Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 8oqy
Q-score: 0.473
To Be Published
- Presenilin-1 ctf12 (52 kDa, Protein from Homo sapiens)
- Gamma secretase (172 kDa, Complex from Homo sapiens)
- Nicastrin (79 kDa, Protein from Homo sapiens)
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- Gamma-secretase subunit pen-2 (12 kDa, Protein from Homo sapiens)
- Gamma-secretase subunit aph-1b (28 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8oqz
Q-score: 0.496
To Be Published
- Gamma secretase (172 kDa, Complex from Homo sapiens)
- Nicastrin (79 kDa, Protein from Homo sapiens)
- Amyloid-beta peptide 1-46 (5 kDa, Protein from Homo sapiens)
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- Gamma-secretase subunit pen-2 (12 kDa, Protein from Homo sapiens)
- Presenilin-1 ctf12 (52 kDa, Protein from Homo sapiens)
- Gamma-secretase subunit aph-1b (28 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Human gamma-secretase in complex with a substrate mimetic
Resolution: 2.6 Å
EM Method: Single-particle
Fitted PDBs: 8k8e
Q-score: 0.554
Devkota S, Zhou R, Nagarajan V, Maesako M, Do H, Noorani A, Overmeyer C, Bhattarai S, Douglas JT, Saraf A, Miao Y, Ackley BD, Shi Y, Wolfe MS
Cell Rep (2024) 43 pp. 113761-113761 [ Pubmed: 38349793 DOI: doi:10.1016/j.celrep.2024.113761 ]
- Cholesterol (386 Da, Ligand)
- Presenilin-1 (52 kDa, Protein from Homo sapiens)
- Gamma-secretase subunit aph-1a (29 kDa, Protein from Homo sapiens)
- Gamma-secretase subunit pen-2 (12 kDa, Protein from Homo sapiens)
- Human gamma-secretase (Complex from Homo sapiens)
- Boc-val-gly-aib-val-val-ile-aib-phe-val-aib-gly-gly-gly-val-juu-leu-vlm (1 kDa, Protein from synthetic construct)
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- Nicastrin (78 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Human gamma-secretase treated with ganglioside GM1
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8im7
Q-score: 0.483
Wang X, Zhou R, Sun X, Li J, Wang J, Yue W, Wang L, Liu H, Shi Y, Zhang D
Adv Sci (2023) 10 pp. e2303411-e2303411 [ DOI: doi:10.1002/advs.202303411 Pubmed: 37759382 ]
- Cholesterol (386 Da, Ligand)
- Presenilin-1 ctf12 (52 kDa, Protein from Homo sapiens)
- Gamma-secretase subunit aph-1a (29 kDa, Protein from Homo sapiens)
- Human gamma-secretase treated with ganglioside gm1 (Complex from Homo sapiens)
- Gamma-secretase subunit pen-2 (12 kDa, Protein from Homo sapiens)
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- Nicastrin (78 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
CryoEM structure of PS1-containing gamma-secretase in complex with MRK-560
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 7y5t
Q-score: 0.56
Guo X, Wang Y, Zhou J, Jin C, Wang J, Jia B, Jing D, Yan C, Lei J, Zhou R, Shi Y
Nat Commun (2022) 13 pp. 6299-6299 [ Pubmed: 36272978 DOI: doi:10.1038/s41467-022-33817-5 ]
- Cholesterol (386 Da, Ligand)
- Presenilin-1 (52 kDa, Protein from Homo sapiens)
- Gamma-secretase subunit aph-1a (29 kDa, Protein from Homo sapiens)
- Gamma-secretase subunit pen-2 (12 kDa, Protein from Homo sapiens)
- ~{n}-[4-[2,5-bis(fluoranyl)phenyl]-4-(4-chlorophenyl)sulfonyl-cyclohexyl]-1,1,1-tris(fluoranyl)methanesulfonamide (517 Da, Ligand)
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- Nicastrin (78 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Ps1-containing gamma-secretase in complex with mrk-560 (Complex from Homo sapiens)
CryoEM structure of PS2-containing gamma-secretase treated with MRK-560
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 7y5x
Q-score: 0.532
Guo X, Wang Y, Zhou J, Jin C, Wang J, Jia B, Jing D, Yan C, Lei J, Zhou R, Shi Y
Nat Commun (2022) 13 pp. 6299-6299 [ Pubmed: 36272978 DOI: doi:10.1038/s41467-022-33817-5 ]
