SMTL ID : 8z3s.1

Activation mechanism and novel binding site of the BKCa channel activator CTIBD

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-tetramer

Ligands

8 x 01: 4-[4-(4-chlorophenyl)-3-(trifluoromethyl)-1,2-oxazol-5-yl]benzene-1,3-diol

01.1: 4 residues within 4Å: Chain A: W.263, L.302 Ligands: 01.2, Y01.9 2 PLIP interactions: 2 interactions with chain A pi-Stacking: A:W.263, A:W.263 01.2: 10 residues within 4Å: Chain A: W.22, I.138, W.203, L.206, F.252, L.255, S.259, P.262, F.266 Ligands: 01.1 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:W.203, A:L.255, A:F.266 Hydrogen bonds: A:W.22, A:S.259 pi-Stacking: A:W.22 01.7: 3 residues within 4Å: Chain B: W.263, L.302 Ligands: 01.8 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:W.263 pi-Stacking: B:W.263 01.8: 9 residues within 4Å: Chain B: W.22, L.26, W.203, L.206, F.252, S.259, P.262, F.266 Ligands: 01.7 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:L.26, B:W.203, B:L.206 Hydrogen bonds: B:S.259 pi-Stacking: B:W.22 01.13: 2 residues within 4Å: Chain C: L.302 Ligands: 01.14 No protein-ligand interaction detected (PLIP) 01.14: 9 residues within 4Å: Chain C: W.22, L.26, W.203, L.206, F.252, S.259, P.262, F.266 Ligands: 01.13 7 PLIP interactions: 7 interactions with chain C Hydrophobic interactions: C:L.26, C:W.203, C:F.266 Hydrogen bonds: C:W.22, C:W.203 pi-Stacking: C:W.22, C:W.22 01.19: 2 residues within 4Å: Chain D: W.263, L.302 1 PLIP interactions: 1 interactions with chain D Hydrophobic interactions: D:W.263 01.20: 7 residues within 4Å: Chain D: W.22, L.26, W.203, L.206, S.259, P.262, F.266 6 PLIP interactions: 6 interactions with chain D Hydrophobic interactions: D:L.26, D:W.203 Hydrogen bonds: D:W.22, D:W.203, D:S.259 pi-Stacking: D:W.22

4 x Y01: CHOLESTEROL HEMISUCCINATE(Non-covalent)

Y01.3: 6 residues within 4Å: Chain A: F.131, S.135, W.246, Y.274, W.275 Chain D: F.306 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain D Hydrophobic interactions: A:W.246, A:Y.274, A:W.275, D:F.306 Hydrogen bonds: A:S.135 Y01.9: 5 residues within 4Å: Chain B: F.131, S.135, I.243, W.275 Ligands: 01.1 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:F.131, B:F.131, B:I.243, B:W.275 Hydrogen bonds: B:S.135 Y01.15: 5 residues within 4Å: Chain C: F.131, S.135, W.246, W.275, V.278 6 PLIP interactions: 6 interactions with chain C Hydrophobic interactions: C:F.131, C:W.246, C:W.275, C:V.278 Hydrogen bonds: C:S.135, C:S.135 Y01.21: 6 residues within 4Å: Chain C: F.306 Chain D: F.131, S.135, W.246, Y.274, W.275 6 PLIP interactions: 5 interactions with chain D, 1 interactions with chain C Hydrophobic interactions: D:F.131, D:W.246, D:Y.274, D:W.275, C:F.306 Hydrogen bonds: D:S.135

4 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 2 residues within 4Å: Chain A: E.374, E.399 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.399, A:E.399 MG.10: 2 residues within 4Å: Chain B: E.374, E.399 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:E.399 MG.16: 2 residues within 4Å: Chain C: E.374, E.399 2 PLIP interactions: 2 interactions with chain C Metal complexes: C:E.399, C:E.399 MG.22: 2 residues within 4Å: Chain C: N.172 Chain D: E.399 1 PLIP interactions: 1 interactions with chain D Metal complexes: D:E.399

8 x CA: CALCIUM ION(Non-covalent)

CA.5: 5 residues within 4Å: Chain A: D.367, R.514, S.533, E.535, S.600 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.367, A:R.514, A:S.533, A:S.533, A:E.535 CA.6: 5 residues within 4Å: Chain A: Q.947, D.950, D.953, D.955 Chain D: N.449 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:Q.947, A:D.950, A:D.953, A:D.955, A:D.955 CA.11: 5 residues within 4Å: Chain B: D.367, R.514, S.533, E.535, S.600 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:D.367, B:R.514, B:S.533, B:E.535, B:S.600 CA.12: 4 residues within 4Å: Chain B: Q.947, D.950, D.953, D.955 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:Q.947, B:D.950, B:D.953, B:D.953, B:D.955 CA.17: 5 residues within 4Å: Chain C: D.367, R.514, S.533, E.535, S.600 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:D.367, C:R.514, C:S.533, C:E.535, C:S.600 CA.18: 5 residues within 4Å: Chain C: Q.947, F.948, L.949, D.950, D.953 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:Q.947, C:D.950, C:D.953 CA.23: 5 residues within 4Å: Chain D: D.367, R.514, S.533, E.535, S.600 5 PLIP interactions: 5 interactions with chain D Metal complexes: D:D.367, D:R.514, D:S.533, D:E.535, D:S.600 CA.24: 5 residues within 4Å: Chain C: N.449 Chain D: Q.947, D.950, D.953, D.955 5 PLIP interactions: 5 interactions with chain D Metal complexes: D:Q.947, D:D.950, D:D.953, D:D.955, D:D.955

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lee, N. et al., Activation mechanism and novel binding sites of the BK Ca channel activator CTIBD. Life Sci Alliance (2024)

Release Date

2024-07-31

Peptides

Calcium-activated potassium channel subunit alpha-1: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Membrane

We predict this structure to be a membrane protein.
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Calcium-activated potassium channel subunit alpha-1