SMTL ID : 6v35.1

Cryo-EM structure of Ca2+-free hsSlo1-beta4 channel complex

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-4-4-mer

Ligands

40 x PGW: (1R)-2-{[(S)-{[(2S)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(hexadecanoyloxy)methyl]ethyl (9Z)-octadec-9-enoate(Covalent)(Non-covalent)(Non-functional Binders)

PGW.1: 4 residues within 4Å: Chain A: L.212, I.215, I.241, F.252 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.212, A:I.241, A:F.252, A:F.252 PGW.2: 9 residues within 4Å: Chain A: W.22, I.138, W.203, N.265, F.266, Q.267 Chain B: S.31, D.103 Ligands: CLR.14 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:W.22, A:I.138, A:F.266 Hydrogen bonds: A:N.265, A:Q.267 PGW.3: 2 residues within 4Å: Chain A: V.31 Ligands: CLR.14 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:V.31 PGW.4: 2 residues within 4Å: Chain A: S.317 Chain C: I.323 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:I.323 PGW.5: 3 residues within 4Å: Chain A: M.314, Y.318 Chain C: R.329 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:Y.318 PGW.7: 11 residues within 4Å: Chain A: T.273, W.275, E.276, V.278, Y.279 Chain G: T.298, R.301, L.302, V.305 Chain H: F.37, C.38 10 PLIP interactions: 6 interactions with chain A, 3 interactions with chain G, 1 interactions with chain H Hydrophobic interactions: A:W.275, A:W.275, A:V.278, A:Y.279, G:R.301, G:L.302, G:V.305, H:F.37 Hydrogen bonds: A:T.273, A:E.276 PGW.8: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) PGW.9: 3 residues within 4Å: Chain A: R.329 Chain G: M.314, Y.318 1 PLIP interactions: 1 interactions with chain G Hydrophobic interactions: G:Y.318 PGW.10: 1 residues within 4Å: Ligands: PGW.11 No protein-ligand interaction detected (PLIP) PGW.11: 1 residues within 4Å: Ligands: PGW.10 No protein-ligand interaction detected (PLIP) PGW.15: 11 residues within 4Å: Chain A: T.298, R.301, L.302, V.305 Chain B: F.37, C.38 Chain C: T.273, W.275, E.276, V.278, Y.279 12 PLIP interactions: 3 interactions with chain A, 8 interactions with chain C, 1 interactions with chain B Hydrophobic interactions: A:R.301, A:L.302, A:V.305, C:W.275, C:W.275, C:W.275, C:W.275, C:V.278, C:Y.279, B:F.37 Hydrogen bonds: C:T.273, C:E.276 PGW.16: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) PGW.17: 3 residues within 4Å: Chain B: G.36 Chain C: I.132, D.147 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:I.132 PGW.18: 4 residues within 4Å: Chain C: L.212, I.215, I.241, F.252 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:L.212, C:I.241, C:F.252, C:F.252 PGW.19: 11 residues within 4Å: Chain C: T.298, R.301, L.302, V.305 Chain D: F.37, C.38 Chain E: T.273, W.275, E.276, V.278, Y.279 11 PLIP interactions: 7 interactions with chain E, 3 interactions with chain C, 1 interactions with chain D Hydrophobic interactions: E:W.275, E:W.275, E:W.275, E:V.278, E:Y.279, C:R.301, C:L.302, C:V.305, D:F.37 Hydrogen bonds: E:T.273, E:E.276 PGW.20: 8 residues within 4Å: Chain C: W.22, I.138, N.265, F.266, Q.267 Chain D: S.31, D.103 Ligands: CLR.30 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:W.22, C:I.138, C:F.266 Hydrogen bonds: C:N.265, C:Q.267 PGW.21: 2 residues within 4Å: Chain C: V.31 Ligands: CLR.30 