Cryo-EM structure of doubly-bound SNF2h-nucleosome complex (conformation 1)
Chio US, Palovcak E, Smith AAA, Autzen H, Munoz EN, Yu Z, Wang F, Agard DA, Armache JP, Narlikar GJ, Cheng Y
Nat Commun (2024) 15 pp. 2225-2225 [ Pubmed: 38472177 DOI: doi:10.1038/s41467-024-46178-y ]
- Widom 601 dna (147-mer) with 60 base pairs flanking dna (forward strand) (DNA from synthetic construct)
- Histone h2a type 1 (Protein from Xenopus laevis)
- Histone h2b 1.1 (Protein from Xenopus laevis)
- Histone h3.2 (Protein from Xenopus laevis)
- Swi/snf-related matrix-associated actin-dependent regulator of chromatin subfamily a member 5 (Protein from Homo sapiens)
- Histone h4 (Protein from Xenopus laevis)
- Widom 601 dna (147-mer) with 60 base pairs flanking dna (reverse strand) (DNA from synthetic construct)
- Atp-dependent chromatin remodeler snf2h in complex with nucleosome (300 kDa, Complex)
- Nucleosome with xenopus laevis histones (200 kDa, Complex)
- Snf2h (100 kDa, Complex from Homo sapiens)
Cryo-EM structure of doubly-bound SNF2h-nucleosome complex (conformation 2)
Chio US, Palovcak E, Smith AAA, Autzen H, Munoz EN, Yu Z, Wang F, Agard DA, Armache JP, Narlikar GJ, Cheng Y
Nat Commun (2024) 15 pp. 2225-2225 [ Pubmed: 38472177 DOI: doi:10.1038/s41467-024-46178-y ]
- Widom 601 dna (147-mer) with 60 base pairs flanking dna (forward strand) (DNA from synthetic construct)
- Histone h2a type 1 (Protein from Xenopus laevis)
- Histone h2b 1.1 (Protein from Xenopus laevis)
- Histone h3.2 (Protein from Xenopus laevis)
- Swi/snf-related matrix-associated actin-dependent regulator of chromatin subfamily a member 5 (Protein from Homo sapiens)
- Histone h4 (Protein from Xenopus laevis)
- Widom 601 dna (147-mer) with 60 base pairs flanking dna (reverse strand) (DNA from synthetic construct)
- Atp-dependent chromatin remodeler snf2h in complex with nucleosome (300 kDa, Complex)
- Nucleosome with xenopus laevis histones (200 kDa, Complex)
- Snf2h (100 kDa, Complex from Homo sapiens)
Structure of nucleosome-bound SRCAP-C in the apo state
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 8x15
Q-score: 0.218
Yu J, Sui F, Gu F, Li W, Yu Z, Wang Q, He S, Wang L, Xu Y
Cell Discov (2024) 10 pp. 15-15 [ Pubmed: 38331872 DOI: doi:10.1038/s41421-023-00640-1 ]
- Ruvb-like 1 (50 kDa, Protein from Homo sapiens)
- Histone h3.1 (15 kDa, Protein from Homo sapiens)
- Dna (137-mer) (42 kDa, DNA from synthetic construct)
- Vacuolar protein sorting-associated protein 72 homolog (40 kDa, Protein from Homo sapiens)
- Structure of nucleosome-bound srcap-c in the apo state (Complex from Homo sapiens)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Ruvb-like 2 (51 kDa, Protein from Homo sapiens)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Zinc finger hit domain-containing protein 1 (17 kDa, Protein from Homo sapiens)
- Histone h2a type 1-c (14 kDa, Protein from Homo sapiens)
- Dna methyltransferase 1-associated protein 1 (53 kDa, Protein from Homo sapiens)
- Dna (137-mer) (41 kDa, DNA from synthetic construct)
- Actin-related protein 6 (45 kDa, Protein from Homo sapiens)
- Actin-like protein 6a (47 kDa, Protein from Homo sapiens)
- Helicase srcap (343 kDa, Protein from Homo sapiens)
- Histone h2b type 1-c/e/f/g/i (13 kDa, Protein from Homo sapiens)
