cryo-EM structure of Scap/Insig complex in the present of 25-hydroxyl cholesterol.
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 6m49
Q-score: 0.335
Yan R, Cao P, Song W, Qian H, Du X, Coates HW, Zhao X, Li Y, Gao S, Gong X, Liu X, Sui J, Lei J, Yang H, Brown AJ, Zhou Q, Yan C, Yan N
Science (2021) 371 [ Pubmed: 33446483 DOI: doi:10.1126/science.abb2224 ]
- 25-hydroxycholesterol (402 Da, Ligand)
- Scap and insig complex (Complex from Homo sapiens)
- Sterol regulatory element-binding protein cleavage-activating protein,sterol regulatory element-binding protein cleavage-activating protein (63 kDa, Protein from Homo sapiens)
- Insulin-induced gene 2 protein (24 kDa, Protein from Homo sapiens)
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 6w5r
Q-score: 0.417
Qian H, Wu X, Du X, Yao X, Zhao X, Lee J, Yang H, Yan N
Cell (2020) 182 pp. 98-111.e18 [ Pubmed: 32544384 DOI: doi:10.1016/j.cell.2020.05.020 ]
- Npc1 nanodisc (150 kDa, Complex from Homo sapiens)
- Cholesterol (386 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Npc intracellular cholesterol transporter 1 (146 kDa, Protein from Homo sapiens)
NPC1 structure in GDN micelles at pH 8.0
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 6w5s
Q-score: 0.541
Qian H, Wu X, Du X, Yao X, Zhao X, Lee J, Yang H, Yan N
Cell (2020) 182 pp. 98-111.e18 [ Pubmed: 32544384 DOI: doi:10.1016/j.cell.2020.05.020 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Npc1 at ph 8.0 (150 kDa, Complex from Homo sapiens)
- Cholesterol (386 Da, Ligand)
- Npc intracellular cholesterol transporter 1 (146 kDa, Protein from Homo sapiens)
- (2s)-3-(hexadecanoyloxy)-2-[(9z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate (760 Da, Ligand)
NPC1 structure in GDN micelles at pH 5.5, conformation a
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 6w5t
Q-score: 0.421
Qian H, Wu X, Du X, Yao X, Zhao X, Lee J, Yang H, Yan N
Cell (2020) 182 pp. 98-111.e18 [ Pubmed: 32544384 DOI: doi:10.1016/j.cell.2020.05.020 ]
- Cholesterol (386 Da, Ligand)
- Npc1 in gdn micelles at ph 5.5 (150 kDa, Complex from Homo sapiens)
- Npc intracellular cholesterol transporter 1 (146 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
NPC1 structure in GDN micelles at pH 5.5, conformation b
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 6w5u
Q-score: 0.405
Qian H, Wu X, Du X, Yao X, Zhao X, Lee J, Yang H, Yan N
Cell (2020) 182 pp. 98-111.e18 [ Pubmed: 32544384 DOI: doi:10.1016/j.cell.2020.05.020 ]
- Cholesterol (386 Da, Ligand)
- Npc1 in gdn micelles at ph 5.5 (150 kDa, Complex from Homo sapiens)
- Npc intracellular cholesterol transporter 1 (146 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
NPC1-NPC2 complex structure at pH 5.5
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 6w5v
Q-score: 0.358
Qian H, Wu X, Du X, Yao X, Zhao X, Lee J, Yang H, Yan N
Cell (2020) 182 pp. 98-111.e18 [ Pubmed: 32544384 DOI: doi:10.1016/j.cell.2020.05.020 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Npc intracellular cholesterol transporter 2 (17 kDa, Protein from Homo sapiens)