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:V.31 PGW.22: 1 residues within 4Å: Chain C: S.317 No protein-ligand interaction detected (PLIP) PGW.23: 3 residues within 4Å: Chain C: M.314, Y.318 Chain E: R.329 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:Y.318 PGW.25: 2 residues within 4Å: Chain D: G.36 Chain E: D.147 No protein-ligand interaction detected (PLIP) PGW.26: 1 residues within 4Å: Ligands: PGW.27 No protein-ligand interaction detected (PLIP) PGW.27: 1 residues within 4Å: Ligands: PGW.26 No protein-ligand interaction detected (PLIP) PGW.31: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) PGW.32: 4 residues within 4Å: Chain E: L.212, I.215, I.241, F.252 4 PLIP interactions: 4 interactions with chain E Hydrophobic interactions: E:L.212, E:I.241, E:F.252, E:F.252 PGW.33: 9 residues within 4Å: Chain E: W.22, I.138, W.203, N.265, F.266, Q.267 Chain F: S.31, D.103 Ligands: CLR.42 5 PLIP interactions: 5 interactions with chain E Hydrophobic interactions: E:W.22, E:I.138, E:F.266 Hydrogen bonds: E:N.265, E:Q.267 PGW.34: 2 residues within 4Å: Chain E: V.31 Ligands: CLR.42 1 PLIP interactions: 1 interactions with chain E Hydrophobic interactions: E:V.31 PGW.35: 2 residues within 4Å: Chain E: S.317 Chain G: I.323 1 PLIP interactions: 1 interactions with chain G Hydrophobic interactions: G:I.323 PGW.36: 3 residues within 4Å: Chain E: M.314, Y.318 Chain G: R.329 1 PLIP interactions: 1 interactions with chain E Hydrophobic interactions: E:Y.318 PGW.38: 1 residues within 4Å: Ligands: PGW.39 No protein-ligand interaction detected (PLIP) PGW.39: 1 residues within 4Å: Ligands: PGW.38 No protein-ligand interaction detected (PLIP) PGW.43: 11 residues within 4Å: Chain E: T.298, R.301, L.302, V.305 Chain F: F.37, C.38 Chain G: T.273, W.275, E.276, V.278, Y.279 12 PLIP interactions: 8 interactions with chain G, 3 interactions with chain E, 1 interactions with chain F Hydrophobic interactions: G:W.275, G:W.275, G:W.275, G:W.275, G:V.278, G:Y.279, E:R.301, E:L.302, E:V.305, F:F.37 Hydrogen bonds: G:T.273, G:E.276 PGW.44: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) PGW.45: 3 residues within 4Å: Chain F: G.36 Chain G: I.132, D.147 1 PLIP interactions: 1 interactions with chain G Hydrophobic interactions: G:I.132 PGW.46: 4 residues within 4Å: Chain G: L.212, I.215, I.241, F.252 4 PLIP interactions: 4 interactions with chain G Hydrophobic interactions: G:L.212, G:I.241, G:F.252, G:F.252 PGW.47: 9 residues within 4Å: Chain G: W.22, I.138, W.203, N.265, F.266, Q.267 Chain H: S.31, D.103 Ligands: CLR.56 5 PLIP interactions: 5 interactions with chain G Hydrophobic interactions: G:W.22, G:I.138, G:F.266 Hydrogen bonds: G:N.265, G:Q.267 PGW.48: 2 residues within 4Å: Chain G: V.31 Ligands: CLR.56 1 PLIP interactions: 1 interactions with chain G Hydrophobic interactions: G:V.31 PGW.49: 1 residues within 4Å: Chain G: S.317 No protein-ligand interaction detected (PLIP) PGW.51: 2 residues within 4Å: Chain A: D.147 Chain H: G.36 No protein-ligand interaction detected (PLIP) PGW.52: 1 residues within 4Å: Ligands: PGW.53 No protein-ligand interaction detected (PLIP) PGW.53: 1 residues within 4Å: Ligands: PGW.52 No protein-ligand interaction detected (PLIP)

8 x CLR: CHOLESTEROL(Non-covalent)

