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 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- Nicastrin (78 kDa, Protein from Homo sapiens)
- Gamma-secretase subunit pen-2 (12 kDa, Protein from Homo sapiens)
- Gamma-secretase subunit aph-1a (29 kDa, Protein from Homo sapiens)
- Presenilin-1 ctf12 (52 kDa, Protein from Homo sapiens)
- Human gamma-secretase treated with ganglioside gm1 (Complex from Homo sapiens)
- Cholesterol (386 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 ]
- Ps1-containing gamma-secretase in complex with mrk-560 (Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- Nicastrin (78 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)
- Gamma-secretase subunit pen-2 (12 kDa, Protein from Homo sapiens)
- Gamma-secretase subunit aph-1a (29 kDa, Protein from Homo sapiens)
- Presenilin-1 (52 kDa, Protein from Homo sapiens)
- Cholesterol (386 Da, Ligand)
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 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- Nicastrin (78 kDa, Protein from Homo sapiens)
- Presenilin-2 (50 kDa, Protein from Homo sapiens)
- Gamma-secretase subunit pen-2 (12 kDa, Protein from Homo sapiens)
- Gamma-secretase subunit aph-1a (29 kDa, Protein from Homo sapiens)
- Cholesterol (386 Da, Ligand)
- Ps2-containing gamma-secretase complex treated with mrk-560 (Complex from Homo sapiens)
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 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- Nicastrin (78 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)
- Gamma-secretase subunit aph-1a (29 kDa, Protein from Homo sapiens)
- Cholesterol (386 Da, Ligand)
SARS-CoV-2 BA.2 variant spike protein in complex with Fab BD55-5840
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 7x6a
Q-score: 0.356
Cao Y, Yisimayi A, Jian F, Song W, Xiao T, Wang L, Du S, Wang J, Li Q, Chen X, Yu Y, Wang P, Zhang Z, Liu P, An R, Hao X, Wang Y, Wang J, Feng R, Sun H, Zhao L, Zhang W, Zhao D, Zheng J, Yu L, Li C, Zhang N, Wang R, Niu X, Yang S, Song X, Chai Y, Hu Y, Shi Y, Zheng L, Li Z, Gu Q, Shao F, Huang W, Jin R, Shen Z, Wang Y, Wang X, Xiao J, Xie XS
Nature (2022) 608 pp. 593-602 [ DOI: doi:10.1038/s41586-022-04980-y Pubmed: 35714668 ]
- Fab bd55-5840 (Complex)
- Heavy chain of fab bd55-5840 (13 kDa, Protein from Homo sapiens)
- Light chain of fab bd55-5840 (11 kDa, Protein from Homo sapiens)
- Sars-cov-2 ba.2 variant spike protein in complex with fab bd55-5840 (Complex from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 ba.2 variant spike protein (Complex from Homo sapiens)
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
SARS-CoV-2 Omicron BA.2 variant spike (state 1)
Resolution: 3.62 Å
EM Method: Single-particle
Fitted PDBs: 7xiw
Q-score: 0.316
Cao Y, Yisimayi A, Jian F, Song W, Xiao T, Wang L, Du S, Wang J, Li Q, Chen X, Yu Y, Wang P, Zhang Z, Liu P, An R, Hao X, Wang Y, Wang J, Feng R, Sun H, Zhao L, Zhang W, Zhao D, Zheng J, Yu L, Li C, Zhang N, Wang R, Niu X, Yang S, Song X, Chai Y, Hu Y, Shi Y, Zheng L, Li Z, Gu Q, Shao F, Huang W, Jin R, Shen Z, Wang Y, Wang X, Xiao J, Xie XS
Nature (2022) 608 pp. 593-602 [ DOI: doi:10.1038/s41586-022-04980-y Pubmed: 35714668 ]
SARS-CoV-2 Omicron BA.2 variant spike (state 2)
Resolution: 3.25 Å
EM Method: Single-particle
Fitted PDBs: 7xix
Q-score: 0.505
Cao Y, Yisimayi A, Jian F, Song W, Xiao T, Wang L, Du S, Wang J, Li Q, Chen X, Yu Y, Wang P, Zhang Z, Liu P, An R, Hao X, Wang Y, Wang J, Feng R, Sun H, Zhao L, Zhang W, Zhao D, Zheng J, Yu L, Li C, Zhang N, Wang R, Niu X, Yang S, Song X, Chai Y, Hu Y, Shi Y, Zheng L, Li Z, Gu Q, Shao F, Huang W, Jin R, Shen Z, Wang Y, Wang X, Xiao J, Xie XS
Nature (2022) 608 pp. 593-602 [ DOI: doi:10.1038/s41586-022-04980-y Pubmed: 35714668 ]
SARS-CoV-2 Omicron BA.3 variant spike
Resolution: 3.07 Å
EM Method: Single-particle
Fitted PDBs: 7xiy
Q-score: 0.359
Cao Y, Yisimayi A, Jian F, Song W, Xiao T, Wang L, Du S, Wang J, Li Q, Chen X, Yu Y, Wang P, Zhang Z, Liu P, An R, Hao X, Wang Y, Wang J, Feng R, Sun H, Zhao L, Zhang W, Zhao D, Zheng J, Yu L, Li C, Zhang N, Wang R, Niu X, Yang S, Song X, Chai Y, Hu Y, Shi Y, Zheng L, Li Z, Gu Q, Shao F, Huang W, Jin R, Shen Z, Wang Y, Wang X, Xiao J, Xie XS
Nature (2022) 608 pp. 593-602 [ DOI: doi:10.1038/s41586-022-04980-y Pubmed: 35714668 ]
SARS-CoV-2 Omicron BA.3 variant spike (local)
Resolution: 3.74 Å
EM Method: Single-particle
Fitted PDBs: 7xiz
Q-score: 0.392
Cao Y, Yisimayi A, Jian F, Song W, Xiao T, Wang L, Du S, Wang J, Li Q, Chen X, Yu Y, Wang P, Zhang Z, Liu P, An R, Hao X, Wang Y, Wang J, Feng R, Sun H, Zhao L, Zhang W, Zhao D, Zheng J, Yu L, Li C, Zhang N, Wang R, Niu X, Yang S, Song X, Chai Y, Hu Y, Shi Y, Zheng L, Li Z, Gu Q, Shao F, Huang W, Jin R, Shen Z, Wang Y, Wang X, Xiao J, Xie XS
Nature (2022) 608 pp. 593-602 [ DOI: doi:10.1038/s41586-022-04980-y Pubmed: 35714668 ]
SARS-CoV-2 Omicron BA.4 variant spike
Resolution: 3.52 Å
EM Method: Single-particle
Fitted PDBs: 7xnq
Q-score: 0.369
Cao Y, Yisimayi A, Jian F, Song W, Xiao T, Wang L, Du S, Wang J, Li Q, Chen X, Yu Y, Wang P, Zhang Z, Liu P, An R, Hao X, Wang Y, Wang J, Feng R, Sun H, Zhao L, Zhang W, Zhao D, Zheng J, Yu L, Li C, Zhang N, Wang R, Niu X, Yang S, Song X, Chai Y, Hu Y, Shi Y, Zheng L, Li Z, Gu Q, Shao F, Huang W, Jin R, Shen Z, Wang Y, Wang X, Xiao J, Xie XS
Nature (2022) 608 pp. 593-602 [ DOI: doi:10.1038/s41586-022-04980-y Pubmed: 35714668 ]