SMTL ID : 9o85.1

Cryo-EM structure of KCa2.2_I/calmodulin channel in complex with rimtuzalcap

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY 3.13 Å

Oligo State

hetero-4-4-mer

Ligands

3 x K: POTASSIUM ION(Non-covalent)(Non-functional Binders)

K.1: 8 residues within 4Å: Chain A: S.239, I.240 Chain B: S.239, I.240 Chain C: S.239, I.240 Chain D: S.239, I.240 4 PLIP interactions: 1 interactions with chain C, 1 interactions with chain A, 1 interactions with chain D, 1 interactions with chain B Metal complexes: C:S.239, A:S.239, D:S.239, B:S.239 K.2: 4 residues within 4Å: Chain A: S.239 Chain B: S.239 Chain C: S.239 Chain D: S.239 No protein-ligand interaction detected (PLIP) K.3: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

4 x 01: N-(4,4-difluorocyclohexyl)-2-(3-methyl-1H-pyrazol-1-yl)-6-(morpholin-4-yl)pyrimidin-4-amine

01.4: 9 residues within 4Å: Chain B: H.286 Chain C: I.169, L.172, N.173 Chain E: I.24, L.36, V.52, F.65, M.68 4 PLIP interactions: 2 interactions with chain C, 2 interactions with chain E Hydrophobic interactions: C:I.169, E:L.36, E:F.65 Hydrogen bonds: C:N.173 01.5: 10 residues within 4Å: Chain C: H.286 Chain D: I.169, L.172, N.173 Chain F: M.33, L.36, V.52, I.60, F.65, M.68 3 PLIP interactions: 2 interactions with chain D, 1 interactions with chain F Hydrophobic interactions: D:I.169, F:L.36 Hydrogen bonds: D:N.173 01.10: 11 residues within 4Å: Chain A: I.169, L.172, N.173 Chain D: H.286 Chain G: I.24, M.33, L.36, V.52, I.60, F.65, M.68 5 PLIP interactions: 3 interactions with chain G, 2 interactions with chain A Hydrophobic interactions: G:L.36, G:V.52, G:F.65, A:I.169 Hydrogen bonds: A:N.173 01.13: 10 residues within 4Å: Chain A: H.286 Chain B: L.172, N.173 Chain H: L.29, L.36, M.48, V.52, I.60, F.65, M.68 5 PLIP interactions: 4 interactions with chain H, 1 interactions with chain B Hydrophobic interactions: H:L.29, H:L.36, H:V.52, H:F.65 Hydrogen bonds: B:N.173

8 x CA: CALCIUM ION(Non-covalent)

CA.6: 6 residues within 4Å: Chain E: D.17, K.18, G.20, D.21, T.23, E.28 5 PLIP interactions: 5 interactions with chain E Metal complexes: E:D.17, E:K.18, E:D.21, E:E.28, E:E.28 CA.7: 6 residues within 4Å: Chain E: D.53, D.55, N.57, T.59, D.61, E.64 5 PLIP interactions: 5 interactions with chain E Metal complexes: E:D.53, E:D.55, E:T.59, E:E.64, E:E.64 CA.8: 5 residues within 4Å: Chain F: D.17, G.20, D.21, T.23, E.28 5 PLIP interactions: 5 interactions with chain F Metal complexes: F:G.20, F:D.21, F:T.23, F:E.28, F:E.28 CA.9: 6 residues within 4Å: Chain F: D.53, A.54, D.55, N.57, T.59, E.64 4 PLIP interactions: 4 interactions with chain F Metal complexes: F:D.53, F:T.59, F:E.64, F:E.64 CA.11: 4 residues within 4Å: Chain G: D.17, G.20, T.23, E.28 5 PLIP interactions: 5 interactions with chain G Metal complexes: G:G.20, G:T.23, G:T.23, G:E.28, G:E.28 CA.12: 5 residues within 4Å: Chain G: D.53, D.55, N.57, T.59, E.64 5 PLIP interactions: 5 interactions with chain G Metal complexes: G:D.53, G:D.55, G:N.57, G:T.59, G:E.64 CA.14: 4 residues within 4Å: Chain H: D.17, D.21, T.23, E.28 5 PLIP interactions: 5 interactions with chain H Metal complexes: H:D.17, H:D.21, H:T.23, H:T.23, H:E.28 CA.15: 7 residues within 4Å: Chain H: D.53, D.55, N.57, T.59, I.60, D.61, E.64 5 PLIP interactions: 5 interactions with chain H Metal complexes: H:D.53, H:D.55, H:T.59, H:D.61, H:E.64

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, M. et al., Structural basis for the subtype-selectivity of KCa2.2 channel activators. Res Sq (2025)

Release Date

2025-06-18

Peptides

Small conductance calcium-activated potassium channel protein 2: 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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Small conductance calcium-activated potassium channel protein 2

Calmodulin-1

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