CLR.6: 6 residues within 4Å: Chain A: M.21, S.28, T.32, V.195, Y.198, L.199 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.195, A:Y.198, A:L.199 CLR.14: 7 residues within 4Å: Chain A: W.23, A.27, M.30 Chain B: H.172, W.176 Ligands: PGW.2, PGW.3 7 PLIP interactions: 4 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:W.23, A:W.23, A:W.23, A:A.27, B:W.176, B:W.176, B:W.176 CLR.24: 6 residues within 4Å: Chain C: M.21, S.28, T.32, V.195, Y.198, L.199 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:V.195, C:Y.198, C:L.199 CLR.30: 7 residues within 4Å: Chain C: W.23, A.27, M.30 Chain D: H.172, W.176 Ligands: PGW.20, PGW.21 7 PLIP interactions: 4 interactions with chain C, 3 interactions with chain D Hydrophobic interactions: C:W.23, C:W.23, C:W.23, C:A.27, D:W.176, D:W.176, D:W.176 CLR.37: 6 residues within 4Å: Chain E: M.21, S.28, T.32, V.195, Y.198, L.199 3 PLIP interactions: 3 interactions with chain E Hydrophobic interactions: E:V.195, E:Y.198, E:L.199 CLR.42: 7 residues within 4Å: Chain E: W.23, A.27, M.30 Chain F: H.172, W.176 Ligands: PGW.33, PGW.34 7 PLIP interactions: 3 interactions with chain F, 4 interactions with chain E Hydrophobic interactions: F:W.176, F:W.176, F:W.176, E:W.23, E:W.23, E:W.23, E:A.27 CLR.50: 6 residues within 4Å: Chain G: M.21, S.28, T.32, V.195, Y.198, L.199 3 PLIP interactions: 3 interactions with chain G Hydrophobic interactions: G:V.195, G:Y.198, G:L.199 CLR.56: 7 residues within 4Å: Chain G: W.23, A.27, M.30 Chain H: H.172, W.176 Ligands: PGW.47, PGW.48 7 PLIP interactions: 3 interactions with chain H, 4 interactions with chain G Hydrophobic interactions: H:W.176, H:W.176, H:W.176, G:W.23, G:W.23, G:W.23, G:A.27

8 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.12: 2 residues within 4Å: Chain B: N.53, S.92 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.92, B:S.92 NAG.13: 4 residues within 4Å: Chain B: N.90, N.91, N.95, S.96 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.95, B:N.95, B:S.96 NAG.28: 2 residues within 4Å: Chain D: N.53, S.92 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:S.92, D:S.92 NAG.29: 4 residues within 4Å: Chain D: N.90, N.91, N.95, S.96 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:N.95, D:N.95, D:S.96 NAG.40: 2 residues within 4Å: Chain F: N.53, S.92 2 PLIP interactions: 2 interactions with chain F Hydrogen bonds: F:S.92, F:S.92 NAG.41: 4 residues within 4Å: Chain F: N.90, N.91, N.95, S.96 3 PLIP interactions: 3 interactions with chain F Hydrogen bonds: F:N.95, F:N.95, F:S.96 NAG.54: 2 residues within 4Å: Chain H: N.53, S.92 2 PLIP interactions: 2 interactions with chain H Hydrogen bonds: H:S.92, H:S.92 NAG.55: 4 residues within 4Å: Chain H: N.90, N.91, N.95, S.96 3 PLIP interactions: 3 interactions with chain H Hydrogen bonds: H:N.95, H:N.95, H:S.96

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tao, X. et al., Molecular structures of the human Slo1 K + channel in complex with beta 4. Elife (2019)

Release Date

2019-12-25

Peptides

Calcium-activated potassium channel subunit alpha-1: ACEG
Calcium-activated potassium channel subunit beta-4: BDFH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
B

E
C

G
D

B
E

D
F

F
G

H
H

Membrane

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

Calcium-activated potassium channel subunit beta-4

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