SMTL ID : 6jrr.1

Structure of RyR2 (*F/A/C/L-Ca2+ dataset)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-4-4-mer

Ligands

4 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: C.4889, C.4892, F.4899, H.4909, H.4914 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.4889, A:C.4892, A:H.4909, A:H.4914 ZN.5: 5 residues within 4Å: Chain C: C.4889, C.4892, F.4899, H.4909, H.4914 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.4889, C:C.4892, C:H.4909, C:H.4914 ZN.9: 5 residues within 4Å: Chain E: C.4889, C.4892, F.4899, H.4909, H.4914 4 PLIP interactions: 4 interactions with chain E Metal complexes: E:C.4889, E:C.4892, E:H.4909, E:H.4914 ZN.13: 5 residues within 4Å: Chain G: C.4889, C.4892, F.4899, H.4909, H.4914 4 PLIP interactions: 4 interactions with chain G Metal complexes: G:C.4889, G:C.4892, G:H.4909, G:H.4914

4 x CA: CALCIUM ION(Non-covalent)

CA.2: 4 residues within 4Å: Chain A: E.3849, E.3923, Q.3926, T.4932 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:E.3849, A:E.3849, A:E.3923, A:E.3923, A:T.4932 CA.6: 4 residues within 4Å: Chain C: E.3849, E.3923, Q.3926, T.4932 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:E.3849, C:E.3849, C:E.3923, C:E.3923, C:T.4932 CA.10: 4 residues within 4Å: Chain E: E.3849, E.3923, Q.3926, T.4932 5 PLIP interactions: 5 interactions with chain E Metal complexes: E:E.3849, E:E.3849, E:E.3923, E:E.3923, E:T.4932 CA.14: 4 residues within 4Å: Chain G: E.3849, E.3923, Q.3926, T.4932 5 PLIP interactions: 5 interactions with chain G Metal complexes: G:E.3849, G:E.3849, G:E.3923, G:E.3923, G:T.4932

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

ATP.3: 10 residues within 4Å: Chain A: K.4167, K.4170, R.4171, M.4885, K.4888, C.4889, F.4890, I.4891, T.4910, L.4916 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:F.4890, A:T.4910, A:L.4916 Salt bridges: A:K.4167, A:K.4167, A:K.4170, A:K.4170, A:K.4170, A:R.4171 ATP.7: 10 residues within 4Å: Chain C: K.4167, K.4170, R.4171, M.4885, K.4888, C.4889, F.4890, I.4891, T.4910, L.4916 9 PLIP interactions: 9 interactions with chain C Hydrogen bonds: C:F.4890, C:T.4910, C:L.4916 Salt bridges: C:K.4167, C:K.4167, C:K.4170, C:K.4170, C:K.4170, C:R.4171 ATP.11: 10 residues within 4Å: Chain E: K.4167, K.4170, R.4171, M.4885, K.4888, C.4889, F.4890, I.4891, T.4910, L.4916 9 PLIP interactions: 9 interactions with chain E Hydrogen bonds: E:F.4890, E:T.4910, E:L.4916 Salt bridges: E:K.4167, E:K.4167, E:K.4170, E:K.4170, E:K.4170, E:R.4171 ATP.15: 10 residues within 4Å: Chain G: K.4167, K.4170, R.4171, M.4885, K.4888, C.4889, F.4890, I.4891, T.4910, L.4916 9 PLIP interactions: 9 interactions with chain G Hydrogen bonds: G:F.4890, G:T.4910, G:L.4916 Salt bridges: G:K.4167, G:K.4167, G:K.4170, G:K.4170, G:K.4170, G:R.4171

4 x CFF: CAFFEINE(Non-covalent)

CFF.4: 7 residues within 4Å: Chain A: F.3715, I.4198, Q.4202, W.4646, I.4927, W.4942, Y.4945 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.4202 pi-Stacking: A:W.4646, A:W.4646, A:W.4646 CFF.8: 7 residues within 4Å: Chain C: F.3715, I.4198, Q.4202, W.4646, I.4927, W.4942, Y.4945 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:Q.4202 pi-Stacking: C:W.4646, C:W.4646, C:W.4646 CFF.12: 7 residues within 4Å: Chain E: F.3715, I.4198, Q.4202, W.4646, I.4927, W.4942, Y.4945 4 PLIP interactions: 4 interactions with chain E Hydrogen bonds: E:Q.4202 pi-Stacking: E:W.4646, E:W.4646, E:W.4646 CFF.16: 7 residues within 4Å: Chain G: F.3715, I.4198, Q.4202, W.4646, I.4927, W.4942, Y.4945 4 PLIP interactions: 4 interactions with chain G Hydrogen bonds: G:Q.4202 pi-Stacking: G:W.4646, G:W.4646, G:W.4646

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gong, D. et al., Modulation of cardiac ryanodine receptor 2 by calmodulin. Nature (2019)

Release Date

2019-07-17

Peptides

RyR2: 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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RyR2

Peptidyl-prolyl cis-trans isomerase FKBP1B

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