- Actin, cytoplasmic 1, n-terminally processed (41 kDa, Protein from Homo sapiens)
- Yeats domain-containing protein 4 (26 kDa, Protein from Homo sapiens)
Structure of nucleosome-bound SRCAP-C in the ADP-BeFx-bound state
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 8x19
Q-score: 0.292
Yu J, Sui F, Gu F, Li W, Yu Z, Wang Q, He S, Wang L, Xu Y
Cell Discov (2024) 10 pp. 15-15 [ Pubmed: 38331872 DOI: doi:10.1038/s41421-023-00640-1 ]
- Ruvb-like 1 (50 kDa, Protein from Homo sapiens)
- Histone h3.1 (15 kDa, Protein from Homo sapiens)
- Vacuolar protein sorting-associated protein 72 homolog (40 kDa, Protein from Homo sapiens)
- Actin, cytoplasmic 1 (41 kDa, Protein from Homo sapiens)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Ruvb-like 2 (51 kDa, Protein from Homo sapiens)
- Structure of nucleosome-bound srcap-c in the adp-befx-bound state (Complex from Homo sapiens)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Zinc finger hit domain-containing protein 1 (17 kDa, Protein from Homo sapiens)
- Histone h2a type 1-c (14 kDa, Protein from Homo sapiens)
- Dna methyltransferase 1-associated protein 1 (53 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Actin-related protein 6 (45 kDa, Protein from Homo sapiens)
- Dna (147-mer) (45 kDa, DNA from Homo sapiens)
- Actin-like protein 6a (47 kDa, Protein from Homo sapiens)
- Dna (147-mer) (45 kDa, DNA from Homo sapiens)
- Beryllium trifluoride ion (66 Da, Ligand)
- Helicase srcap (343 kDa, Protein from Homo sapiens)
- Histone h2b type 1-c/e/f/g/i (13 kDa, Protein from Homo sapiens)
- Yeats domain-containing protein 4 (26 kDa, Protein from Homo sapiens)
Structure of nucleosome-bound SRCAP-C in the ADP-bound state
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 8x1c
Q-score: 0.297
Yu J, Sui F, Gu F, Li W, Yu Z, Wang Q, He S, Wang L, Xu Y
Cell Discov (2024) 10 pp. 15-15 [ Pubmed: 38331872 DOI: doi:10.1038/s41421-023-00640-1 ]
- Ruvb-like 1 (50 kDa, Protein from Homo sapiens)
- Dna (147-mer) (45 kDa, DNA from synthetic construct)
- Histone h3.1 (15 kDa, Protein from Homo sapiens)
- Vacuolar protein sorting-associated protein 72 homolog (40 kDa, Protein from Homo sapiens)
- Actin, cytoplasmic 1 (41 kDa, Protein from Homo sapiens)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Ruvb-like 2 (51 kDa, Protein from Homo sapiens)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Zinc finger hit domain-containing protein 1 (17 kDa, Protein from Homo sapiens)
- Histone h2a type 1-c (14 kDa, Protein from Homo sapiens)
- Dna methyltransferase 1-associated protein 1 (53 kDa, Protein from Homo sapiens)
- Dna (147-mer) (45 kDa, DNA from synthetic construct)
- Actin-related protein 6 (45 kDa, Protein from Homo sapiens)
- Actin-like protein 6a (47 kDa, Protein from Homo sapiens)
- Structure of nucleosome-bound srcap-c in the adp-bound state (Complex from Homo sapiens)
- Helicase srcap (343 kDa, Protein from Homo sapiens)
- Histone h2b type 1-c/e/f/g/i (13 kDa, Protein from Homo sapiens)
- Yeats domain-containing protein 4 (26 kDa, Protein from Homo sapiens)
Cryo-EM structure of BAP1-ASXL1 bound to chromatosome
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 8h1t
Q-score: 0.435
