SMTL ID : 8x4e.1

Cryo-EM structure of Ryanodine receptor 1 (TM helix S0, 5 mM Ca2+)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-tetramer

Ligands

4 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.4958, C.4961, H.4978, H.4983 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.4958, A:C.4961, A:H.4978, A:H.4983 ZN.3: 4 residues within 4Å: Chain B: C.4958, C.4961, H.4978, H.4983 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.4958, B:C.4961, B:H.4978, B:H.4983 ZN.5: 4 residues within 4Å: Chain C: C.4958, C.4961, H.4978, H.4983 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.4958, C:C.4961, C:H.4978, C:H.4983 ZN.7: 4 residues within 4Å: Chain D: C.4958, C.4961, H.4978, H.4983 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.4958, D:C.4961, D:H.4978, D:H.4983

4 x CA: CALCIUM ION(Non-covalent)

CA.2: 4 residues within 4Å: Chain A: E.3893, E.3967, Q.3970, T.5001 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:E.3893, A:E.3967, A:E.3967, A:T.5001 CA.4: 4 residues within 4Å: Chain B: E.3893, E.3967, Q.3970, T.5001 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:E.3893, B:E.3967, B:E.3967, B:T.5001 CA.6: 4 residues within 4Å: Chain C: E.3893, E.3967, Q.3970, T.5001 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:E.3893, C:E.3967, C:E.3967, C:T.5001 CA.8: 4 residues within 4Å: Chain D: E.3893, E.3967, Q.3970, T.5001 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:E.3893, D:E.3967, D:E.3967, D:T.5001

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wei, R. et al., Structural insights into transmembrane helix S0 facilitated RyR1 channel gating by Ca 2+ /ATP. Nat Commun (2025)

Release Date

2025-03-05

Peptides

Ryanodine receptor 1: 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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Ryanodine receptor 1

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