Human SETD2 bound to a nucleosome containing oncohistone mutations
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 7ea8
Q-score: 0.509
Liu Y, Zhang Y, Xue H, Cao M, Bai G, Mu Z, Yao Y, Sun S, Fang D, Huang J
Cell Discov (2021) 7 pp. 32-32 [ DOI: doi:10.1038/s41421-021-00261-6 Pubmed: 33972509 ]
- Histone-lysine n-methyltransferase setd2 (28 kDa, Protein from Homo sapiens)
- Histone h4 (8 kDa, Protein from Homo sapiens)
- Histone-lysine n-methyltransferase setd2 (Complex from Homo sapiens)
- Human setd2-ncp(h3.3k36m)-sam complex structure (Complex from Homo sapiens)
- Histone h2b type 2-e (13 kDa, Protein from Homo sapiens)
- 601-dna (37 kDa, DNA from synthetic construct)
- Zinc ion (65 Da, Ligand)
- S-adenosylmethionine (398 Da, Ligand)
- Histone (Complex)
- 601-dna (37 kDa, DNA from synthetic construct)
- Histone h3.3 (11 kDa, Protein from Homo sapiens)
- Dna (Complex)
- Histone h2a type 1-d (11 kDa, Protein from Homo sapiens)
Human SETD2 bound to wild-type nucleosome
Liu Y, Zhang Y, Xue H, Cao M, Bai G, Mu Z, Yao Y, Sun S, Fang D, Huang J
Cell Discov (2021) 7 pp. 32-32 [ DOI: doi:10.1038/s41421-021-00261-6 Pubmed: 33972509 ]
- Setd2-hncp (250 kDa, Complex from Homo sapiens)
Cryo-EM structure of human MLL3-ubNCP complex (4.0 angstrom)
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 6kiw
Q-score: 0.33
Xue H, Yao T, Cao M, Zhu G, Li Y, Yuan G, Chen Y, Lei M, Huang J
Nature (2019) 573 pp. 445-449 [ DOI: doi:10.1038/s41586-019-1528-1 Pubmed: 31485071 ]
- Ubiquitin (8 kDa, Protein from Homo sapiens)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Human mll3 complex associated with an h2b-monoubiquitinated nucleosome (4.0 angstrom) (Complex)
- Histone h3 (15 kDa, Protein from Xenopus laevis)
- Dna (145-mer) (44 kDa, DNA from synthetic construct)
- Dna (144-mer) (44 kDa, DNA from synthetic construct)
- Zinc ion (65 Da, Ligand)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- H2b-monoubiquitinated nucleosome (Complex from Xenopus laevis)
- Histone h2a (13 kDa, Protein from Xenopus laevis)
- Retinoblastoma-binding protein 5 (59 kDa, Protein from Homo sapiens)
- Histone-lysine n-methyltransferase 2c (23 kDa, Protein from Homo sapiens)
- Human mll3 (Complex from Homo sapiens)
- Wd repeat-containing protein 5 (36 kDa, Protein from Homo sapiens)
- Set1/ash2 histone methyltransferase complex subunit ash2 (60 kDa, Protein from Homo sapiens)
Cryo-EM structure of human MLL1-NCP complex, binding mode1
Resolution: 4.1 Å
EM Method: Single-particle
Fitted PDBs: 6kix
Q-score: 0.338
Xue H, Yao T, Cao M, Zhu G, Li Y, Yuan G, Chen Y, Lei M, Huang J
Nature (2019) 573 pp. 445-449 [ DOI: doi:10.1038/s41586-019-1528-1 Pubmed: 31485071 ]
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Histone-lysine n-methyltransferase 2a (24 kDa, Protein from Homo sapiens)
- Glutamine (146 Da, Ligand)
- Histone h3 (15 kDa, Protein from Xenopus laevis)
- Dna (145-mer) (44 kDa, DNA from synthetic construct)
- Zinc ion (65 Da, Ligand)
- Human mll1 complex (Complex from Homo sapiens)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Dna (145-mer) (44 kDa, DNA from synthetic construct)
- Histone h2a (13 kDa, Protein from Xenopus laevis)
- Retinoblastoma-binding protein 5 (59 kDa, Protein from Homo sapiens)
- S-adenosyl-l-homocysteine (384 Da, Ligand)
- Human mll1 complex associated with an unmodified nucleosome, binding mode 1 (Complex)
- Lysine (147 Da, Ligand)
- Wd repeat-containing protein 5 (36 kDa, Protein from Homo sapiens)
- Set1/ash2 histone methyltransferase complex subunit ash2 (60 kDa, Protein from Homo sapiens)
- Unmodified nucleosome (Complex from Xenopus laevis)
Cryo-EM structure of human MLL1-NCP complex, binding mode2
