SMTL ID : 6v22.1

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

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-4-4-mer

Ligands

4 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 3 residues within 4Å: Chain A: E.374, T.396, E.399 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:E.399 MG.34: 3 residues within 4Å: Chain C: E.374, T.396, E.399 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:E.399 MG.58: 3 residues within 4Å: Chain E: E.374, T.396, E.399 1 PLIP interactions: 1 interactions with chain E Metal complexes: E:E.399 MG.82: 3 residues within 4Å: Chain G: E.374, T.396, E.399 1 PLIP interactions: 1 interactions with chain G Metal complexes: G:E.399

8 x CA: CALCIUM ION(Non-covalent)

CA.2: 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:E.535, A:S.600 CA.3: 5 residues within 4Å: Chain A: Q.889, D.892, D.895, D.897 Chain G: N.449 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:Q.889, A:D.892, A:D.895, A:D.897, A:D.897 CA.35: 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.36: 5 residues within 4Å: Chain A: N.449 Chain C: Q.889, D.892, D.895, D.897 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:Q.889, C:D.892, C:D.895, C:D.897, C:D.897 CA.59: 5 residues within 4Å: Chain E: D.367, R.514, S.533, E.535, S.600 5 PLIP interactions: 5 interactions with chain E Metal complexes: E:D.367, E:R.514, E:S.533, E:E.535, E:S.600 CA.60: 5 residues within 4Å: Chain C: N.449 Chain E: Q.889, D.892, D.895, D.897 5 PLIP interactions: 5 interactions with chain E Metal complexes: E:Q.889, E:D.892, E:D.895, E:D.897, E:D.897 CA.83: 5 residues within 4Å: Chain G: D.367, R.514, S.533, E.535, S.600 5 PLIP interactions: 5 interactions with chain G Metal complexes: G:D.367, G:R.514, G:S.533, G:E.535, G:S.600 CA.84: 5 residues within 4Å: Chain E: N.449 Chain G: Q.889, D.892, D.895, D.897 5 PLIP interactions: 5 interactions with chain G Metal complexes: G:Q.889, G:D.892, G:D.895, G:D.897, G:D.897

60 x POV: (2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate(Non-covalent)(Covalent)(Non-functional Binders)