- Cholesterol (386 Da, Ligand)
- Gamma-secretase subunit aph-1a (29 kDa, Protein from Homo sapiens)
- Gamma-secretase subunit pen-2 (12 kDa, Protein from Homo sapiens)
- Presenilin-2 (50 kDa, Protein from Homo sapiens)
- Ps2-containing gamma-secretase complex treated with mrk-560 (Complex from Homo sapiens)
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- Nicastrin (78 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
CryoEM structure of human PS2-containing gamma-secretase
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 7y5z
Q-score: 0.476
Guo X, Wang Y, Zhou J, Jin C, Wang J, Jia B, Jing D, Yan C, Lei J, Zhou R, Shi Y
Nat Commun (2022) 13 pp. 6299-6299 [ Pubmed: 36272978 DOI: doi:10.1038/s41467-022-33817-5 ]
- Cholesterol (386 Da, Ligand)
- Gamma-secretase subunit aph-1a (29 kDa, Protein from Homo sapiens)
- Human ps2-containing gamma-secretase (Complex from Homo sapiens)
- Gamma-secretase subunit pen-2 (12 kDa, Protein from Homo sapiens)
- Presenilin-2 (50 kDa, Protein from Homo sapiens)
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- Nicastrin (78 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Human gamma-secretase in complex with small molecule Avagacestat
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 6lqg
Q-score: 0.538
Yang G, Zhou R, Guo X, Yan C, Lei J, Shi Y
Cell (2021) 184 pp. 521-533.e14 [ DOI: doi:10.1016/j.cell.2020.11.049 Pubmed: 33373587 ]
- Cholesterol (386 Da, Ligand)
- Presenilin-1 (52 kDa, Protein from Homo sapiens)
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- Gamma-secretase subunit aph-1a (29 kDa, Protein from Homo sapiens)
- Human gamma-secretase (Complex from Homo sapiens)
- (2r)-2-[(4-chlorophenyl)sulfonyl-[[2-fluoranyl-4-(1,2,4-oxadiazol-3-yl)phenyl]methyl]amino]-5,5,5-tris(fluoranyl)pentanamide (520 Da, Ligand)
- Gamma-secretase subunit pen-2 (16 kDa, Protein from Homo sapiens)
- Nicastrin (78 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Molecular basis for inhibition of human gamma-secretase by small molecule
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 6lr4
Q-score: 0.551
Yang G, Zhou R, Guo X, Yan C, Lei J, Shi Y
Cell (2021) 184 pp. 521-533.e14 [ DOI: doi:10.1016/j.cell.2020.11.049 Pubmed: 33373587 ]
- Cholesterol (386 Da, Ligand)
- Presenilin-1 (52 kDa, Protein from Homo sapiens)
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- Gamma-secretase subunit aph-1a (29 kDa, Protein from Homo sapiens)
- Human gamma-secretase (Complex from Homo sapiens)
- (2s)-2-hydroxy-3-methyl-n-[(2s)-1-[[(5s)-3-methyl-4-oxo-2,5-dihydro-1h-3-benzazepin-5-yl]amino]-1-oxopropan-2-yl]butanamide (361 Da, Ligand)
- Gamma-secretase subunit pen-2 (16 kDa, Protein from Homo sapiens)
- Nicastrin (78 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Human gamma-secretase in complex with small molecule L-685,458
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 7c9i
Q-score: 0.55
Yang G, Zhou R, Guo X, Yan C, Lei J, Shi Y
Cell (2021) 184 pp. 521-533.e14 [ DOI: doi:10.1016/j.cell.2020.11.049 Pubmed: 33373587 ]
- Cholesterol (386 Da, Ligand)
- Presenilin-1 (52 kDa, Protein from Homo sapiens)
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- Gamma-secretase subunit aph-1a (29 kDa, Protein from Homo sapiens)
- Human gamma-secretase (Complex from Homo sapiens)
- ~{tert}-butyl ~{n}-[(2~{s},3~{r},5~{r})-6-[[(2~{s})-1-[[(2~{s})-1-azanyl-1-oxidanylidene-3-phenyl-propan-2-yl]amino]-4-methyl-1-oxidanylidene-pentan-2-yl]amino]-3-oxidanyl-6-oxidanylidene-1-phenyl-5-(phenylmethyl)hexan-2-yl]carbamate (672 Da, Ligand)
- Gamma-secretase subunit pen-2 (16 kDa, Protein from Homo sapiens)
- Nicastrin (78 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)