Resolution: 4.5 Å
EM Method: Single-particle
Fitted PDBs: 6kiz
Q-score: 0.31
Xue H, Yao T, Cao M, Zhu G, Li Y, Yuan G, Chen Y, Lei M, Huang J
Nature (2019) 573 pp. 445-449 [ Pubmed: 31485071 DOI: doi:10.1038/s41586-019-1528-1 ]
- Wd repeat-containing protein 5 (36 kDa, Protein from Homo sapiens)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Unmodified nucleosome (Complex from Xenopus laevis)
- Histone-lysine n-methyltransferase 2a (24 kDa, Protein from Homo sapiens)
- Histone h2a (13 kDa, Protein from Xenopus laevis)
- Retinoblastoma-binding protein 5 (59 kDa, Protein from Homo sapiens)
- Human mll1 complex associated with an unmodified nucleosome, binding mode 2 (Complex)
- S-adenosyl-l-homocysteine (384 Da, Ligand)
- Histone h3 (15 kDa, Protein from Xenopus laevis)
- Set1/ash2 histone methyltransferase complex subunit ash2 (60 kDa, Protein from Homo sapiens)
- Human mll1 complex (Complex from Homo sapiens)
- Dna (145-mer) (44 kDa, DNA from synthetic construct)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Zinc ion (65 Da, Ligand)
- Dna (145-mer) (44 kDa, DNA from synthetic construct)
Cryo-EM structure of human MLL1-ubNCP complex (3.2 angstrom)
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 6kiu
Q-score: 0.461
Xue H, Yao T, Cao M, Zhu G, Li Y, Yuan G, Chen Y, Lei M, Huang J
Nature (2019) 573 pp. 445-449 [ Pubmed: 31485071 DOI: doi:10.1038/s41586-019-1528-1 ]
- Wd repeat-containing protein 5 (36 kDa, Protein from Homo sapiens)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- H2b-monoubiquitinated nucleosome (Complex from Xenopus laevis)
- Ubiquitin (8 kDa, Protein from Homo sapiens)
- Histone-lysine n-methyltransferase 2a (24 kDa, Protein from Homo sapiens)
- Histone h2a (13 kDa, Protein from Xenopus laevis)
- Retinoblastoma-binding protein 5 (59 kDa, Protein from Homo sapiens)
- Human mll1 complex associated with an h2b-monoubiquitinated nucleosome (3.2 angstrom) (Complex)
- S-adenosyl-l-homocysteine (384 Da, Ligand)
- Glutamine (146 Da, Ligand)
- Histone h3 (15 kDa, Protein from Xenopus laevis)
- Set1/ash2 histone methyltransferase complex subunit ash2 (60 kDa, Protein from Homo sapiens)
- Human mll1 (Complex from Homo sapiens)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Dna (145-mer) (44 kDa, DNA from synthetic construct)
- Zinc ion (65 Da, Ligand)
- Dna (145-mer) (44 kDa, DNA from synthetic construct)
- Lysine (147 Da, Ligand)
Cryo-EM structure of human MLL1-ubNCP complex (4.0 angstrom)
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 6kiv
Q-score: 0.343
Xue H, Yao T, Cao M, Zhu G, Li Y, Yuan G, Chen Y, Lei M, Huang J
Nature (2019) 573 pp. 445-449 [ Pubmed: 31485071 DOI: doi:10.1038/s41586-019-1528-1 ]
- Wd repeat-containing protein 5 (36 kDa, Protein from Homo sapiens)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- H2b-monoubiquitinated nucleosome (Complex from Xenopus laevis)
- Ubiquitin (8 kDa, Protein from Homo sapiens)
- Histone-lysine n-methyltransferase 2a (24 kDa, Protein from Homo sapiens)
- Histone h2a (13 kDa, Protein from Xenopus laevis)
- Retinoblastoma-binding protein 5 (59 kDa, Protein from Homo sapiens)
- Human mll1 complex associated with an h2b-monoubiquitinated nucleosome (4.0 angstrom) (Complex)
- S-adenosyl-l-homocysteine (384 Da, Ligand)
- Histone h3 (15 kDa, Protein from Xenopus laevis)
- Set1/ash2 histone methyltransferase complex subunit ash2 (60 kDa, Protein from Homo sapiens)
- Human mll1 complex (Complex from Homo sapiens)
- Dna (145-mer) (44 kDa, DNA from synthetic construct)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Zinc ion (65 Da, Ligand)
- Dna (145-mer) (44 kDa, DNA from synthetic construct)