SMTL ID : 6rv3.2 (1 other biounit)

Crystal structure of the human two pore domain potassium ion channel TASK-1 (K2P3.1) in a closed conformation with a bound inhibitor BAY 1000493

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

homo-dimer

Ligands

4 x K: POTASSIUM ION(Non-covalent)

K.1: 9 residues within 4Å: Chain A: G.95, Y.96, G.201, F.202 Chain B: G.95, Y.96, G.201, F.202 Ligands: K.2 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Metal complexes: B:Y.96, B:F.202, A:Y.96, A:G.201, A:F.202 K.2: 10 residues within 4Å: Chain A: I.94, G.95, I.200, G.201 Chain B: I.94, G.95, I.200, G.201 Ligands: K.1, K.3 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Metal complexes: A:I.94, A:I.200, A:G.201, B:G.95, B:G.201 K.3: 10 residues within 4Å: Chain A: T.93, I.94, T.199, I.200 Chain B: T.93, I.94, T.199, I.200 Ligands: K.2, K.4 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Metal complexes: B:T.93, B:I.94, B:I.200, A:I.94, A:T.199 K.4: 5 residues within 4Å: Chain A: T.93, T.199 Chain B: T.93, T.199 Ligands: K.3 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Metal complexes: A:T.93, A:T.93, A:T.199, B:T.93, B:T.199

3 x Y01: CHOLESTEROL HEMISUCCINATE(Non-covalent)

Y01.5: 11 residues within 4Å: Chain A: R.3, V.6, R.7, L.11, F.238, V.242, F.246 Chain B: L.115, L.116, P.119, V.123 12 PLIP interactions: 9 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:V.6, A:R.7, A:F.238, A:V.242, A:F.246, A:F.246, A:F.246, B:L.115, B:L.116, B:V.123 Salt bridges: A:R.3, A:R.7 Y01.9: 12 residues within 4Å: Chain A: L.115, L.116, P.119, L.120, V.123 Chain B: R.3, V.6, R.7, L.11, F.238, V.242, F.246 13 PLIP interactions: 8 interactions with chain B, 5 interactions with chain A Hydrophobic interactions: B:V.6, B:R.7, B:V.242, B:F.246, B:F.246, B:F.246, A:L.115, A:L.116, A:L.120, A:L.120, A:V.123 Salt bridges: B:R.3, B:R.7 Y01.10: 10 residues within 4Å: Chain A: F.16 Chain B: R.79, F.80, A.81, F.84, Q.215, P.218, V.221, A.222, F.225 13 PLIP interactions: 11 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:F.80, B:A.81, B:F.84, B:V.221, B:A.222, B:F.225, B:F.225, A:F.16, A:F.16 Hydrogen bonds: B:F.80, B:A.81, B:Q.215 Salt bridges: B:R.79

1 x KKQ: [4-[[2-(4-bromophenyl)imidazo[1,2-a]pyridin-3-yl]methyl]piperazin-1-yl]-(2-fluorophenyl)methanone(Non-covalent)

KKQ.6: 23 residues within 4Å: Chain A: I.91, T.92, T.93, T.121, L.122, F.125, L.197, T.198, T.199, L.232, I.235, L.239 Chain B: T.92, T.93, I.118, L.122, F.125, L.197, T.199, L.232, I.235, G.236, L.239 11 PLIP interactions: 5 interactions with chain B, 6 interactions with chain A Hydrophobic interactions: B:I.118, B:L.122, B:T.199, B:I.235, B:L.239, A:T.121, A:L.122, A:F.125, A:L.232, A:I.235, A:L.239

2 x DMU: DECYL-BETA-D-MALTOPYRANOSIDE(Non-covalent)

DMU.7: 5 residues within 4Å: Chain A: R.131, I.132, T.134, L.135 Chain B: E.254 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:R.131, A:I.132, A:L.135 DMU.11: 4 residues within 4Å: Chain A: E.254 Chain B: R.131, L.135, Y.138 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:R.131, B:L.135, B:L.135

2 x PC1: 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE(Non-covalent)

PC1.8: 7 residues within 4Å: Chain A: G.105, V.108, F.112 Chain B: V.25, A.28, L.29, E.32 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:V.108, A:F.112, B:V.25 PC1.12: 4 residues within 4Å: Chain A: L.29 Chain B: G.105, V.108, F.112 5 PLIP interactions: 1 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:L.29, B:V.108, B:F.112, B:F.112, B:F.112

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rodstrom, K.E.J. et al., A lower X-gate in TASK channels traps inhibitors within the vestibule. Nature (2020)

Release Date

2019-08-07

Peptides

Potassium channel subfamily K member 3: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Membrane

We predict this structure to be a membrane protein.
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Potassium channel subfamily K member 3

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