SMTL ID : 6cjq.1

Structure of the SthK cyclic nucleotide-gated potassium channel

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY 3.42 Å

Oligo State

homo-tetramer

Ligands

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

PGW.1: 3 residues within 4Å: Chain A: G.186, L.190 Ligands: PGW.6 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.190 PGW.2: 3 residues within 4Å: Chain A: L.51, A.185, Y.189 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:Y.189, A:Y.189 PGW.3: 3 residues within 4Å: Chain A: L.43, Y.44, I.47 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.43, A:Y.44 PGW.4: 5 residues within 4Å: Chain A: P.50, L.128, L.131, F.162, G.169 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:P.50, A:L.128, A:L.131, A:F.162 PGW.5: 9 residues within 4Å: Chain A: L.156, V.160, T.201, V.233, L.240 Chain B: L.224, A.227, A.228, L.232 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:T.201, A:V.233, A:L.240, B:L.224, B:A.227 PGW.6: 2 residues within 4Å: Chain B: V.217 Ligands: PGW.1 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:V.217 PGW.7: 3 residues within 4Å: Chain B: G.186, L.190 Ligands: PGW.12 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:L.190 PGW.8: 3 residues within 4Å: Chain B: L.51, A.185, Y.189 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:Y.189, B:Y.189 PGW.9: 3 residues within 4Å: Chain B: L.43, Y.44, I.47 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:L.43, B:Y.44 PGW.10: 5 residues within 4Å: Chain B: P.50, L.128, L.131, F.162, G.169 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:P.50, B:L.128, B:L.131, B:F.162 PGW.11: 9 residues within 4Å: Chain B: L.156, V.160, T.201, V.233, L.240 Chain C: L.224, A.227, A.228, L.232 5 PLIP interactions: 2 interactions with chain C, 3 interactions with chain B Hydrophobic interactions: C:L.224, C:A.227, B:T.201, B:V.233, B:L.240 PGW.12: 2 residues within 4Å: Chain C: V.217 Ligands: PGW.7 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:V.217 PGW.13: 3 residues within 4Å: Chain C: G.186, L.190 Ligands: PGW.18 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:L.190 PGW.14: 3 residues within 4Å: Chain C: L.51, A.185, Y.189 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:Y.189, C:Y.189 PGW.15: 3 residues within 4Å: Chain C: L.43, Y.44, I.47 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:L.43, C:Y.44 PGW.16: 5 residues within 4Å: Chain C: P.50, L.128, L.131, F.162, G.169 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:P.50, C:L.128, C:L.131, C:F.162 PGW.17: 9 residues within 4Å: Chain C: L.156, V.160, T.201, V.233, L.240 Chain D: L.224, A.227, A.228, L.232 5 PLIP interactions: 3 interactions with chain C, 2 interactions with chain D Hydrophobic interactions: C:T.201, C:V.233, C:L.240, D:L.224, D:A.227 PGW.18: 2 residues within 4Å: Chain D: V.217 Ligands: PGW.13 1 PLIP interactions: 1 interactions with chain D Hydrophobic interactions: D:V.217 PGW.19: 2 residues within 4Å: Chain A: V.217 Ligands: PGW.20 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:V.217 PGW.20: 3 residues within 4Å: Chain D: G.186, L.190 Ligands: PGW.19 1 PLIP interactions: 1 interactions with chain D Hydrophobic interactions: D:L.190 PGW.21: 3 residues within 4Å: Chain D: L.51, A.185, Y.189 2 PLIP interactions: 2 interactions with chain D Hydrophobic interactions: D:Y.189, D:Y.189 PGW.22: 3 residues within 4Å: Chain D: L.43, Y.44, I.47 2 PLIP interactions: 2 interactions with chain D Hydrophobic interactions: D:L.43, D:Y.44 PGW.23: 5 residues within 4Å: Chain D: P.50, L.128, L.131, F.162, G.169 4 PLIP interactions: 4 interactions with chain D Hydrophobic interactions: D:P.50, D:L.128, D:L.131, D:F.162 PGW.24: 9 residues within 4Å: Chain A: L.224, A.227, A.228, L.232 Chain D: L.156, V.160, T.201, V.233, L.240 5 PLIP interactions: 3 interactions with chain D, 2 interactions with chain A Hydrophobic interactions: D:T.201, D:V.233, D:L.240, A:L.224, A:A.227

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rheinberger, J. et al., Ligand discrimination and gating in cyclic nucleotide-gated ion channels from apo and partial agonist-bound cryo-EM structures. Elife (2018)

Release Date

2018-08-01

Peptides

SthK cyclic nucleotide-gated potassium channel: 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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SthK cyclic nucleotide-gated potassium channel

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