SMTL ID : 6v3i.1

K2P2.1(TREK-1)I110D:RuR bound channel structure

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.40 Å

Oligo State

homo-dimer

Ligands

1 x R2R: ruthenium(6+) azanide pentaamino(oxido)ruthenium (1/4/2)(Non-covalent)

R2R.1: 6 residues within 4Å: Chain A: V.88, D.91, N.92 Chain B: D.91, N.92, G.94 10 PLIP interactions: 8 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:D.91, B:D.91, B:D.91, B:D.91, B:D.91, B:N.92, B:N.92, B:G.236, A:D.91, A:D.91

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

D12.2: 2 residues within 4Å: Chain A: Y.38, I.41 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Y.38, A:Y.38, A:I.41 D12.8: 1 residues within 4Å: Chain A: T.284 No protein-ligand interaction detected (PLIP) D12.16: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

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

OCT.3: 1 residues within 4Å: Chain A: I.142 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:I.142 OCT.14: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) OCT.15: 2 residues within 4Å: Chain B: R.65, D.81 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:D.81

1 x HEX: HEXANE(Non-covalent)

HEX.4: 1 residues within 4Å: Chain A: T.284 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:T.284

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

K.5: 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.12 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Metal complexes: A:G.125, A:F.126, A:F.235, B:F.126, B:G.234 K.6: 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.13 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Metal complexes: A:T.123, A:T.232, A:I.233, B:T.123, B:I.233 K.7: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) K.12: 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.5, K.6 5 PLIP interactions: 2 interactions with chain A, 3 interactions with chain B Metal complexes: A:I.233, A:G.234, B:I.124, B:G.125, B:G.234 K.13: 5 residues within 4Å: Chain A: T.123, T.232 Chain B: T.123, T.232 Ligands: K.6 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Metal complexes: B:T.123, B:T.232, B:T.232, A:T.232

1 x LNK: PENTANE(Non-functional Binders)

LNK.9: 1 residues within 4Å: Chain A: L.110 No protein-ligand interaction detected (PLIP)

3 x CD: CADMIUM ION(Non-covalent)(Non-functional Binders)

CD.10: 2 residues within 4Å: Chain A: E.290, H.294 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.290, A:H.294 CD.11: 2 residues within 4Å: Chain B: H.107, D.244 No protein-ligand interaction detected (PLIP) CD.17: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pope, L. et al., Polynuclear Ruthenium Amines Inhibit K2PChannels via a "Finger in the Dam" Mechanism. Cell Chem Biol (2020)

Release Date

2020-02-26

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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