Ge W, Yu C, Li J, Yu Z, Li X, Zhang Y, Liu CP, Li Y, Tian C, Zhang X, Li G, Zhu B, Xu RM
Nature (2023) 616 pp. 176-182 [ Pubmed: 36991118 DOI: doi:10.1038/s41586-023-05841-y ]
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Ubiquitin (8 kDa, Protein from Homo sapiens)
- Histone h2b type 2-e (13 kDa, Protein from Homo sapiens)
- Dna (187-mer) (57 kDa, DNA from Homo sapiens)
- Histone h2a type 1-d (14 kDa, Protein from Homo sapiens)
- Histone h3.1 (15 kDa, Protein from Homo sapiens)
- Dna (187-mer) (58 kDa, DNA from Homo sapiens)
- Polycomb group protein asxl1 (41 kDa, Protein from Homo sapiens)
- Cryo-em structure of bap1-asxl1 bound to chromatosome (Complex from Homo sapiens)
- Ubiquitin carboxyl-terminal hydrolase bap1 (80 kDa, Protein from Homo sapiens)
- Histone h1.4 (23 kDa, Protein from Homo sapiens)
Cryo-EM structure of the 1:1 Orc1 BAH domain in complex with nucleosome
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 7e9c
Q-score: 0.311
Jiang H, Yu C, Liu CP, Han X, Yu Z, Xu RM
To Be Published
- Origin recognition complex subunit 1 (Complex)
- Yeast orc1 bah domain in complex with 147-bp nucleosome (Complex from Saccharomyces cerevisiae)
- Histone h3 (15 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Histone h2b.2 (14 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna (Complex from Escherichia coli)
- Histone h2a.2 (14 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Histone (Complex from Saccharomyces cerevisiae)
- Dna (147-mer) (45 kDa, DNA from Escherichia coli)
- Dna (147-mer) (45 kDa, DNA from Escherichia coli)
- Origin recognition complex subunit 1 (25 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Histone h4 (11 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Structure of nucleosome-bound human BAF complex
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 6ltj
Q-score: 0.007
He S, Wu Z, Tian Y, Yu Z, Yu J, Wang X, Li J, Liu B, Xu Y
Science (2020) 367 pp. 875-881 [ Pubmed: 32001526 DOI: doi:10.1126/science.aaz9761 ]
- Baf (Complex from Homo sapiens)
- Nucleosome (Complex from Xenopus calcaratus)
- Swi/snf-related matrix-associated actin-dependent regulator of chromatin subfamily d member 1 (58 kDa, Protein from Homo sapiens)
- Actin-like protein 6a (45 kDa, Protein from Homo sapiens)
- Actin, cytoplasmic 1 (41 kDa, Protein from Homo sapiens)
- Transcription activator brg1 (184 kDa, Protein from Homo sapiens)
- Swi/snf-related matrix-associated actin-dependent regulator of chromatin subfamily b member 1 (38 kDa, Protein from Homo sapiens)
- Swi/snf complex subunit smarcc2 (133 kDa, Protein from Homo sapiens)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Histone h2a type 1 (13 kDa, Protein from Xenopus laevis)
- Histone h2b (13 kDa, Protein from Xenopus laevis)
- Histone h3.3 (15 kDa, Protein from Xenopus laevis)
- Dna (119-mer) (36 kDa, DNA from Homo sapiens)
- Dna (119-mer) (36 kDa, DNA from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Structure of nucleosome-bound human baf complex (Complex)
- Zinc finger protein ubi-d4 (32 kDa, Protein from Homo sapiens)
- At-rich interactive domain-containing protein 1a (142 kDa, Protein from Homo sapiens)
- Swi/snf-related matrix-associated actin-dependent regulator of chromatin subfamily e member 1 (46 kDa, Protein from Homo sapiens)