Cryo-EM structure of USP16 bound to H2AK119Ub nucleosome
Resolution: 3.05 Å
EM Method: Single-particle
Fitted PDBs: 8wg5
Q-score: 0.306
Ai H, He Z, Deng Z, Chu GC, Shi Q, Tong Z, Li JB, Pan M, Liu L
Nat Struct Mol Biol (2024) 31 pp. 1745-1755 [ DOI: doi:10.1038/s41594-024-01342-2 Pubmed: 38918638 ]
- Histone h3.1 (11 kDa, Protein from Homo sapiens)
- Ubiquitin b (8 kDa, Protein from Homo sapiens)
- Histone h2a type 1-b/e (12 kDa, Protein from Homo sapiens)
- Complex of usp16 bound to h2ak119ub nucleosome (Complex from Homo sapiens)
- Ubiquitin carboxyl-terminal hydrolase 16 (93 kDa, Protein from Homo sapiens)
- Histone h4 (9 kDa, Protein from Homo sapiens)
- Dna (147-mer) (45 kDa, DNA from Homo sapiens)
- Histone h2b type 1-k (10 kDa, Protein from Homo sapiens)
- Dna (147-mer) (45 kDa, DNA from Homo sapiens)
Bre1(mRBD-RING)/Rad6-Ub/nucleosome complex
Resolution: 3.44 Å
EM Method: Single-particle
Fitted PDBs: 8ieg
Q-score: 0.393
Deng Z, Ai H, Sun M, Tong Z, Du Y, Qu Q, Zhang L, Xu Z, Tao S, Shi Q, Li JB, Pan M, Liu L
Mol Cell (2023) 83 pp. 3080-3094.e14 [ Pubmed: 37633270 DOI: doi:10.1016/j.molcel.2023.08.001 ]
- Zinc ion (65 Da, Ligand)
- Histone h3.1 (11 kDa, Protein from Homo sapiens)
- Histone h2b type 1-k (10 kDa, Protein from Homo sapiens)
- Histone h2a type 1-b/e (11 kDa, Protein from Homo sapiens)
- Ubiquitin-conjugating enzyme e2 2 (16 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna (147-mer) (45 kDa, DNA from Homo sapiens)
- Bre1(mrbd-ring)/rad6-ub in complex with nucleosome (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Histone h2b type 1-k (10 kDa, Protein from Homo sapiens)
- Dna (147-mer) (45 kDa, DNA from Homo sapiens)
- E3 ubiquitin-protein ligase bre1 (7 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Histone h4 (9 kDa, Protein from Homo sapiens)
RNF20-RNF40/hRad6A-Ub/nucleosome complex
Resolution: 3.12 Å
EM Method: Single-particle
Fitted PDBs: 8iej
Q-score: 0.461
Deng Z, Ai H, Sun M, Tong Z, Du Y, Qu Q, Zhang L, Xu Z, Tao S, Shi Q, Li JB, Pan M, Liu L
Mol Cell (2023) 83 pp. 3080-3094.e14 [ Pubmed: 37633270 DOI: doi:10.1016/j.molcel.2023.08.001 ]
- E3 ubiquitin-protein ligase bre1b (7 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Histone h3.1 (11 kDa, Protein from Homo sapiens)
- Histone h2b type 1-k (10 kDa, Protein from Homo sapiens)
- Histone h2a type 1-b/e (11 kDa, Protein from Homo sapiens)
- Dna (147-mer) (45 kDa, DNA from Homo sapiens)
- Histone h2b type 1-k (10 kDa, Protein from Homo sapiens)
- Rnf20-rnf40/hrad6a-ub in complex with nucleosome (Complex from Homo sapiens)
- Ubiquitin-conjugating enzyme e2 a (17 kDa, Protein from Homo sapiens)
- Dna (147-mer) (45 kDa, DNA from Homo sapiens)
- E3 ubiquitin-protein ligase bre1a (7 kDa, Protein from Homo sapiens)
- Histone h4 (9 kDa, Protein from Homo sapiens)
CryoEM structure of human presequence protease in partial open state 1
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 6xos
Q-score: 0.405
Liang WG, Wijaya J, Wei H, Noble AJ, Mancl JM, Mo S, Lee D, Lin King JV, Pan M, Liu C, Koehler CM, Zhao M, Potter CS, Carragher B, Li S, Tang WJ
Nat Commun (2022) 13 pp. 1833-1833 [ DOI: doi:10.1038/s41467-022-29322-4 Pubmed: 35383169 ]
CryoEM structure of human presequence protease in partial open state 2
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 6xot
Q-score: 0.315
Liang WG, Wijaya J, Wei H, Noble AJ, Mancl JM, Mo S, Lee D, Lin King JV, Pan M, Liu C, Koehler CM, Zhao M, Potter CS, Carragher B, Li S, Tang WJ
Nat Commun (2022) 13 pp. 1833-1833 [ DOI: doi:10.1038/s41467-022-29322-4 Pubmed: 35383169 ]
CryoEM structure of human presequence protease in open state
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 6xou
Q-score: 0.333
Liang WG, Wijaya J, Wei H, Noble AJ, Mancl JM, Mo S, Lee D, Lin King JV, Pan M, Liu C, Koehler CM, Zhao M, Potter CS, Carragher B, Li S, Tang WJ
Nat Commun (2022) 13 pp. 1833-1833 [ DOI: doi:10.1038/s41467-022-29322-4 Pubmed: 35383169 ]
CryoEM structure of human presequence protease in partial closed state 1
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 6xov
Q-score: 0.468
Liang WG, Wijaya J, Wei H, Noble AJ, Mancl JM, Mo S, Lee D, Lin King JV, Pan M, Liu C, Koehler CM, Zhao M, Potter CS, Carragher B, Li S, Tang WJ
Nat Commun (2022) 13 pp. 1833-1833 [ DOI: doi:10.1038/s41467-022-29322-4 Pubmed: 35383169 ]
- Presequence protease, mitochondrial (114 kDa, Protein from Homo sapiens)
- Cryoem map of human presequence protease in partial close state 1 (Complex from Homo sapiens)
- Amyloid-beta precursor protein (273 Da, Protein from Homo sapiens)
- Amyloid-beta precursor protein (4 kDa, Protein from Homo sapiens)
Cryo-EM strucutre of human acid-sensing ion channel 1a at pH 8.0
Resolution: 3.56 Å
EM Method: Single-particle
Fitted PDBs: 7cfs
Q-score: 0.483
Sun D, Liu S, Li S, Zhang M, Yang F, Wen M, Shi P, Wang T, Pan M, Chang S, Zhang X, Zhang L, Tian C, Liu L
eLife (2020) 9 [ DOI: doi:10.7554/eLife.57096 Pubmed: 32915133 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Hasic1a (Complex from Homo sapiens)
- Sodium ion (22 Da, Ligand)
- Acid-sensing ion channel 1 (54 kDa, Protein from Homo sapiens)
- Cholesterol hemisuccinate (486 Da, Ligand)