Cryo-EM structure of PRC1 bound to H2AK119-UbcH5b-Ub nucleosome
Resolution: 3.05 Å
EM Method: Single-particle
Fitted PDBs: 8grm
Q-score: 0.516
Ai HS, Tong Z, Deng Z, Tian J, Zhang L, Sun M, Du Y, Xu Z, Shi Q, Liang L, Zheng Q, Li JB, Pan M, Liu L
Chem (2023) [ DOI: doi:10.1016/j.chempr.2023.01.012 ]
- Dna (145-mer) (44 kDa, DNA from Homo sapiens)
- Histone h2a type 1-b/e (11 kDa, Protein from Homo sapiens)
- Ubch5b (16 kDa, Protein from Homo sapiens)
- Complex of prc1 and h2ak119-ubch5b-ub nucleosome (350 kDa, Complex from Homo sapiens)
- Ring1b (11 kDa, Protein from Homo sapiens)
- Commd3 protein (11 kDa, Protein from Homo sapiens)
- Histone h2b type 1-k (10 kDa, Protein from Homo sapiens)
- Histone h2b type 1-k (10 kDa, Protein from Homo sapiens)
- Ubiquitin (8 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Histone h3 (11 kDa, Protein from Homo sapiens)
- Histone h4 (9 kDa, Protein from Homo sapiens)
- Dna (144-mer) (44 kDa, DNA from Homo sapiens)
Cryo-EM structure of BRCA1/BARD1 bound to H2AK127-UbcH5c-Ub nucleosome
Resolution: 3.87 Å
EM Method: Single-particle
Fitted PDBs: 8grq
Q-score: 0.352
Ai HS, Tong Z, Deng Z, Tian J, Zhang L, Sun M, Du Y, Xu Z, Shi Q, Liang L, Zheng Q, Li JB, Pan M, Liu L
Chem (2023) [ DOI: doi:10.1016/j.chempr.2023.01.012 ]
- Histone h3 (11 kDa, Protein from Homo sapiens)
- Histone h4 (9 kDa, Protein from Homo sapiens)
- Dna (147-mer) (45 kDa, DNA from Homo sapiens)
- Histone h2a type 1-h (12 kDa, Protein from Homo sapiens)
- Complex of brca1/bard1 and h2ak127-ubch5c-ub nucleosome (Complex from Homo sapiens)
- Brca1-associated ring domain protein 1 (10 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Dna (147-mer) (45 kDa, DNA from Homo sapiens)
- Ubiquitin-conjugating enzyme e2d 3 (ubc4/5 homolog, yeast), isoform cra_a (16 kDa, Protein from Homo sapiens)
- Breast cancer type 1 susceptibility protein (10 kDa, Protein from Homo sapiens)
- H2b (20 kDa, Protein from Homo sapiens)
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))
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 [ Pubmed: 35383169 DOI: doi:10.1038/s41467-022-29322-4 ]
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 [ Pubmed: 35383169 DOI: doi:10.1038/s41467-022-29322-4 ]
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 [ Pubmed: 35383169 DOI: doi:10.1038/s41467-022-29322-4 ]
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 [ Pubmed: 35383169 DOI: doi:10.1038/s41467-022-29322-4 ]
- Cryoem map of human presequence protease in partial close state 1 (Complex from Homo sapiens)
- Presequence protease, mitochondrial (114 kDa, Protein from Homo sapiens)
- Amyloid-beta precursor protein (4 kDa, Protein from Homo sapiens)
- Amyloid-beta precursor protein (273 Da, 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 ]
- Hasic1a (Complex from Homo sapiens)
- Acid-sensing ion channel 1 (54 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sodium ion (22 Da, Ligand)
- Cholesterol hemisuccinate (486 Da, Ligand)
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 7cft
Q-score: 0.436
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 ]
- Mambalgin-1 (6 kDa, Protein from Dendroaspis polylepis polylepis)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Hasic1a-mamba1 (Complex from Homo sapiens)
- Acid-sensing ion channel 1 (54 kDa, Protein from Homo sapiens)