POV.4: 5 residues within 4Å: Chain A: L.224, N.225, I.226 Ligands: POV.5, POV.22 Ligand excluded by PLIP POV.5: 3 residues within 4Å: Chain A: R.113, L.118 Ligands: POV.4 Ligand excluded by PLIP POV.6: 3 residues within 4Å: Chain A: L.212 Chain B: K.16 Ligands: POV.7 Ligand excluded by PLIP POV.7: 8 residues within 4Å: Chain A: T.245, F.306, F.307, M.314, S.317, Y.318 Chain C: I.323 Ligands: POV.6 Ligand excluded by PLIP POV.8: 2 residues within 4Å: Chain A: M.30, F.33 Ligand excluded by PLIP POV.9: 3 residues within 4Å: Chain A: W.23, V.31 Ligands: CLR.13 Ligand excluded by PLIP POV.18: 15 residues within 4Å: Chain A: W.246, T.273, W.275, E.276, V.278 Chain G: T.298, R.301, L.302, F.306 Chain H: V.30, F.33, I.34, F.37, C.38 Ligands: POV.22 Ligand excluded by PLIP POV.19: 5 residues within 4Å: Chain A: N.136 Chain H: F.33, G.36, L.40 Ligands: POV.20 Ligand excluded by PLIP POV.20: 3 residues within 4Å: Chain A: T.149, I.152 Ligands: POV.19 Ligand excluded by PLIP POV.21: 8 residues within 4Å: Chain A: T.229, N.231, S.232 Chain H: R.19, F.23, I.26 Ligands: POV.22, POV.98 Ligand excluded by PLIP POV.22: 11 residues within 4Å: Chain A: I.226, L.227, K.228, T.229, S.232, V.236, I.243 Ligands: POV.4, POV.18, POV.21, POV.98 Ligand excluded by PLIP POV.23: 7 residues within 4Å: Chain A: R.20, N.265, F.266, Q.267 Chain B: S.31, D.103, H.105 Ligand excluded by PLIP POV.24: 4 residues within 4Å: Chain B: F.23, V.30, I.34, F.35 Ligand excluded by PLIP POV.25: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP POV.26: 2 residues within 4Å: Ligands: POV.32, POV.33 Ligand excluded by PLIP POV.29: 15 residues within 4Å: Chain A: T.298, R.301, L.302, F.306 Chain B: V.30, F.33, I.34, F.37, C.38 Chain C: W.246, T.273, W.275, E.276, V.278 Ligands: POV.33 Ligand excluded by PLIP POV.30: 5 residues within 4Å: Chain B: F.33, G.36, L.40 Chain C: N.136 Ligands: POV.31 Ligand excluded by PLIP POV.31: 3 residues within 4Å: Chain C: T.149, I.152 Ligands: POV.30 Ligand excluded by PLIP POV.32: 8 residues within 4Å: Chain B: R.19, F.23, I.26 Chain C: T.229, N.231, S.232 Ligands: POV.26, POV.33 Ligand excluded by PLIP POV.33: 11 residues within 4Å: Chain C: I.226, L.227, K.228, T.229, S.232, V.236, I.243 Ligands: POV.26, POV.29, POV.32, POV.37 Ligand excluded by PLIP POV.37: 5 residues within 4Å: Chain C: L.224, N.225, I.226 Ligands: POV.33, POV.38 Ligand excluded by PLIP POV.38: 3 residues within 4Å: Chain C: R.113, L.118 Ligands: POV.37 Ligand excluded by PLIP POV.39: 3 residues within 4Å: Chain C: L.212 Chain D: K.16 Ligands: POV.40 Ligand excluded by PLIP POV.40: 8 residues within 4Å: Chain C: T.245, F.306, F.307, M.314, S.317, Y.318 Chain E: I.323 Ligands: POV.39 Ligand excluded by PLIP POV.41: 2 residues within 4Å: Chain C: M.30, F.33 Ligand excluded by PLIP POV.42: 3 residues within 4Å: Chain C: W.23, V.31 Ligands: CLR.46 Ligand excluded by PLIP POV.47: 7 residues within 4Å: Chain C: R.20, N.265, F.266, Q.267 Chain D: S.31, D.103, H.105 Ligand excluded by PLIP POV.48: 4 residues within 4Å: Chain D: F.23, V.30, I.34, F.35 Ligand excluded by PLIP POV.49: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP POV.50: 2 residues within 4Å: Ligands: POV.56, POV.57 Ligand excluded by PLIP POV.53: 15 residues within 4Å: Chain C: T.298, R.301, L.302, F.306 Chain D: V.30, F.33, I.34, F.37, C.38 Chain E: W.246, T.273, W.275, E.276, V.278 Ligands: POV.57 Ligand excluded by PLIP POV.54: 5 residues within 4Å: Chain D: F.33, G.36, L.40 Chain E: N.136 Ligands: POV.55 Ligand excluded by PLIP POV.55: 3 residues within 4Å: Chain E: T.149, I.152 Ligands: POV.54 Ligand excluded by PLIP POV.56: 8 residues within 4Å: Chain D: R.19, F.23, I.26 Chain E: T.229, N.231, S.232 Ligands: POV.50, POV.57 Ligand excluded by PLIP POV.57: 11 residues within 4Å: Chain E: I.226, L.227, K.228, T.229, S.232, V.236, I.243 Ligands: POV.50, POV.53, POV.56, POV.61 Ligand excluded by PLIP POV.61: 5 residues within 4Å: Chain E: L.224, N.225, I.226 Ligands: POV.57, POV.62 Ligand excluded by PLIP POV.62: 3 residues within 4Å: Chain E: R.113, L.118 Ligands: POV.61 Ligand excluded by PLIP POV.63: 3 residues within 4Å: Chain E: L.212 Chain F: K.16 Ligands: POV.64 Ligand excluded by PLIP POV.64: 8 residues within 4Å: Chain E: T.245, F.306, F.307, M.314, S.317, Y.318 Chain G: I.323 Ligands: POV.63 Ligand excluded by PLIP POV.65: 2 residues within 4Å: Chain E: M.30, F.33 Ligand excluded by PLIP POV.66: 3 residues within 4Å: Chain E: W.23, V.31 Ligands: CLR.70 Ligand excluded by PLIP POV.71: 7 residues within 4Å: Chain E: R.20, N.265, F.266, Q.267 Chain F: S.31, D.103, H.105 Ligand excluded by PLIP POV.72: 4 residues within 4Å: Chain F: F.23, V.30, I.34, F.35 Ligand excluded by PLIP POV.73: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP POV.74: 2 residues within 4Å: Ligands: POV.80, POV.81 Ligand excluded by PLIP POV.77: 15 residues within 4Å: Chain E: T.298, R.301, L.302, F.306 Chain F: V.30, F.33, I.34, F.37, C.38 Chain G: W.246, T.273, W.275, E.276, V.278 Ligands: POV.81 Ligand excluded by PLIP POV.78: 5 residues within 4Å: Chain F: F.33, G.36, L.40 Chain G: N.136 Ligands: POV.79 Ligand excluded by PLIP POV.79: 3 residues within 4Å: Chain G: T.149, I.152 Ligands: POV.78 Ligand excluded by PLIP POV.80: 8 residues within 4Å: Chain F: R.19, F.23, I.26 Chain G: T.229, N.231, S.232 Ligands: POV.74, POV.81 Ligand excluded by PLIP POV.81: 11 residues within 4Å: Chain G: I.226, L.227, K.228, T.229, S.232, V.236, I.243 Ligands: POV.74, POV.77, POV.80, POV.85 Ligand excluded by PLIP POV.85: 5 residues within 4Å: Chain G: L.224, N.225, I.226 Ligands: POV.81, POV.86 Ligand excluded by PLIP POV.86: 3 residues within 4Å: Chain G: R.113, L.118 Ligands: POV.85 Ligand excluded by PLIP POV.87: 3 residues within 4Å: Chain G: L.212 Chain H: K.16 Ligands: POV.88 Ligand excluded by PLIP POV.88: 8 residues within 4Å: Chain A: I.323 Chain G: T.245, F.306, F.307, M.314, S.317, Y.318 Ligands: POV.87 Ligand excluded by PLIP POV.89: 2 residues within 4Å: Chain G: M.30, F.33 Ligand excluded by PLIP POV.90: 3 residues within 4Å: Chain G: W.23, V.31 Ligands: CLR.94 Ligand excluded by PLIP POV.95: 7 residues within 4Å: Chain G: R.20, N.265, F.266, Q.267 Chain H: S.31, D.103, H.105 Ligand excluded by PLIP POV.96: 4 residues within 4Å: Chain H: F.23, V.30, I.34, F.35 Ligand excluded by PLIP POV.97: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP POV.98: 2 residues within 4Å: Ligands: POV.21, POV.22 Ligand excluded by PLIP

