SMTL ID : 5tav.1

Structure of rabbit RyR1 (Caffeine/ATP/EGTA dataset, class 4)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-4-4-mer

Ligands

4 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.1: 8 residues within 4Å: Chain E: K.3850, R.3854, M.4333, C.4337, F.4354, H.4362, N.4363, L.4364 6 PLIP interactions: 6 interactions with chain E Hydrogen bonds: E:H.4362 Salt bridges: E:K.3850, E:K.3850, E:K.3850, E:K.3853, E:R.3854 ATP.4: 8 residues within 4Å: Chain F: K.3850, R.3854, M.4333, C.4337, F.4354, H.4362, N.4363, L.4364 6 PLIP interactions: 6 interactions with chain F Hydrogen bonds: F:H.4362 Salt bridges: F:K.3850, F:K.3850, F:K.3850, F:K.3853, F:R.3854 ATP.7: 8 residues within 4Å: Chain G: K.3850, R.3854, M.4333, C.4337, F.4354, H.4362, N.4363, L.4364 6 PLIP interactions: 6 interactions with chain G Hydrogen bonds: G:H.4362 Salt bridges: G:K.3850, G:K.3850, G:K.3850, G:K.3853, G:R.3854 ATP.10: 8 residues within 4Å: Chain H: K.3850, R.3854, M.4333, C.4337, F.4354, H.4362, N.4363, L.4364 6 PLIP interactions: 6 interactions with chain H Hydrogen bonds: H:H.4362 Salt bridges: H:K.3850, H:K.3850, H:K.3850, H:K.3853, H:R.3854

4 x CFF: CAFFEINE(Non-covalent)

CFF.2: 7 residues within 4Å: Chain E: E.3878, I.3881, F.4050, W.4095, I.4375, W.4390, Y.4393 1 PLIP interactions: 1 interactions with chain E pi-Stacking: E:W.4095 CFF.5: 7 residues within 4Å: Chain F: E.3878, I.3881, F.4050, W.4095, I.4375, W.4390, Y.4393 1 PLIP interactions: 1 interactions with chain F pi-Stacking: F:W.4095 CFF.8: 7 residues within 4Å: Chain G: E.3878, I.3881, F.4050, W.4095, I.4375, W.4390, Y.4393 1 PLIP interactions: 1 interactions with chain G pi-Stacking: G:W.4095 CFF.11: 7 residues within 4Å: Chain H: E.3878, I.3881, F.4050, W.4095, I.4375, W.4390, Y.4393 1 PLIP interactions: 1 interactions with chain H pi-Stacking: H:W.4095

4 x ZN: ZINC ION(Non-covalent)

ZN.3: 5 residues within 4Å: Chain E: C.4337, C.4340, F.4347, H.4357, H.4362 2 PLIP interactions: 2 interactions with chain E Metal complexes: E:C.4340, E:H.4362 ZN.6: 5 residues within 4Å: Chain F: C.4337, C.4340, F.4347, H.4357, H.4362 2 PLIP interactions: 2 interactions with chain F Metal complexes: F:C.4340, F:H.4362 ZN.9: 5 residues within 4Å: Chain G: C.4337, C.4340, F.4347, H.4357, H.4362 2 PLIP interactions: 2 interactions with chain G Metal complexes: G:C.4340, G:H.4362 ZN.12: 5 residues within 4Å: Chain H: C.4337, C.4340, F.4347, H.4357, H.4362 2 PLIP interactions: 2 interactions with chain H Metal complexes: H:C.4340, H:H.4362

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

des Georges, A. et al., Structural Basis for Gating and Activation of RyR1. Cell (2016)

Release Date

2016-10-12

Peptides

Peptidyl-prolyl cis-trans isomerase FKBP1B: ABCD
Ryanodine receptor 1: EFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
F

B
A

C
H

D
J

E
B

F
E

G
I

H
G

Membrane

We predict this structure to be a membrane protein.
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Peptidyl-prolyl cis-trans isomerase FKBP1B

Ryanodine receptor 1

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