SMTL ID : 6w8c.1

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

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-dimer

Ligands

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

K.1: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) K.2: 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.3 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Metal complexes: B:F.126, A:F.126, A:F.235 K.3: 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.2, K.4 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:I.233 K.4: 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.3, K.12 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Metal complexes: B:T.123, B:T.232, A:T.123, 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.4 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Metal complexes: A:T.232, B:T.123 K.13: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

3 x R16: HEXADECANE(Non-functional Binders)(Non-covalent)

R16.5: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) R16.6: 1 residues within 4Å: Chain A: L.146 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.146 R16.7: 6 residues within 4Å: Chain A: L.202, P.207, I.210, V.254, V.255, W.258 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:P.207, A:I.210, A:V.254, A:V.255, A:W.258

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

Q6F.8: 16 residues within 4Å: Chain A: H.107, S.112, F.115, G.118, T.119, F.126, N.128, I.129, A.240, G.241, G.242, K.252, V.255, W.256, I.259 Ligands: 11A.11 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:F.115, A:F.126, A:K.252, A:V.255 Hydrogen bonds: A:H.107, A:S.112, A:S.112, A:A.240 pi-Stacking: A:F.115, A:F.115, A:W.256, A:W.256 Q6F.27: 15 residues within 4Å: Chain B: H.107, S.112, F.115, G.118, T.119, F.126, N.128, I.129, A.240, G.241, G.242, K.252, V.255, W.256, I.259 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:F.115, B:K.252, B:V.255, B:I.259 Hydrogen bonds: B:S.112, B:S.112, B:A.240 pi-Stacking: B:F.115, B:F.115, B:W.256, B:W.256

4 x B7G: heptyl beta-D-glucopyranoside(Non-covalent)

B7G.9: 2 residues within 4Å: Chain A: E.246, L.248 No protein-ligand interaction detected (PLIP) B7G.21: 3 residues within 4Å: Chain A: W.25 Chain B: Q.161, I.165 No protein-ligand interaction detected (PLIP) B7G.22: 5 residues within 4Å: Chain B: K.26, T.30, K.285, R.292 Ligands: IEP.25 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.30, B:K.285 B7G.23: 1 residues within 4Å: Chain B: T.284 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:T.284

2 x IEP: [(2~{S})-1-octadecanoyloxy-3-[oxidanyl-[(1~{R},2~{R},3~{S},4~{S},5~{S},6~{S})-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phosphoryl]oxy-propan-2-yl] icosa-5,8,11,14-tetraenoate(Non-covalent)

IEP.10: 9 residues within 4Å: Chain A: M.23, T.27, T.30, Y.38, I.41, L.277, A.281, K.282, T.284 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:Y.38, A:I.41, A:L.277, A:A.281 Hydrogen bonds: A:T.27, A:K.282, A:K.282 IEP.25: 15 residues within 4Å: Chain A: L.146, L.150, F.153 Chain B: T.27, T.30, I.31, Y.38, I.41, L.277, R.278, I.280, A.281, T.284, K.285 Ligands: B7G.22 7 PLIP interactions: 6 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:Y.38, B:Y.38, B:I.41, B:I.280, B:A.281, A:L.146 Hydrogen bonds: B:R.278

2 x 11A: UNDECANOIC ACID(Non-covalent)

11A.11: 7 residues within 4Å: Chain A: G.111, F.114, D.249, P.253, W.256, F.257 Ligands: Q6F.8 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.114, A:F.257 Hydrogen bonds: A:W.256 Salt bridges: A:K.252 11A.26: 5 residues within 4Å: Chain A: F.32 Chain B: G.111, F.114, D.249, W.256 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:F.114, B:W.256, A:F.32 Salt bridges: B:K.252

3 x CD: CADMIUM ION(Non-covalent)

CD.14: 2 residues within 4Å: Chain B: H.107, D.244 No protein-ligand interaction detected (PLIP) CD.15: 2 residues within 4Å: Chain B: E.290, H.294 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:E.290, B:E.290, B:H.294 CD.16: 2 residues within 4Å: Chain B: D.109, S.112 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:D.109

2 x OCT: N-OCTANE(Non-covalent)

OCT.17: 3 residues within 4Å: Chain B: R.188, I.189, T.192 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:R.188, B:I.189 OCT.18: 1 residues within 4Å: Chain B: G.135 No protein-ligand interaction detected (PLIP)

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

D12.19: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) D12.20: 5 residues within 4Å: Chain B: L.202, P.207, I.210, F.211, V.254 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:P.207, B:I.210, B:F.211

1 x UND: UNDECANE(Non-functional Binders)

UND.24: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

1 x LNK: PENTANE(Non-covalent)

LNK.28: 4 residues within 4Å: Chain A: R.278 Chain B: P.149, G.152, F.153 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:F.153

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

Potassium channel subfamily K member 2

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