SMTL ID : 8uq5.1

Structure of human RyR2-S2808D in the primed state in the presence of Rapamycin

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.4888, C.4891, H.4908, H.4913 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.4888, A:C.4891, A:H.4908, A:H.4913 ZN.4: 4 residues within 4Å: Chain B: C.4888, C.4891, H.4908, H.4913 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.4888, B:C.4891, B:H.4908, B:H.4913 ZN.7: 4 residues within 4Å: Chain C: C.4888, C.4891, H.4908, H.4913 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.4888, C:C.4891, C:H.4908, C:H.4913 ZN.10: 4 residues within 4Å: Chain D: C.4888, C.4891, H.4908, H.4913 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.4888, D:C.4891, D:H.4908, D:H.4913

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

ATP.2: 14 residues within 4Å: Chain A: K.4166, K.4169, R.4170, M.4884, E.4885, K.4887, C.4888, F.4889, I.4890, F.4905, T.4909, H.4913, N.4914, L.4915 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:R.4170, A:F.4889, A:H.4913, A:L.4915 Salt bridges: A:K.4166, A:K.4169, A:K.4169, A:K.4169 ATP.3: 6 residues within 4Å: Chain A: Q.927, E.928, Y.931, W.1007, R.1011, Q.1014 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.927, A:E.928, A:Q.1014, A:Q.1014 Salt bridges: A:R.1011 ATP.5: 14 residues within 4Å: Chain B: K.4166, K.4169, R.4170, M.4884, E.4885, K.4887, C.4888, F.4889, I.4890, F.4905, T.4909, H.4913, N.4914, L.4915 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:R.4170, B:F.4889, B:H.4913, B:L.4915 Salt bridges: B:K.4166, B:K.4169, B:K.4169, B:K.4169 ATP.6: 6 residues within 4Å: Chain B: Q.927, E.928, Y.931, W.1007, R.1011, Q.1014 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:Q.927, B:E.928, B:Q.1014, B:Q.1014 Salt bridges: B:R.1011 ATP.8: 14 residues within 4Å: Chain C: K.4166, K.4169, R.4170, M.4884, E.4885, K.4887, C.4888, F.4889, I.4890, F.4905, T.4909, H.4913, N.4914, L.4915 8 PLIP interactions: 8 interactions with chain C Hydrogen bonds: C:R.4170, C:F.4889, C:H.4913, C:L.4915 Salt bridges: C:K.4166, C:K.4169, C:K.4169, C:K.4169 ATP.9: 6 residues within 4Å: Chain C: Q.927, E.928, Y.931, W.1007, R.1011, Q.1014 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:Q.927, C:E.928, C:Q.1014, C:Q.1014 Salt bridges: C:R.1011 ATP.11: 14 residues within 4Å: Chain D: K.4166, K.4169, R.4170, M.4884, E.4885, K.4887, C.4888, F.4889, I.4890, F.4905, T.4909, H.4913, N.4914, L.4915 8 PLIP interactions: 8 interactions with chain D Hydrogen bonds: D:R.4170, D:F.4889, D:H.4913, D:L.4915 Salt bridges: D:K.4166, D:K.4169, D:K.4169, D:K.4169 ATP.12: 6 residues within 4Å: Chain D: Q.927, E.928, Y.931, W.1007, R.1011, Q.1014 5 PLIP interactions: 5 interactions with chain D Hydrogen bonds: D:Q.927, D:E.928, D:Q.1014, D:Q.1014 Salt bridges: D:R.1011

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Miotto, M.C. et al., Structural basis for ryanodine receptor type 2 leak in heart failure and arrhythmogenic disorders. Nat Commun (2024)

Release Date

2023-11-15

Peptides

Ryanodine receptor 2: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Ryanodine receptor 2

Related Entries With Identical Sequence