SMTL ID : 9oa8.1

Cryo-EM structure of KCa3.1/calmodulin channel in complex with NS309

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY 3.59 Å

Oligo State

hetero-4-4-mer

Ligands

3 x K: POTASSIUM ION(Non-covalent)

K.1: 4 residues within 4Å: Chain A: T.242 Chain B: T.242 Chain C: T.242 Chain D: T.242 No protein-ligand interaction detected (PLIP) K.2: 4 residues within 4Å: Chain A: T.242 Chain B: T.242 Chain C: T.242 Chain D: T.242 4 PLIP interactions: 1 interactions with chain A, 1 interactions with chain C, 1 interactions with chain D, 1 interactions with chain B Metal complexes: A:T.242, C:T.242, D:T.242, B:T.242 K.3: 8 residues within 4Å: Chain A: G.244, Y.245 Chain B: G.244, Y.245 Chain C: G.244, Y.245 Chain D: G.244, Y.245 4 PLIP interactions: 1 interactions with chain B, 1 interactions with chain D, 1 interactions with chain A, 1 interactions with chain C Metal complexes: B:Y.245, D:Y.245, A:Y.245, C:Y.245

4 x 1KP: (3E)-6,7-dichloro-3-(hydroxyimino)-1,3-dihydro-2H-indol-2-one(Non-covalent)

1KP.4: 10 residues within 4Å: Chain C: A.176, L.177 Chain E: F.18, I.26, L.31, M.50, I.62, F.67, M.70, K.74 2 PLIP interactions: 2 interactions with chain E Hydrophobic interactions: E:L.31 Hydrogen bonds: E:K.74 1KP.7: 10 residues within 4Å: Chain D: A.176, L.177 Chain F: F.18, I.26, L.31, M.50, I.62, F.67, M.70, K.74 2 PLIP interactions: 2 interactions with chain F Hydrophobic interactions: F:L.31 Hydrogen bonds: F:K.74 1KP.10: 8 residues within 4Å: Chain A: L.177 Chain G: F.18, I.26, M.50, I.62, F.67, M.70, K.74 1 PLIP interactions: 1 interactions with chain G Hydrogen bonds: G:K.74 1KP.13: 11 residues within 4Å: Chain B: S.173, A.176, L.177 Chain H: F.18, I.26, L.31, M.50, I.62, F.67, M.70, K.74 2 PLIP interactions: 2 interactions with chain H Hydrophobic interactions: H:L.31 Hydrogen bonds: H:K.74

8 x CA: CALCIUM ION(Non-covalent)

CA.5: 5 residues within 4Å: Chain E: D.19, D.21, D.23, T.25, E.30 5 PLIP interactions: 5 interactions with chain E Metal complexes: E:D.19, E:D.21, E:D.23, E:E.30, E:E.30 CA.6: 5 residues within 4Å: Chain E: D.55, D.57, N.59, T.61, E.66 5 PLIP interactions: 5 interactions with chain E Metal complexes: E:D.55, E:D.57, E:D.57, E:T.61, E:E.66 CA.8: 5 residues within 4Å: Chain F: D.19, D.21, D.23, T.25, E.30 5 PLIP interactions: 5 interactions with chain F Metal complexes: F:D.21, F:D.23, F:D.23, F:T.25, F:E.30 CA.9: 6 residues within 4Å: Chain F: D.55, D.57, N.59, T.61, D.63, E.66 5 PLIP interactions: 5 interactions with chain F Metal complexes: F:D.55, F:D.57, F:T.61, F:D.63, F:E.66 CA.11: 5 residues within 4Å: Chain G: D.19, D.21, D.23, T.25, I.26 5 PLIP interactions: 5 interactions with chain G Metal complexes: G:D.19, G:D.21, G:D.23, G:T.25, G:T.25 CA.12: 5 residues within 4Å: Chain G: D.57, N.59, T.61, D.63, E.66 5 PLIP interactions: 5 interactions with chain G Metal complexes: G:D.57, G:D.57, G:T.61, G:E.66, G:E.66 CA.14: 7 residues within 4Å: Chain H: D.19, D.21, D.23, T.25, I.26, T.27, E.30 5 PLIP interactions: 5 interactions with chain H Metal complexes: H:D.19, H:D.21, H:D.23, H:E.30, H:E.30 CA.15: 5 residues within 4Å: Chain H: D.55, D.57, N.59, T.61, E.66 5 PLIP interactions: 5 interactions with chain H Metal complexes: H:D.55, H:D.57, H:T.61, H:E.66, H:E.66

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, M. et al., Structural basis for the subtype-selectivity of K Ca 2.2 channel activators. Res Sq (2025)

Release Date

2025-06-18

Peptides

Intermediate conductance calcium-activated potassium channel protein 4: ABCD
Calmodulin-1: EFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
H

Membrane

We predict this structure to be a membrane protein.
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Intermediate conductance calcium-activated potassium channel protein 4

Calmodulin-1

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