SMTL ID : 9byi.1

Structure of human K2P13.1 (THIK1) in detergent

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

4 x HEX: HEXANE(Non-functional Binders)

HEX.1: 3 residues within 4Å: Chain A: F.145, I.152 Ligands: D12.10 No protein-ligand interaction detected (PLIP) HEX.3: 1 residues within 4Å: Ligands: R16.5 No protein-ligand interaction detected (PLIP) HEX.16: 3 residues within 4Å: Chain B: A.214, P.218 Ligands: D12.15 No protein-ligand interaction detected (PLIP) HEX.25: 3 residues within 4Å: Chain B: F.145, I.152 Ligands: D12.23 No protein-ligand interaction detected (PLIP)

8 x D12: DODECANE(Non-functional Binders)(Non-covalent)

D12.2: 9 residues within 4Å: Chain A: M.215, I.219, S.253, L.256, Y.257, F.259, A.260, F.264 Ligands: OCT.4 No protein-ligand interaction detected (PLIP) D12.10: 5 residues within 4Å: Chain A: F.141, L.266 Chain B: F.20 Ligands: HEX.1, EIC.13 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:F.141 D12.11: 10 residues within 4Å: Chain A: Y.30, G.33, G.34, A.36, V.37, A.40 Chain B: F.126, Y.130 Ligands: OCT.7, OCT.9 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:Y.130 D12.14: 8 residues within 4Å: Chain A: L.26, I.27, Y.30, I.283, S.286, W.289 Chain B: V.133, S.137 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:W.289 D12.15: 8 residues within 4Å: Chain B: M.215, I.219, S.253, L.256, Y.257, F.259, A.260 Ligands: HEX.16 No protein-ligand interaction detected (PLIP) D12.23: 7 residues within 4Å: Chain A: N.17, F.20, L.21 Chain B: F.141, L.266 Ligands: HEX.25, EIC.27 No protein-ligand interaction detected (PLIP) D12.24: 10 residues within 4Å: Chain A: F.126, Y.130 Chain B: Y.30, G.33, G.34, A.36, V.37, A.40 Ligands: OCT.20, OCT.22 No protein-ligand interaction detected (PLIP) D12.28: 9 residues within 4Å: Chain A: V.133, S.137 Chain B: L.26, I.27, Y.30, I.283, S.286, W.289, I.290 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:W.289, B:I.290

12 x OCT: N-OCTANE(Non-functional Binders)(Non-covalent)

OCT.4: 4 residues within 4Å: Chain A: A.214, M.215, P.218 Ligands: D12.2 No protein-ligand interaction detected (PLIP) OCT.6: 3 residues within 4Å: Chain A: L.256, F.259 Ligands: R16.5 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.256 OCT.7: 5 residues within 4Å: Chain A: V.37, L.41 Chain B: F.126 Ligands: D12.11, OCT.26 No protein-ligand interaction detected (PLIP) OCT.8: 3 residues within 4Å: Chain A: F.225 Chain B: V.121, I.125 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:I.125 OCT.9: 6 residues within 4Å: Chain A: L.29, L.32, G.33, A.36 Chain B: F.97 Ligands: D12.11 No protein-ligand interaction detected (PLIP) OCT.12: 4 residues within 4Å: Chain A: G.122, F.126, F.129 Ligands: OCT.20 No protein-ligand interaction detected (PLIP) OCT.17: 1 residues within 4Å: Ligands: R16.18 No protein-ligand interaction detected (PLIP) OCT.19: 3 residues within 4Å: Chain B: G.255, F.259 Ligands: R16.18 No protein-ligand interaction detected (PLIP) OCT.20: 4 residues within 4Å: Chain B: V.37, L.41 Ligands: OCT.12, D12.24 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:L.41 OCT.21: 3 residues within 4Å: Chain A: V.121, I.125 Chain B: F.225 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:I.125 OCT.22: 6 residues within 4Å: Chain A: F.97 Chain B: L.29, L.32, G.33, A.36 Ligands: D12.24 No protein-ligand interaction detected (PLIP) OCT.26: 5 residues within 4Å: Chain B: G.122, I.125, F.126, F.129 Ligands: OCT.7 No protein-ligand interaction detected (PLIP)

2 x R16: HEXADECANE(Non-covalent)

R16.5: 9 residues within 4Å: Chain A: T.98, F.101, S.253, Q.254, G.255, R.258 Ligands: HEX.3, OCT.6, EIC.13 No protein-ligand interaction detected (PLIP) R16.18: 8 residues within 4Å: Chain B: F.101, Q.254, G.255, R.258, F.262 Ligands: OCT.17, OCT.19, EIC.27 No protein-ligand interaction detected (PLIP)

2 x EIC: LINOLEIC ACID(Non-covalent)

EIC.13: 19 residues within 4Å: Chain A: F.101, Y.102, G.105, T.106, V.108, S.109, T.138, F.141, R.258, N.261, F.262, I.265, L.266 Chain B: A.24, I.27, V.28, L.31 Ligands: R16.5, D12.10 8 PLIP interactions: 7 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:Y.102, A:F.262, A:F.262, A:I.265, B:I.27 Hydrogen bonds: A:N.261 Salt bridges: A:R.92, A:R.258 EIC.27: 20 residues within 4Å: Chain A: A.24, I.27, V.28, L.31 Chain B: F.101, Y.102, G.105, T.106, V.108, S.109, T.138, F.141, S.246, R.258, N.261, F.262, I.265, L.266 Ligands: R16.18, D12.23 10 PLIP interactions: 9 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:Y.102, B:F.141, B:F.262, B:F.262, B:I.265, B:L.266, A:I.27 Hydrogen bonds: B:S.246, B:N.261 Salt bridges: B:R.92

3 x K: POTASSIUM ION(Non-covalent)

K.29: 9 residues within 4Å: Chain A: T.110, I.111, T.237, I.238 Chain B: T.110, I.111, T.237, I.238 Ligands: K.30 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:I.111 K.30: 5 residues within 4Å: Chain A: T.110, T.237 Chain B: T.110, T.237 Ligands: K.29 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Metal complexes: B:T.110, A:T.110 K.31: 8 residues within 4Å: Chain A: G.112, F.113, G.239, F.240 Chain B: G.112, F.113, G.239, F.240 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Metal complexes: A:G.112, A:G.239, B:G.239

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Roy-Chowdhury, S. et al., Structure of the human K 2P 13.1 channel reveals a hydrophilic pore restriction and lipid cofactor site. Nat.Struct.Mol.Biol. (2025)

Release Date

2025-02-26

Peptides

Potassium channel subfamily K member 13: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
U

B
A

Membrane

We predict this structure to be a membrane protein.
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Potassium channel subfamily K member 13

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