16 x CLR: CHOLESTEROL(Non-covalent)(Covalent)

CLR.10: 3 residues within 4Å: Chain A: S.96, V.97, W.100 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.97, A:W.100, A:W.100 CLR.11: 8 residues within 4Å: Chain A: G.36, I.39, W.43, R.44, F.168, N.172, D.173, K.174 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:I.39, A:W.43, A:F.168, A:K.174 CLR.12: 7 residues within 4Å: Chain A: M.21, W.23, A.24, S.28, T.32, Y.198, L.199 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:W.23, A:T.32, A:Y.198, A:L.199 CLR.13: 4 residues within 4Å: Chain A: W.23 Chain B: H.172, W.176 Ligands: POV.9 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:W.176 CLR.43: 3 residues within 4Å: Chain C: S.96, V.97, W.100 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:V.97, C:W.100, C:W.100 CLR.44: 8 residues within 4Å: Chain C: G.36, I.39, W.43, R.44, F.168, N.172, D.173, K.174 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:I.39, C:W.43, C:F.168, C:K.174 CLR.45: 7 residues within 4Å: Chain C: M.21, W.23, A.24, S.28, T.32, Y.198, L.199 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:W.23, C:T.32, C:Y.198, C:L.199 CLR.46: 4 residues within 4Å: Chain C: W.23 Chain D: H.172, W.176 Ligands: POV.42 1 PLIP interactions: 1 interactions with chain D Hydrophobic interactions: D:W.176 CLR.67: 3 residues within 4Å: Chain E: S.96, V.97, W.100 3 PLIP interactions: 3 interactions with chain E Hydrophobic interactions: E:V.97, E:W.100, E:W.100 CLR.68: 8 residues within 4Å: Chain E: G.36, I.39, W.43, R.44, F.168, N.172, D.173, K.174 4 PLIP interactions: 4 interactions with chain E Hydrophobic interactions: E:I.39, E:W.43, E:F.168, E:K.174 CLR.69: 7 residues within 4Å: Chain E: M.21, W.23, A.24, S.28, T.32, Y.198, L.199 4 PLIP interactions: 4 interactions with chain E Hydrophobic interactions: E:W.23, E:T.32, E:Y.198, E:L.199 CLR.70: 4 residues within 4Å: Chain E: W.23 Chain F: H.172, W.176 Ligands: POV.66 1 PLIP interactions: 1 interactions with chain F Hydrophobic interactions: F:W.176 CLR.91: 3 residues within 4Å: Chain G: S.96, V.97, W.100 3 PLIP interactions: 3 interactions with chain G Hydrophobic interactions: G:V.97, G:W.100, G:W.100 CLR.92: 8 residues within 4Å: Chain G: G.36, I.39, W.43, R.44, F.168, N.172, D.173, K.174 4 PLIP interactions: 4 interactions with chain G Hydrophobic interactions: G:I.39, G:W.43, G:F.168, G:K.174 CLR.93: 7 residues within 4Å: Chain G: M.21, W.23, A.24, S.28, T.32, Y.198, L.199 4 PLIP interactions: 4 interactions with chain G Hydrophobic interactions: G:W.23, G:T.32, G:Y.198, G:L.199 CLR.94: 4 residues within 4Å: Chain G: W.23 Chain H: H.172, W.176 Ligands: POV.90 1 PLIP interactions: 1 interactions with chain H Hydrophobic interactions: H:W.176

