type I-B Cascade bound to a PAM-containing dsDNA target at 3.8 angstrom resolution.
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 8h67
Q-score: 0.307
Lu M, Yu C, Zhang Y, Ju W, Ye Z, Hua C, Mao J, Hu C, Yang Z, Xiao Y
Nat Commun (2024) 15 pp. 4126-4126 [ DOI: doi:10.1038/s41467-024-48598-2 Pubmed: 38750051 ]
- Crispr associated protein cas11b (14 kDa, Protein from Synechocystis sp. PCC 6714)
- Crispr associated protein cas8 (69 kDa, Protein from Synechocystis sp. PCC 6714)
- Cryo-em structure of synechocystis sp. pcc6714 cascade bound to a pam-containing dsdna target at 3.8 angstrom resolution. (Complex from Synechocystis sp. PCC 6714)
- Non target dna (2 kDa, DNA from synthetic construct)
- Crispr associated protein cas5 (26 kDa, Protein from Synechocystis sp. PCC 6714)
- Crispr rna (22 kDa, RNA from synthetic construct)
- Target dna (3 kDa, DNA from synthetic construct)
- Crispr associated protein cas7 (33 kDa, Protein from Synechocystis sp. PCC 6714)
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 8ip0
Q-score: 0.326
Lu M, Yu C, Zhang Y, Ju W, Ye Z, Hua C, Mao J, Hu C, Yang Z, Xiao Y
Nat Commun (2024) 15 pp. 4126-4126 [ DOI: doi:10.1038/s41467-024-48598-2 Pubmed: 38750051 ]
- Dna (41-mer) (12 kDa, DNA from synthetic construct)
- Crispr associated protein cas11b (14 kDa, Protein from Synechocystis sp. PCC 6714)
- Rna (44-mer) (13 kDa, RNA from synthetic construct)
- Dna (5'-d(p*tp*cp*cp*ap*tp*gp*tp*tp*tp*ap*tp*cp*ap*cp*c)-3') (4 kDa, DNA from synthetic construct)
- Fruiting body developmental protein r-like protein (33 kDa, Protein from Synechocystis sp. PCC 6714)
- Type i-myxan crispr-associated protein cmx8 (63 kDa, Protein from Synechocystis sp. PCC 6714)
- Type i-myxan crispr-associated protein cas5/cmx5/devs (26 kDa, Protein from Synechocystis sp. PCC 6714)
- Dna (5'-d(p*ap*ap*ap*ap*ap*ap*ap*ap*ap*a)-3') (3 kDa, DNA from synthetic construct)
- Cryo-em structure of synechocystis sp. pcc6714 cascade bound to a pam-containing dsdna target presented as full r-loop formed state at 3.6 angstrom resolution (Complex from Synechocystis sp. PCC 6714)
Structure of yeast Ubr1 in complex with Ubc2 and N-degron
Resolution: 3.35 Å
EM Method: Single-particle
Fitted PDBs: 7mex
Q-score: 0.45
Pan M, Zheng Q, Wang T, Liang L, Mao J, Zuo C, Ding R, Ai H, Xie Y, Si D, Yu Y, Liu L, Zhao M
Nature (2021) 600 pp. 334-338 [ Pubmed: 34789879 DOI: doi:10.1038/s41586-021-04097-8 ]
- Yeast ubr1 in complex with ubc2 and n-degron (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Zinc ion (65 Da, Ligand)
- N-degron (4 kDa, Protein from Saccharomyces cerevisiae S288C)
- E3 ubiquitin-protein ligase ubr1 (225 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Ubiquitin (8 kDa, Protein from Homo sapiens)
- Ubiquitin-conjugating enzyme e2 2 (17 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Structure of yeast Ubr1 in complex with Ubc2 and monoubiquitinated N-degron
Resolution: 3.67 Å
EM Method: Single-particle
Fitted PDBs: 7mey
Q-score: 0.407
Pan M, Zheng Q, Wang T, Liang L, Mao J, Zuo C, Ding R, Ai H, Xie Y, Si D, Yu Y, Liu L, Zhao M
Nature (2021) 600 pp. 334-338 [ Pubmed: 34789879 DOI: doi:10.1038/s41586-021-04097-8 ]
- Ubiquitin-conjugating enzyme e2 2 (19 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Ubiquitin (8 kDa, Protein from Homo sapiens)
- Monoubiquitinated n-degron (4 kDa, Protein from Saccharomyces cerevisiae S288C)
- Zinc ion (65 Da, Ligand)
- E3 ubiquitin-protein ligase ubr1 (225 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Ubiquitin (8 kDa, Protein from Homo sapiens)
- 2-(ethylamino)ethane-1-thiol (105 Da, Ligand)
- Yeast ubr1 in complex with ubc2 and monoubiquitinated n-degron (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
