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 ]
- Water (18 Da, Ligand)
- Sodium ion (22 Da, Ligand)
- Lysosomal cholesterol signaling protein (93 kDa, Protein from Homo sapiens)
- Cholesterol-bound lychos (Complex from Homo sapiens)
- [(2r)-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-propan-2-yl] octadecanoate (720 Da, Ligand)
- Cholesterol (386 Da, Ligand)
BA.2.86 RBD protein in complex with ACE2.
Resolution: 3.29 Å
EM Method: Single-particle
Fitted PDBs: 8yzb
Q-score: 0.477
Liu Y, Zhao X, Shi J, Wang Y, Liu H, Hu YF, Hu B, Shuai H, Yuen TT, Chai Y, Liu F, Gong HR, Li J, Wang X, Jiang S, Zhang X, Zhang Y, Li X, Wang L, Hartnoll M, Zhu T, Hou Y, Huang X, Yoon C, Wang Y, He Y, Zhou M, Du L, Zhang X, Chan WM, Chen LL, Cai JP, Yuan S, Zhou J, Huang JD, Yuen KY, To KK, Chan JF, Zhang BZ, Sun L, Wang P, Chu H
Nat Commun (2024) 15 pp. 8728-8728 [ DOI: doi:10.1038/s41467-024-53033-7 Pubmed: 39379369 ]
- Spike glycoprotein,fibritin,fusion protein (142 kDa, Protein from synthetic construct)
- Angiotensin-converting enzyme 2 (85 kDa, Protein from Homo sapiens)
- Ba.2.86 rbd protein in complex with ace2 (Complex from Homo sapiens)
Structure of BA.2.86 spike protein in complex with ACE2.
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 8yzc
Q-score: 0.267
Liu Y, Zhao X, Shi J, Wang Y, Liu H, Hu YF, Hu B, Shuai H, Yuen TT, Chai Y, Liu F, Gong HR, Li J, Wang X, Jiang S, Zhang X, Zhang Y, Li X, Wang L, Hartnoll M, Zhu T, Hou Y, Huang X, Yoon C, Wang Y, He Y, Zhou M, Du L, Zhang X, Chan WM, Chen LL, Cai JP, Yuan S, Zhou J, Huang JD, Yuen KY, To KK, Chan JF, Zhang BZ, Sun L, Wang P, Chu H
Nat Commun (2024) 15 pp. 8728-8728 [ DOI: doi:10.1038/s41467-024-53033-7 Pubmed: 39379369 ]
Structure of JN.1 RBD protein in complex with ACE2.
Resolution: 3.07 Å
EM Method: Single-particle
Fitted PDBs: 8yzd
Q-score: 0.573
Liu Y, Zhao X, Shi J, Wang Y, Liu H, Hu YF, Hu B, Shuai H, Yuen TT, Chai Y, Liu F, Gong HR, Li J, Wang X, Jiang S, Zhang X, Zhang Y, Li X, Wang L, Hartnoll M, Zhu T, Hou Y, Huang X, Yoon C, Wang Y, He Y, Zhou M, Du L, Zhang X, Chan WM, Chen LL, Cai JP, Yuan S, Zhou J, Huang JD, Yuen KY, To KK, Chan JF, Zhang BZ, Sun L, Wang P, Chu H
Nat Commun (2024) 15 pp. 8728-8728 [ DOI: doi:10.1038/s41467-024-53033-7 Pubmed: 39379369 ]
The JN.1 spike protein (S) in complex with ACE2.
