SMTL ID : 8s8z.1

Cryo-EM structure of octameric human CALHM1 (I109W) in complex with ruthenium red

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-octamer

Ligands

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

POV.1: 17 residues within 4Å: Chain A: F.19, N.21, Q.105, L.108, W.109, V.112, V.113, A.116, V.117, V.192, T.195, T.196, L.198, A.199, R.203 Chain H: M.34, M.71 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:W.109 Salt bridges: A:R.203 POV.2: 17 residues within 4Å: Chain A: M.34, M.71 Chain B: F.19, N.21, Q.105, L.108, W.109, V.112, V.113, A.116, V.117, V.192, T.195, T.196, L.198, A.199, R.203 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:W.109 Salt bridges: B:R.203 POV.4: 17 residues within 4Å: Chain B: M.34, M.71 Chain C: F.19, N.21, Q.105, L.108, W.109, V.112, V.113, A.116, V.117, V.192, T.195, T.196, L.198, A.199, R.203 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:W.109 Salt bridges: C:R.203 POV.5: 17 residues within 4Å: Chain C: M.34, M.71 Chain D: F.19, N.21, Q.105, L.108, W.109, V.112, V.113, A.116, V.117, V.192, T.195, T.196, L.198, A.199, R.203 2 PLIP interactions: 2 interactions with chain D Hydrophobic interactions: D:W.109 Salt bridges: D:R.203 POV.6: 17 residues within 4Å: Chain D: M.34, M.71 Chain E: F.19, N.21, Q.105, L.108, W.109, V.112, V.113, A.116, V.117, V.192, T.195, T.196, L.198, A.199, R.203 2 PLIP interactions: 2 interactions with chain E Hydrophobic interactions: E:W.109 Salt bridges: E:R.203 POV.7: 17 residues within 4Å: Chain E: M.34, M.71 Chain F: F.19, N.21, Q.105, L.108, W.109, V.112, V.113, A.116, V.117, V.192, T.195, T.196, L.198, A.199, R.203 2 PLIP interactions: 2 interactions with chain F Hydrophobic interactions: F:W.109 Salt bridges: F:R.203 POV.8: 17 residues within 4Å: Chain F: M.34, M.71 Chain G: F.19, N.21, Q.105, L.108, W.109, V.112, V.113, A.116, V.117, V.192, T.195, T.196, L.198, A.199, R.203 2 PLIP interactions: 2 interactions with chain G Hydrophobic interactions: G:W.109 Salt bridges: G:R.203 POV.9: 17 residues within 4Å: Chain G: M.34, M.71 Chain H: F.19, N.21, Q.105, L.108, W.109, V.112, V.113, A.116, V.117, V.192, T.195, T.196, L.198, A.199, R.203 2 PLIP interactions: 2 interactions with chain H Hydrophobic interactions: H:W.109 Salt bridges: H:R.203

1 x R2R: ruthenium(6+) azanide pentaamino(oxido)ruthenium (1/4/2)(Non-functional Binders)

R2R.3: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Syrjanen, J.L. et al., Structure of human CALHM1 reveals key locations for channel regulation and blockade by ruthenium red. Nat Commun (2023)

Release Date

2023-07-26

Peptides

Calcium homeostasis modulator protein 1: ABCDEFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

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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Calcium homeostasis modulator protein 1

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