Resolution: 3.34 Å
EM Method: Single-particle
Fitted PDBs: 9cgp
Q-score: 0.408
Iyer KA, Kobayashi T, Murayama T, Samso M
Structure (2025) 33 pp. 338-348.e4 [ Pubmed: 39708816 DOI: doi:10.1016/j.str.2024.11.018 ]
- Zinc ion (65 Da, Ligand)
- Ryr1 disease mutant y523s with fkbp12.6, nanodisc and inhibitor dantrolene in the absence of calcium with refined p1 domain (2 MDa, Complex from Oryctolagus cuniculus)
- Peptidyl-prolyl cis-trans isomerase fkbp1b (11 kDa, Protein from Homo sapiens)
- Dantrolene (314 Da, Ligand)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Ryanodine receptor 1 (565 kDa, Protein from Oryctolagus cuniculus)
Resolution: 3.23 Å
EM Method: Single-particle
Fitted PDBs: 9cgq
Q-score: 0.463
Iyer KA, Kobayashi T, Murayama T, Samso M
To Be Published
- Zinc ion (65 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Peptidyl-prolyl cis-trans isomerase fkbp1b (11 kDa, Protein from Homo sapiens)
- Dantrolene (314 Da, Ligand)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Ryanodine receptor 1 (565 kDa, Protein from Oryctolagus cuniculus)
- Ryr1 disease mutant y523s with fkbp12.6, nanodisc and inhibitor dantrolene in the presence of activating calcium with refined p1 domain (2 MDa, Complex from Oryctolagus cuniculus)
Cryo-EM structure of rabbit RyR1 in the presence of high Mg2+ and AMP-PCP in nanodisc
Resolution: 3.09 Å
EM Method: Single-particle
Fitted PDBs: 7umz
Q-score: 0.381
Nayak AR, Rangubpit W, Will AH, Hu Y, Castro-Hartmann P, Lobo JJ, Dryden K, Lamb GD, Sompornpisut P, Samso M
Nat Commun (2024) 15 pp. 4115- [ DOI: doi:10.1038/s41467-024-48292-3 ]
- Rabbit ryr1 with amp-pcp and inhibiting mg2+ (2 MDa, Complex from Oryctolagus cuniculus)
- Zinc ion (65 Da, Ligand)
- Phosphomethylphosphonic acid adenylate ester (505 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Ryanodine receptor 1 (542 kDa, Protein from Oryctolagus cuniculus)
- 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine (760 Da, Ligand)
- Water (18 Da, Ligand)
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 7t64
Q-score: 0.306
Iyer KA, Hu Y, Klose T, Murayama T, Samso M
PNAS (2022) 119 pp. e2122140119-e2122140119 [ DOI: doi:10.1073/pnas.2122140119 Pubmed: 35867837 ]
- Rabbit ryr1 disease mutant y523s in complex with fkbp12.6 embedded in lipidic nanodisc in the closed state (2 MDa, Complex)
- Ryanodine receptor 1 (565 kDa, Protein from Oryctolagus cuniculus)
- Zinc ion (65 Da, Ligand)
- Peptidyl-prolyl cis-trans isomerase fkbp1b (11 kDa, Protein from Homo sapiens)
Resolution: 4.05 Å
EM Method: Single-particle
Fitted PDBs: 7t65
Q-score: 0.348
Iyer KA, Hu Y, Klose T, Murayama T, Samso M
PNAS (2022) 119 pp. e2122140119-e2122140119 [ DOI: doi:10.1073/pnas.2122140119 Pubmed: 35867837 ]
- Zinc ion (65 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Peptidyl-prolyl cis-trans isomerase fkbp1b (11 kDa, Protein from Homo sapiens)
- Rabbit ryr1 disease mutant y523s in complex with fkbp12.6 embedded in lipidic nanodisc in the open state (2 MDa, Complex)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Ryanodine receptor 1 (565 kDa, Protein from Oryctolagus cuniculus)
Rabbit RyR1 with AMP-PCP and high Ca2+ embedded in nanodisc in inactivated conformation (Dataset-A)
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 7tdg
Q-score: 0.386
eLife (2022) 11 [ Pubmed: 35257661 DOI: doi:10.7554/eLife.75568 ]
- Ryanodine receptor 1,ryr1 (533 kDa, Protein from Oryctolagus cuniculus)
- Zinc ion (65 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Rabbit ryr1 with amp-pcp and high ca2+ in nanodisc (2 MDa, Complex from Oryctolagus cuniculus)
- Phosphomethylphosphonic acid adenylate ester (505 Da, Ligand)
- (2s)-3-(hexadecanoyloxy)-2-[(9z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate (760 Da, Ligand)
Rabbit RyR1 with AMP-PCP and high Ca2+ embedded in nanodisc in open conformation
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 7tdh
Q-score: 0.215
eLife (2022) 11 [ Pubmed: 35257661 DOI: doi:10.7554/eLife.75568 ]
- Zinc ion (65 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Rabbit ryr1 with amp-pcp and high ca2+ in nanodisc (2 MDa, Complex from Oryctolagus cuniculus)
- Ryanodine receptor 1,ryanodine receptor 1,ryr1 (533 kDa, Protein from Oryctolagus cuniculus)
- Phosphomethylphosphonic acid adenylate ester (505 Da, Ligand)
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7tdi
Q-score: 0.332
eLife (2022) 11 [ Pubmed: 35257661 DOI: doi:10.7554/eLife.75568 ]
- Zinc ion (65 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Rabbit ryr1 with amp-pcp and high ca2+ in nanodisc (2 MDa, Complex from Oryctolagus cuniculus)
- Ryanodine receptor 1,ryanodine receptor 1,ryr1 (533 kDa, Protein from Oryctolagus cuniculus)
- Phosphomethylphosphonic acid adenylate ester (505 Da, Ligand)
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 7tdj
Q-score: 0.365
eLife (2022) 11 [ Pubmed: 35257661 DOI: doi:10.7554/eLife.75568 ]
- Zinc ion (65 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Rabbit ryr1 with amp-pcp and high ca2+ in nanodisc (2 MDa, Complex from Oryctolagus cuniculus)
- Ryanodine receptor 1,ryanodine receptor 1,ryr1 (533 kDa, Protein from Oryctolagus cuniculus)
- Phosphomethylphosphonic acid adenylate ester (505 Da, Ligand)
- Water (18 Da, Ligand)
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 7tdk
Q-score: 0.357
eLife (2022) 11 [ Pubmed: 35257661 DOI: doi:10.7554/eLife.75568 ]
- Zinc ion (65 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Rabbit ryr1 with amp-pcp and high ca2+ in nanodisc (2 MDa, Complex from Oryctolagus cuniculus)
- Ryanodine receptor 1,ryanodine receptor 1,ryr1 (533 kDa, Protein from Oryctolagus cuniculus)
- Phosphomethylphosphonic acid adenylate ester (505 Da, Ligand)