SMTL ID : 6w88.1

K2P2.1 (TREK-1):ML335 complex, 30 mM K+

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.20 Å

Oligo State

homo-dimer

Ligands

2 x Q6F: N-[(2,4-dichlorophenyl)methyl]-4-[(methylsulfonyl)amino]benzamide(Non-covalent)

Q6F.1: 18 residues within 4Å: Chain A: S.106, H.107, S.112, F.115, G.118, T.119, T.122, F.126, N.128, I.129, V.239, A.240, G.241, G.242, K.252, V.255, W.256, I.259 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:F.115, A:F.126, A:V.239, A:I.259 Hydrogen bonds: A:S.112, A:A.240, A:G.242 pi-Stacking: A:F.115, A:F.115, A:W.256, A:W.256 Halogen bonds: A:T.122 Q6F.18: 16 residues within 4Å: Chain B: H.107, S.112, F.115, G.118, T.119, I.124, F.126, N.128, I.129, A.240, G.241, G.242, V.255, W.256, I.259 Ligands: CD.15 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:F.115, B:I.259 Hydrogen bonds: B:S.112, B:N.128, B:A.240, B:G.242 pi-Stacking: B:F.115, B:F.115, B:W.256, B:W.256

4 x CD: CADMIUM ION(Non-covalent)

CD.2: 1 residues within 4Å: Chain A: D.244 No protein-ligand interaction detected (PLIP) CD.15: 3 residues within 4Å: Chain B: H.107, D.244 Ligands: Q6F.18 No protein-ligand interaction detected (PLIP) CD.16: 2 residues within 4Å: Chain B: E.290, H.294 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:E.290 CD.17: 1 residues within 4Å: Chain B: D.109 No protein-ligand interaction detected (PLIP)

3 x D12: DODECANE(Non-covalent)

D12.3: 1 residues within 4Å: Chain B: A.219 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:A.219 D12.4: 6 residues within 4Å: Chain A: L.202, L.206, P.207, I.210, V.254, W.258 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:L.206, A:P.207, A:I.210, A:V.254, A:W.258 D12.19: 3 residues within 4Å: Chain B: Y.38, I.41 Ligands: R16.25 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:Y.38, B:I.41

2 x D10: DECANE(Non-covalent)

D10.5: 3 residues within 4Å: Chain A: L.37, I.41 Ligands: LNK.6 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.37, A:I.41 D10.20: 1 residues within 4Å: Chain B: W.258 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:W.258

2 x LNK: PENTANE(Non-covalent)

LNK.6: 2 residues within 4Å: Chain A: A.281 Ligands: D10.5 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:A.281 LNK.21: 1 residues within 4Å: Chain B: L.110 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:L.110, B:L.110

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

OCT.7: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) OCT.22: 3 residues within 4Å: Chain B: D.249, K.252, P.253 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:K.252, B:P.253 OCT.23: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

3 x R16: HEXADECANE(Non-covalent)

R16.8: 1 residues within 4Å: Chain A: G.135 No protein-ligand interaction detected (PLIP) R16.24: 1 residues within 4Å: Chain B: C.200 No protein-ligand interaction detected (PLIP) R16.25: 5 residues within 4Å: Chain A: L.146 Chain B: T.30, A.281, K.285 Ligands: D12.19 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:L.146, B:A.281, B:K.285

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

K.9: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) K.10: 9 residues within 4Å: Chain A: G.125, F.126, G.234, F.235 Chain B: G.125, F.126, G.234, F.235 Ligands: K.26 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Metal complexes: B:F.126, B:F.235, A:F.126, A:F.235 K.11: 10 residues within 4Å: Chain A: T.123, I.124, T.232, I.233 Chain B: T.123, I.124, T.232, I.233 Ligands: K.12, K.26 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Metal complexes: B:T.123, B:T.232, B:I.233, A:T.232, A:I.233 K.12: 5 residues within 4Å: Chain A: T.123, T.232 Chain B: T.123, T.232 Ligands: K.11 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Metal complexes: A:T.123, A:T.232, A:T.232, B:T.123, B:T.123 K.26: 10 residues within 4Å: Chain A: I.124, G.125, I.233, G.234 Chain B: I.124, G.125, I.233, G.234 Ligands: K.10, K.11 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Metal complexes: B:I.124, B:G.125, B:I.233, A:G.125, A:G.234

2 x UND: UNDECANE(Non-covalent)

UND.13: 1 residues within 4Å: Chain A: T.284 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:T.284 UND.14: 2 residues within 4Å: Chain A: N.21, W.25 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:W.25, A:W.25, A:W.25

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lolicato, M. et al., K 2P channel C-type gating involves asymmetric selectivity filter order-disorder transitions. Sci Adv (2020)

Release Date

2021-01-27

Peptides

Potassium channel subfamily K member 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Membrane

We predict this structure to be a membrane protein.
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Potassium channel subfamily K member 2

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