334 1 PLIP interactions: 1 interactions with chain D Hydrophobic interactions: D:L.334

4 x ZN: ZINC ION(Non-covalent)

ZN.3: 4 residues within 4Å: Chain A: H.77, C.104, C.105 Chain C: C.83 3 PLIP interactions: 1 interactions with chain C, 2 interactions with chain A Metal complexes: C:C.83, A:H.77, A:C.104 ZN.9: 4 residues within 4Å: Chain B: H.77, C.104, C.105 Chain D: C.83 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain D Metal complexes: B:H.77, B:C.104, B:C.105, D:C.83 ZN.10: 4 residues within 4Å: Chain B: C.83 Chain C: H.77, C.104, C.105 4 PLIP interactions: 3 interactions with chain C, 1 interactions with chain B Metal complexes: C:H.77, C:C.104, C:C.105, B:C.83 ZN.13: 4 residues within 4Å: Chain A: C.83 Chain D: H.77, C.104, C.105 4 PLIP interactions: 1 interactions with chain A, 3 interactions with chain D Metal complexes: A:C.83, D:H.77, D:C.104, D:C.105

4 x K: POTASSIUM ION(Non-covalent)

K.4: 5 residues within 4Å: Chain A: T.400 Chain B: T.400 Chain C: T.400 Chain D: T.400 Ligands: K.5 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:T.400 K.5: 10 residues within 4Å: Chain A: T.400, L.401 Chain B: T.400, L.401 Chain C: T.400, L.401 Chain D: T.400, L.401 Ligands: K.4, K.6 5 PLIP interactions: 1 interactions with chain C, 2 interactions with chain A, 1 interactions with chain D, 1 interactions with chain B Metal complexes: C:L.401, A:T.400, A:L.401, D:L.401, B:L.401 K.6: 10 residues within 4Å: Chain A: L.401, G.402 Chain B: L.401, G.402 Chain C: L.401, G.402 Chain D: L.401, G.402 Ligands: K.5, K.7 5 PLIP interactions: 2 interactions with chain C, 2 interactions with chain A, 1 interactions with chain B Metal complexes: C:L.401, C:G.402, A:L.401, A:G.402, B:L.401 K.7: 9 residues within 4Å: Chain A: G.402, Y.403 Chain B: G.402, Y.403 Chain C: G.402, Y.403 Chain D: G.402, Y.403 Ligands: K.6 5 PLIP interactions: 1 interactions with chain C, 1 interactions with chain B, 1 interactions with chain D, 2 interactions with chain A Metal complexes: C:Y.403, B:Y.403, D:G.402, A:G.402, A:Y.403

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chi, G. et al., Cryo-EM structure of the human Kv3.1 channel reveals gating control by the cytoplasmic T1 domain. Nat Commun (2022)

Release Date

2022-03-02

Peptides

Potassium voltage-gated channel, Shaw-related subfamily, member 1: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

C
B

D
D

Membrane

We predict this structure to be a membrane protein.
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Potassium voltage-gated channel, Shaw-related subfamily, member 1

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