Resolution: 3.06 Å
EM Method: Single-particle
Fitted PDBs: 8yze
Q-score: 0.25
Liu Y, Zhao X, Shi J, Wang Y, Liu H, Hu YF, Hu B, Shuai H, Yuen TT, Chai Y, Liu F, Gong HR, Li J, Wang X, Jiang S, Zhang X, Zhang Y, Li X, Wang L, Hartnoll M, Zhu T, Hou Y, Huang X, Yoon C, Wang Y, He Y, Zhou M, Du L, Zhang X, Chan WM, Chen LL, Cai JP, Yuan S, Zhou J, Huang JD, Yuen KY, To KK, Chan JF, Zhang BZ, Sun L, Wang P, Chu H
Nat Commun (2024) 15 pp. 8728-8728 [ DOI: doi:10.1038/s41467-024-53033-7 Pubmed: 39379369 ]
Cryo-EM structure of CTR-bound type VII CRISPR-Cas complex at post-state I
Resolution: 2.93 Å
EM Method: Single-particle
Fitted PDBs: 8yhd
Q-score: 0.5
Yang J, Li X, He Q, Wang X, Tang J, Wang T, Zhang Y, Yu F, Zhang S, Liu Z, Zhang L, Liao F, Yin H, Zhao H, Deng Z, Zhang H
Nature (2024) 633 pp. 465-472 [ Pubmed: 39143216 DOI: doi:10.1038/s41586-024-07815-0 ]
- A protein (Complex from metagenome)
- Zinc ion (65 Da, Ligand)
- A protein (27 kDa, Protein from metagenome)
- Rna (53-mer) (21 kDa, RNA from metagenome)
- A protein (22 kDa, Protein from metagenome)
- A protein (70 kDa, Protein from metagenome)
- Rna (35-mer) (16 kDa, RNA from metagenome)
Cryo-EM structure of CTR-bound type VII CRISPR-Cas complex at post-state II
Resolution: 3.07 Å
EM Method: Single-particle
Fitted PDBs: 8yhe
Q-score: 0.506
Yang J, Li X, He Q, Wang X, Tang J, Wang T, Zhang Y, Yu F, Zhang S, Liu Z, Zhang L, Liao F, Yin H, Zhao H, Deng Z, Zhang H
Nature (2024) 633 pp. 465-472 [ Pubmed: 39143216 DOI: doi:10.1038/s41586-024-07815-0 ]
- Zinc ion (65 Da, Ligand)
- Rna (46-mer) (15 kDa, RNA from metagenome)
- Rna (29-mer) (16 kDa, RNA from metagenome)
- Protein structure (70 kDa, Protein from metagenome)
- Protein structure (27 kDa, Protein from metagenome)
- Protein structure (22 kDa, Protein from metagenome)
- Protein structure (Complex from metagenome)
Cryo-EM structure of CTR-bound type VII CRISPR-Cas complex at substrate-engaged state II
Resolution: 2.97 Å
EM Method: Single-particle
Fitted PDBs: 8z4j
Q-score: 0.507
Yang J, Li X, He Q, Wang X, Tang J, Wang T, Zhang Y, Yu F, Zhang S, Liu Z, Zhang L, Liao F, Yin H, Zhao H, Deng Z, Zhang H
Nature (2024) 633 pp. 465-472 [ Pubmed: 39143216 DOI: doi:10.1038/s41586-024-07815-0 ]
- A protein (Complex from metagenome)
- Zinc ion (65 Da, Ligand)
- Rna (34-mer) (19 kDa, RNA from metagenome)
- Protein structure (27 kDa, Protein from metagenome)
- Protein structure (22 kDa, Protein from metagenome)
- Rna (38-mer) (19 kDa, RNA from metagenome)
- Protein structure (70 kDa, Protein from metagenome)
Cryo-EM structure of CTR-bound type VII CRISPR-Cas complex at substrate-engaged state I
Resolution: 2.85 Å
EM Method: Single-particle
Fitted PDBs: 8z4l
Q-score: 0.531
Yang J, Li X, He Q, Wang X, Tang J, Wang T, Zhang Y, Yu F, Zhang S, Liu Z, Zhang L, Liao F, Yin H, Zhao H, Deng Z, Zhang H
Nature (2024) 633 pp. 465-472 [ Pubmed: 39143216 DOI: doi:10.1038/s41586-024-07815-0 ]
- A protein (Complex from metagenome)
- Zinc ion (65 Da, Ligand)
- A protein (27 kDa, Protein from metagenome)
- Rna (49-mer) (19 kDa, RNA from metagenome)
- A protein (22 kDa, Protein from metagenome)
- A protein (70 kDa, Protein from metagenome)
- Rna (40-mer) (19 kDa, RNA from metagenome)
Cryo-EM structure of NTR-bound type VII CRISPR-Cas complex at substrate-engaged state +I
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 8z99
Q-score: 0.487
Yang J, Li X, He Q, Wang X, Tang J, Wang T, Zhang Y, Yu F, Zhang S, Liu Z, Zhang L, Liao F, Yin H, Zhao H, Deng Z, Zhang H
Nature (2024) 633 pp. 465-472 [ Pubmed: 39143216 DOI: doi:10.1038/s41586-024-07815-0 ]
- A protein (Complex from metagenome)
- Zinc ion (65 Da, Ligand)
- A protein (27 kDa, Protein from metagenome)
- A protein (22 kDa, Protein from metagenome)
- A protein (70 kDa, Protein from metagenome)
- Rna (49-mer) (19 kDa, RNA from metagenome)
- Rna (54-mer) (19 kDa, RNA from metagenome)