4 x K: POTASSIUM ION(Non-covalent)

K.14: 9 residues within 4Å: Chain A: G.289, Y.290 Chain C: G.289, Y.290 Chain E: G.289, Y.290 Chain G: G.289, Y.290 Ligands: K.15 5 PLIP interactions: 1 interactions with chain E, 2 interactions with chain A, 1 interactions with chain C, 1 interactions with chain G Metal complexes: E:Y.290, A:G.289, A:Y.290, C:Y.290, G:Y.290 K.15: 10 residues within 4Å: Chain A: V.288, G.289 Chain C: V.288, G.289 Chain E: V.288, G.289 Chain G: V.288, G.289 Ligands: K.14, K.16 5 PLIP interactions: 1 interactions with chain A, 2 interactions with chain E, 1 interactions with chain C, 1 interactions with chain G Metal complexes: A:G.289, E:V.288, E:G.289, C:G.289, G:G.289 K.16: 10 residues within 4Å: Chain A: T.287, V.288 Chain C: T.287, V.288 Chain E: T.287, V.288 Chain G: T.287, V.288 Ligands: K.15, K.17 5 PLIP interactions: 1 interactions with chain A, 2 interactions with chain G, 2 interactions with chain C Metal complexes: A:V.288, G:T.287, G:V.288, C:T.287, C:V.288 K.17: 5 residues within 4Å: Chain A: T.287 Chain C: T.287 Chain E: T.287 Chain G: T.287 Ligands: K.16 4 PLIP interactions: 1 interactions with chain A, 1 interactions with chain E, 1 interactions with chain G, 1 interactions with chain C Metal complexes: A:T.287, E:T.287, G:T.287, C:T.287

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

NAG.27: 1 residues within 4Å: Chain B: N.53 No protein-ligand interaction detected (PLIP) NAG.28: 4 residues within 4Å: Chain B: T.55, N.90, N.91, N.95 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.55, B:N.95 NAG.51: 1 residues within 4Å: Chain D: N.53 No protein-ligand interaction detected (PLIP) NAG.52: 4 residues within 4Å: Chain D: T.55, N.90, N.91, N.95 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:T.55, D:N.95 NAG.75: 1 residues within 4Å: Chain F: N.53 No protein-ligand interaction detected (PLIP) NAG.76: 4 residues within 4Å: Chain F: T.55, N.90, N.91, N.95 2 PLIP interactions: 2 interactions with chain F Hydrogen bonds: F:T.55, F:N.95 NAG.99: 1 residues within 4Å: Chain H: N.53 No protein-ligand interaction detected (PLIP) NAG.100: 4 residues within 4Å: Chain H: T.55, N.90, N.91, N.95 2 PLIP interactions: 2 interactions with chain H Hydrogen bonds: H:T.55, H:N.95

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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