Cryo-EM reveals cholesterol binding in the lysosomal GPCR-like protein LYCHOS
Zhao J, Shen Q, Yong X, Li X, Tian X, Sun S, Xu Z, Zhang X, Zhang L, Yang H, Shao Z, Xu H, Jiang Y, Zhang Y, Yan W
Nat Struct Mol Biol (2025) [ Pubmed: 39824976 DOI: doi:10.1038/s41594-024-01470-9 ]
- Lysosomal cholesterol signaling protein (93 kDa, Protein from Homo sapiens)
- Cholesterol (386 Da, Ligand)
- Cholesterol-bound lychos (Complex from Homo sapiens)
- Water (18 Da, Ligand)
- [(2r)-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-propan-2-yl] octadecanoate (720 Da, Ligand)
- Sodium ion (22 Da, Ligand)
Cryo-EM structure of human CHT1 in the choline bound state
Resolution: 2.35 Å
EM Method: Single-particle
Fitted PDBs: 9bfj
Q-score: 0.625
Xue J, Chen H, Wang Y, Jiang Y
Cell Discov (2024) 10 pp. 116-116 [ DOI: doi:10.1038/s41421-024-00731-7 Pubmed: 39587078 ]
- Human cht1 in the choline bound state (Cellular component from Homo sapiens)
- Choline ion (104 Da, Ligand)
- Chloride ion (35 Da, Ligand)
- High affinity choline transporter 1 (66 kDa, Protein from Homo sapiens)
- Sodium ion (22 Da, Ligand)
Cryo-EM structure of human CHT1 in the ML352 bound state
Resolution: 2.85 Å
EM Method: Single-particle
Fitted PDBs: 9bfk
Q-score: 0.542
Cryo-EM structure of human CHT1 in the HC-3 bound outward-facing state
Resolution: 3.67 Å
EM Method: Single-particle
Fitted PDBs: 9bim
Q-score: 0.472
Nematostella vectensis TRPM2 tetramer in complex with ADPRP/Ca2+
Resolution: 2.52 Å
EM Method: Single-particle
Fitted PDBs: 9jje
Q-score: 0.488
Toth B, Jiang Y, Szollosi A, Zhang Z, Csanady L
PNAS (2024) 121 pp. e2415548121-e2415548121 [ Pubmed: 39514307 DOI: doi:10.1073/pnas.2415548121 ]
- Calcium ion (40 Da, Ligand)
- Transient receptor potential cation channel subfamily m member-like 2 (176 kDa, Protein from Nematostella vectensis)
- Nvtrpm2 tetramer in complex with adprp/ca2+ (700 kDa, Complex from Nematostella vectensis)
- [(2r,3r,4r,5r)-5-(6-amino-9h-purin-9-yl)-3-hydroxy-4-(phosphonooxy)tetrahydrofuran-2-yl]methyl [(2r,3s,4r,5r)-3,4,5-trihydroxytetrahydrofuran-2-yl]methyl dihydrogen diphosphate (639 Da, Ligand)
Nematostella vectensis TRPM2 protomer in complex with ADPRP/Ca2+
Resolution: 2.65 Å
EM Method: Single-particle
Fitted PDBs: 9jjf
Q-score: 0.544
Toth B, Jiang Y, Szollosi A, Zhang Z, Csanady L
PNAS (2024) 121 pp. e2415548121-e2415548121 [ Pubmed: 39514307 DOI: doi:10.1073/pnas.2415548121 ]
- Nvtrpm2 protomer in complex with adprp/ca2+ (170 kDa, Complex from Nematostella vectensis)
- [(2r,3r,4r,5r)-5-(6-amino-9h-purin-9-yl)-3-hydroxy-4-(phosphonooxy)tetrahydrofuran-2-yl]methyl [(2r,3s,4r,5r)-3,4,5-trihydroxytetrahydrofuran-2-yl]methyl dihydrogen diphosphate (639 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Transient receptor potential cation channel subfamily m member-like 2 (176 kDa, Protein from Nematostella vectensis)
Human URAT1 bound with Uric acid
Resolution: 3.32 Å
EM Method: Single-particle
Fitted PDBs: 9jdv
Q-score: 0.344
Wu C, Zhang C, Jin S, Wang JJ, Dai A, Xu J, Zhang H, Yang X, He X, Yuan Q, Hu W, Xu Y, Wang M, Jiang Y, Yang D, Xu HE
bioRxiv (2024) [ DOI: doi:10.1101/2024.09.11.612394 ]
- Water (18 Da, Ligand)
- Solute carrier family 22 member 12 (59 kDa, Protein from Homo sapiens)
- Uric acid (168 Da, Ligand)
- Human uric acid transporter 1 with uric acid (Complex from Homo sapiens)
Human URAT1 bound with verinurad
Resolution: 3.23 Å
EM Method: Single-particle
Fitted PDBs: 9jdy
Q-score: 0.386
Wu C, Zhang C, Jin S, Wang JJ, Dai A, Xu J, Zhang H, Yang X, He X, Yuan Q, Hu W, Xu Y, Wang M, Jiang Y, Yang D, Xu HE
bioRxiv (2024) [ DOI: doi:10.1101/2024.09.11.612394 ]
- Human uric acid transportor 1 with verinurad (Complex from Homo sapiens)
- Verinurad (348 Da, Ligand)
- Solute carrier family 22 member 12 (59 kDa, Protein from Homo sapiens)
Human URAT1 bound to lesinurad
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 9jdz
Q-score: 0.361
Wu C, Zhang C, Jin S, Wang JJ, Dai A, Xu J, Zhang H, Yang X, He X, Yuan Q, Hu W, Xu Y, Wang M, Jiang Y, Yang D, Xu HE
bioRxiv (2024) [ DOI: doi:10.1101/2024.09.11.612394 ]
- Solute carrier family 22 member 12 (59 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- Human uric acid transportor 1 with lesinurad (Complex from Homo sapiens)
- Lesinurad (404 Da, Ligand)
Human URAT1 bound to benzbromarone
Resolution: 3.23 Å
EM Method: Single-particle
Fitted PDBs: 9je0
Q-score: 0.363
Wu C, Zhang C, Jin S, Wang JJ, Dai A, Xu J, Zhang H, Yang X, He X, Yuan Q, Hu W, Xu Y, Wang M, Jiang Y, Yang D, Xu HE
bioRxiv (2024) [ DOI: doi:10.1101/2024.09.11.612394 ]
- Solute carrier family 22 member 12 (59 kDa, Protein from Homo sapiens)
- Human uric acid transporter 1 with benzbromarone (Complex from Homo sapiens)
- Water (18 Da, Ligand)
- [3,5-bis(bromanyl)-4-oxidanyl-phenyl]-(2-ethyl-1-benzofuran-3-yl)methanone (424 Da, Ligand)