8U5H
Cryo-EM structure of human DNMT3A UDR bound to H2AK119ub1-modified nucleosome
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, B | DNA (cytosine-5)-methyltransferase 3A | polymer | 98 | 11070.6 | 2 | UniProt (Q9Y6K1) Pfam (PF22855) In PDB | Homo sapiens (human) | DNMT3A |
| 2 | C | nucleosome DNA | polymer | 180 | 55176.1 | 1 | Homo sapiens (human) | ||
| 3 | D | Ubiquitin | polymer | 76 | 8576.8 | 1 | UniProt (P0CG48) Pfam (PF00240) In PDB | Homo sapiens (human) | |
| 4 | H | nucleosome DNA | polymer | 180 | 55963.7 | 1 | Homo sapiens (human) | ||
| 5 | I, O | Histone H3.3C | polymer | 136 | 15521.3 | 2 | UniProt (P02302) Pfam (PF00125) In PDB | Xenopus laevis (African clawed frog) | |
| 6 | J, Q | Histone H4 | polymer | 103 | 11394.4 | 2 | UniProt (A0A8J1LTD2) Pfam (PF15511) UniProt (by SIFTS) (P62799) In PDB | Xenopus laevis (African clawed frog) | |
| 7 | K, R | Histone H2A | polymer | 130 | 14083.4 | 2 | UniProt (Q6AZJ8) Pfam (PF00125) Pfam (PF16211) UniProt (by SIFTS) (P06897) In PDB | Xenopus laevis (African clawed frog) | |
| 8 | M, S | Histone H2B 1.1 | polymer | 123 | 13655.9 | 2 | UniProt (P02281) Pfam (PF00125) In PDB | Xenopus laevis (African clawed frog) | H2B1.1 |
Sequence modifications
K, R: 0 - 129 (UniProt: Q6AZJ8)
M, S: 1 - 122 (UniProt: P02281)
| PDB | External Database | Details |
|---|---|---|
| Cys 119 | Lys 120 | engineered mutation |
| PDB | External Database | Details |
|---|---|---|
| Met 0 | - | initiating methionine |
| Thr 29 | Ser 33 | engineered mutation |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 13 |
| Total formula weight | 251168.1 | |
| All* | Total formula weight | 251168.1 |
