SMTL ID : 7cf9.1

Structure of RyR1 (Ca2+/CHL)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-4-4-mer

Ligands

4 x CA: CALCIUM ION(Non-covalent)

CA.1: 3 residues within 4Å: Chain A: E.3893, E.3967, T.5001 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:E.3893, A:E.3893, A:E.3967, A:T.5001 CA.4: 3 residues within 4Å: Chain C: E.3893, E.3967, T.5001 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:E.3893, C:E.3893, C:E.3967, C:T.5001 CA.7: 3 residues within 4Å: Chain E: E.3893, E.3967, T.5001 4 PLIP interactions: 4 interactions with chain E Metal complexes: E:E.3893, E:E.3893, E:E.3967, E:T.5001 CA.10: 3 residues within 4Å: Chain G: E.3893, E.3967, T.5001 4 PLIP interactions: 4 interactions with chain G Metal complexes: G:E.3893, G:E.3893, G:E.3967, G:T.5001

4 x ZN: ZINC ION(Non-covalent)

ZN.2: 5 residues within 4Å: Chain A: C.4958, C.4961, H.4978, H.4983, C.5027 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:C.4958, A:H.4978, A:H.4983 ZN.5: 5 residues within 4Å: Chain C: C.4958, C.4961, H.4978, H.4983, C.5027 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:C.4958, C:H.4978, C:H.4983 ZN.8: 5 residues within 4Å: Chain E: C.4958, C.4961, H.4978, H.4983, C.5027 3 PLIP interactions: 3 interactions with chain E Metal complexes: E:C.4958, E:H.4978, E:H.4983 ZN.11: 5 residues within 4Å: Chain G: C.4958, C.4961, H.4978, H.4983, C.5027 3 PLIP interactions: 3 interactions with chain G Metal complexes: G:C.4958, G:H.4978, G:H.4983

4 x F0U: 5-bromanyl-N-[4-chloranyl-2-methyl-6-(methylcarbamoyl)phenyl]-2-(3-chloranylpyridin-2-yl)pyrazole-3-carboxamide(Non-covalent)

F0U.3: 12 residues within 4Å: Chain A: Y.4560, R.4563, F.4564, L.4567, C.4657, Y.4791, L.4792, Y.4795, D.4815, M.4818, G.4819, V.4820 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:Y.4560, A:R.4563, A:L.4567, A:L.4567, A:L.4792, A:Y.4795 Hydrogen bonds: A:R.4563, A:Y.4791, A:D.4815, A:D.4815 pi-Cation interactions: A:R.4563 F0U.6: 12 residues within 4Å: Chain C: Y.4560, R.4563, F.4564, L.4567, C.4657, Y.4791, L.4792, Y.4795, D.4815, M.4818, G.4819, V.4820 11 PLIP interactions: 11 interactions with chain C Hydrophobic interactions: C:Y.4560, C:R.4563, C:L.4567, C:L.4567, C:L.4792, C:Y.4795 Hydrogen bonds: C:R.4563, C:Y.4791, C:D.4815, C:D.4815 pi-Cation interactions: C:R.4563 F0U.9: 12 residues within 4Å: Chain E: Y.4560, R.4563, F.4564, L.4567, C.4657, Y.4791, L.4792, Y.4795, D.4815, M.4818, G.4819, V.4820 11 PLIP interactions: 11 interactions with chain E Hydrophobic interactions: E:Y.4560, E:R.4563, E:L.4567, E:L.4567, E:L.4792, E:Y.4795 Hydrogen bonds: E:R.4563, E:Y.4791, E:D.4815, E:D.4815 pi-Cation interactions: E:R.4563 F0U.12: 12 residues within 4Å: Chain G: Y.4560, R.4563, F.4564, L.4567, C.4657, Y.4791, L.4792, Y.4795, D.4815, M.4818, G.4819, V.4820 11 PLIP interactions: 11 interactions with chain G Hydrophobic interactions: G:Y.4560, G:R.4563, G:L.4567, G:L.4567, G:L.4792, G:Y.4795 Hydrogen bonds: G:R.4563, G:Y.4791, G:D.4815, G:D.4815 pi-Cation interactions: G:R.4563

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ma, R. et al., Structural basis for diamide modulation of ryanodine receptor. Nat.Chem.Biol. (2020)

Release Date

2020-09-02

Peptides

Ryanodine receptor 1,RyR1: ACEG
Peptidyl-prolyl cis-trans isomerase FKBP1B: BDFH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

E
E

G
G

B
B

D
D

F
F

H
H

Membrane

We predict this structure to be a membrane protein.
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Ryanodine receptor 1,RyR1

Peptidyl-prolyl cis-trans isomerase FKBP1B

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