- Npc1-npc2 complex at ph 5.5 (170 kDa, Complex from Homo sapiens)
- Cholesterol (386 Da, Ligand)
- Npc intracellular cholesterol transporter 1 (146 kDa, Protein from Homo sapiens)
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 6p2j
Q-score: 0.453
Qian H, Zhao X, Yan R, Yao X, Gao S, Sun X, Du X, Yang H, Wong CCL, Yan N
Nature (2020) 581 pp. 333-338 [ Pubmed: 32433614 DOI: doi:10.1038/s41586-020-2290-0 ]
- S-{(3r,5r,9r)-1-[(2r,3s,4r,5r)-5-(6-amino-9h-purin-9-yl)-4-hydroxy-3-(phosphonooxy)tetrahydrofuran-2-yl]-3,5,9-trihydroxy-8,8-dimethyl-3,5-dioxido-10,14-dioxo-2,4,6-trioxa-11,15-diaza-3lambda~5~,5lambda~5~-diphosphaheptadecan-17-yl} (9z)-octadec-9-enethioate (non-preferred name) (1 kDa, Ligand)
- Acat1 (Complex from Homo sapiens)
- Sterol o-acyltransferase 1 (69 kDa, Protein from Homo sapiens)
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 6p2p
Q-score: 0.462
Qian H, Zhao X, Yan R, Yao X, Gao S, Sun X, Du X, Yang H, Wong CCL, Yan N
Nature (2020) 581 pp. 333-338 [ Pubmed: 32433614 DOI: doi:10.1038/s41586-020-2290-0 ]
- S-{(3r,5r,9r)-1-[(2r,3s,4r,5r)-5-(6-amino-9h-purin-9-yl)-4-hydroxy-3-(phosphonooxy)tetrahydrofuran-2-yl]-3,5,9-trihydroxy-8,8-dimethyl-3,5-dioxido-10,14-dioxo-2,4,6-trioxa-11,15-diaza-3lambda~5~,5lambda~5~-diphosphaheptadecan-17-yl} (9z)-octadec-9-enethioate (non-preferred name) (1 kDa, Ligand)
- Acat1 (Complex from Homo sapiens)
- Sterol o-acyltransferase 1 (69 kDa, Protein from Homo sapiens)
Human Diacylglycerol Acyltransferase 1 in complex with oleoyl-CoA
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 6vp0
Q-score: 0.514
Wang L, Qian H, Nian Y, Han Y, Ren Z, Zhang H, Hu L, Prasad BVV, Laganowsky A, Yan N, Zhou M
Nature (2020) 581 pp. 329-332 [ DOI: doi:10.1038/s41586-020-2280-2 Pubmed: 32433610 ]
- Lauryl maltose neopentyl glycol (1 kDa, Ligand)
- O-[(r)-{[(2r)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-l-serine (792 Da, Ligand)
- Diacylglycerol o-acyltransferase 1 (55 kDa, Protein from Homo sapiens)
- Human diacylglycerol acyltransferase 1 in complex with oleoyl-coa (Complex from Homo sapiens)
- S-{(3r,5r,9r)-1-[(2r,3s,4r,5r)-5-(6-amino-9h-purin-9-yl)-4-hydroxy-3-(phosphonooxy)tetrahydrofuran-2-yl]-3,5,9-trihydroxy-8,8-dimethyl-3,5-dioxido-10,14-dioxo-2,4,6-trioxa-11,15-diaza-3lambda~5~,5lambda~5~-diphosphaheptadecan-17-yl} (9z)-octadec-9-enethioate (non-preferred name) (1 kDa, Ligand)
- (2s)-3-(hexadecanoyloxy)-2-[(9z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate (760 Da, Ligand)
Cryo-EM structure of tetrameric Ptch1 in complex with ShhNp (form I)
Resolution: 6.8 Å
EM Method: Single-particle
Fitted PDBs: 6n7g
Q-score: 0.132
Qian H, Cao P, Hu M, Gao S, Yan N, Gong X
Nat Commun (2019) 10 pp. 2320-2320 [ DOI: doi:10.1038/s41467-019-10234-9 Pubmed: 31127104 ]
- Zinc ion (65 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Patch1 (Cellular component from Homo sapiens)
- Calcium ion (40 Da, Ligand)
- Palmitic acid (256 Da, Ligand)
- Protein patched homolog 1 (150 kDa, Protein from Homo sapiens)
- Cholesterol (386 Da, Ligand)
- Sonic hedgehog protein (19 kDa, Protein from Homo sapiens)