Top-down design of protein architectures with reinforcement learning
Resolution: 2.93 Å
EM Method: Single-particle
Fitted PDBs: 8f53
Q-score: 0.555
Lutz ID, Wang S, Norn C, Courbet A, Borst AJ, Zhao YT, Dosey A, Cao L, Xu J, Leaf EM, Treichel C, Litvicov P, Li Z, Goodson AD, Rivera-Sanchez P, Bratovianu AM, Baek M, King NP, Ruohola-Baker H, Baker D
Science (2023) 380 pp. 266-273 [ Pubmed: 37079676 DOI: doi:10.1126/science.adf6591 ]
- Rc_i_2 (5 kDa, Protein from synthetic construct)
- Rc_i_2 (Complex from Escherichia coli)
Top-down design of protein architectures with reinforcement learning
Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 8f54
Q-score: 0.61
Lutz ID, Wang S, Norn C, Courbet A, Borst AJ, Zhao YT, Dosey A, Cao L, Xu J, Leaf EM, Treichel C, Litvicov P, Li Z, Goodson AD, Rivera-Sanchez P, Bratovianu AM, Baek M, King NP, Ruohola-Baker H, Baker D
Science (2023) 380 pp. 266-273 [ Pubmed: 37079676 DOI: doi:10.1126/science.adf6591 ]
- Rc_i_1 (Complex from Escherichia coli)
- Rc_i_1 (7 kDa, Protein from synthetic construct)
Cryo-EM structure of Dot1L and H2BK34ub-H3K79Nle nucleosome 1:1 complex
Resolution: 2.57 Å
EM Method: Single-particle
Fitted PDBs: 7xcr
Q-score: 0.571
Ai H, Sun M, Liu A, Sun Z, Liu T, Cao L, Liang L, Qu Q, Li Z, Deng Z, Tong Z, Chu G, Tian X, Deng H, Zhao S, Li JB, Lou Z, Liu L
Nat Chem Biol (2022) 18 pp. 972-980 [ Pubmed: 35739357 DOI: doi:10.1038/s41589-022-01067-7 ]
- Histone h4 (10 kDa, Protein from Homo sapiens)
- Histone h2a (11 kDa, Protein from Homo sapiens)
- Ubiquitin (8 kDa, Protein from Homo sapiens)
- Histone-lysine n-methyltransferase, h3 lysine-79 specific (37 kDa, Protein from Homo sapiens)
- Dna (146-mer) (45 kDa, DNA from synthetic construct)
- Complex of dot1l(1-416) and h2bk34ub nucleosome (Complex from Homo sapiens)
- Dna (146-mer) (44 kDa, DNA from synthetic construct)
- Histone h2b type 1-k (10 kDa, Protein from Homo sapiens)
- S-adenosylmethionine (398 Da, Ligand)
- Histone domain-containing protein (11 kDa, Protein from synthetic construct)
Cryo-EM structure of Dot1L and H2BK34ub-H3K79Nle nucleosome 2:1 complex
Resolution: 2.72 Å
EM Method: Single-particle
Fitted PDBs: 7xct
Q-score: 0.514
Ai H, Sun M, Liu A, Sun Z, Liu T, Cao L, Liang L, Qu Q, Li Z, Deng Z, Tong Z, Chu G, Tian X, Deng H, Zhao S, Li JB, Lou Z, Liu L
Nat Chem Biol (2022) 18 pp. 972-980 [ Pubmed: 35739357 DOI: doi:10.1038/s41589-022-01067-7 ]
- Dna (145-mer) (44 kDa, DNA from synthetic construct)
- Histone h2a (11 kDa, Protein from Homo sapiens)
- Ubiquitin (8 kDa, Protein from Homo sapiens)
- Histone-lysine n-methyltransferase, h3 lysine-79 specific (37 kDa, Protein from Homo sapiens)
- Dna (145-mer) (44 kDa, DNA from synthetic construct)
- Complex of dot1l(1-416) and h2bk34ub 2:1 nucleosome (Complex from Homo sapiens)
- S-adenosylmethionine (398 Da, Ligand)
- Histone h2b type 1-k (10 kDa, Protein from Homo sapiens)
- Histone domain-containing protein (11 kDa, Protein from Homo sapiens)
- Histone h4 (10 kDa, Protein from Homo sapiens)
SARS-CoV-2 spike in complex with LCB1 (2RBDs open)
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 7jzl
Q-score: 0.493
Cao L, Goreshnik I, Coventry B, Case JB, Miller L, Kozodoy L, Chen RE, Carter L, Walls AC, Park YJ, Strauch EM, Stewart L, Diamond MS, Veesler D, Baker D
Science (2020) 370 pp. 426-431 [ Pubmed: 32907861 DOI: doi:10.1126/science.abd9909 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Lcb1 (6 kDa, Protein from synthetic construct)
- De novo design of picomolar sars-cov-2 miniprotein inhibitors (Complex)
- Lcb1 (Complex from synthetic construct)
- Sars-cov-2 spike (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)