SMTL ID : 8ue9.1

Structure of TREK-1CG*:CAT335

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

homo-dimer

Ligands

13 x R16: HEXADECANE(Non-covalent)

R16.1: 3 residues within 4Å: Chain A: I.26, K.270 Ligands: R16.2 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:I.26, A:K.270 R16.2: 5 residues within 4Å: Chain A: T.15, A.266, T.269 Ligands: R16.1, R16.10 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:A.266 R16.10: 4 residues within 4Å: Chain A: T.12, R.263 Chain B: F.138 Ligands: R16.2 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:F.138 R16.11: 3 residues within 4Å: Chain A: W.10 Chain B: I.150, K.153 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:I.150, B:I.150, B:K.153, A:W.10, A:W.10 R16.12: 10 residues within 4Å: Chain A: G.96, F.99, Y.232, L.233, D.234, K.237, P.238, W.241 Ligands: WUU.3, R16.13 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Y.232, A:K.237, A:P.238 R16.13: 2 residues within 4Å: Chain A: D.234 Ligands: R16.12 No protein-ligand interaction detected (PLIP) R16.14: 8 residues within 4Å: Chain A: L.187, P.192, I.195, F.235, Y.236, V.239, V.240, W.243 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:L.187, A:P.192, A:I.195, A:F.235, A:Y.236, A:V.239, A:V.240, A:W.243 R16.15: 6 residues within 4Å: Chain A: F.138 Chain B: T.12, I.16, L.262, R.263, A.266 5 PLIP interactions: 4 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:T.12, B:I.16, B:L.262, B:A.266, A:F.138 R16.16: 4 residues within 4Å: Chain B: L.95, G.96, F.99 Ligands: R16.20 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:F.99 R16.17: 2 residues within 4Å: Chain B: I.26, R.277 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:I.26 R16.18: 6 residues within 4Å: Chain B: T.15, I.16, L.262, I.265, A.266, T.269 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:I.16, B:L.262, B:I.265, B:T.269 R16.20: 8 residues within 4Å: Chain A: F.17 Chain B: F.99, D.234, K.237, P.238, W.241, L.245 Ligands: R16.16 7 PLIP interactions: 6 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:F.99, B:K.237, B:P.238, B:W.241, B:W.241, B:L.245, A:F.17 R16.21: 1 residues within 4Å: Chain B: I.123 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:I.123

2 x WUU: N-[(2,4-dichlorophenyl)methyl]-4-(2,5-dioxopyrrolidin-1-yl)benzamide

WUU.3: 14 residues within 4Å: Chain A: H.92, C.97, F.100, G.103, T.107, I.114, F.210, A.225, G.226, K.237, V.240, W.241, I.244 Ligands: R16.12 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:F.100, A:K.237, A:V.240, A:I.244 Hydrogen bonds: A:A.225, A:K.237 pi-Stacking: A:F.100, A:F.100, A:W.241, A:W.241 pi-Cation interactions: A:K.237 Halogen bonds: A:T.107 WUU.19: 16 residues within 4Å: Chain B: H.92, C.97, F.100, G.103, T.104, T.107, F.111, I.114, F.210, A.225, G.226, G.227, K.237, V.240, W.241, I.244 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:F.100, B:K.237, B:I.244 Hydrogen bonds: B:A.225, B:K.237 pi-Stacking: B:F.100, B:F.100, B:W.241, B:W.241 Halogen bonds: B:T.107

1 x 16C: N-((E,2S,3R)-1,3-DIHYDROXYOCTADEC-4-EN-2-YL)PALMITAMIDE(Non-covalent)

16C.4: 5 residues within 4Å: Chain A: E.119, G.120, I.123 Chain B: A.204, L.205 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:I.123

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

K.5: 5 residues within 4Å: Chain A: T.108, T.217 Chain B: T.108, T.217 Ligands: K.8 5 PLIP interactions: 2 interactions with chain A, 3 interactions with chain B Metal complexes: A:T.108, A:T.217, B:T.108, B:T.217, B:T.217 K.6: 9 residues within 4Å: Chain A: G.110, F.111, G.219, F.220 Chain B: G.110, F.111, G.219, F.220 Ligands: K.7 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Metal complexes: B:G.110, B:F.220, A:G.110, A:F.111, A:F.220 K.7: 8 residues within 4Å: Chain A: G.110, I.218, G.219 Chain B: G.110, I.218, G.219 Ligands: K.6, K.8 5 PLIP interactions: 2 interactions with chain A, 3 interactions with chain B Metal complexes: A:G.110, A:G.219, B:G.110, B:I.218, B:G.219 K.8: 10 residues within 4Å: Chain A: T.108, G.110, T.217, I.218 Chain B: T.108, G.110, T.217, I.218 Ligands: K.5, K.7 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Metal complexes: B:T.108, B:T.217, B:I.218, A:T.217, A:I.218 K.9: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

1 x CD: CADMIUM ION(Non-covalent)

CD.22: 3 residues within 4Å: Chain B: I.81, H.92, D.229 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:D.229

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mondal, A. et al., Structure of Trek-1(S131C mutant) with ML335. To Be Published

Release Date

2024-06-26

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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