9DG3
ncPRC1RYBP Delta-linker mutant bound to singly modified H2AK119Ub nucleosome
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, E (A, E) | Histone H3.2 | polymer | 136 | 15435.1 | 2 | UniProt (P84233) Pfam (PF00125) | Xenopus laevis (African clawed frog) | Histone H3 |
| 2 | B, F (B, F) | Histone H4 | polymer | 103 | 11394.4 | 2 | UniProt (P62799) Pfam (PF15511) | Xenopus laevis (African clawed frog) | |
| 3 | C (C) | Histone H2A type 1 | polymer | 130 | 14093.4 | 1 | UniProt (P06897) Pfam (PF00125) Pfam (PF16211) | Xenopus laevis (African clawed frog) | |
| 4 | D, H (D, H) | Histone H2B 1.1 | polymer | 126 | 13979.3 | 2 | UniProt (P02281) Pfam (PF00125) | Xenopus laevis (African clawed frog) | H2B1.1 |
| 5 | G (G) | Histone H2A type 1 | polymer | 130 | 14067.4 | 1 | UniProt (P06897) Pfam (PF00125) Pfam (PF16211) | Xenopus laevis (African clawed frog) | |
| 6 | I (I) | DNA (187-MER) | polymer | 187 | 57982.9 | 1 | synthetic construct | ||
| 7 | J (J) | DNA (187-MER) | polymer | 187 | 57488.6 | 1 | synthetic construct | ||
| 8 | K (M) | RING1 and YY1-binding protein | polymer | 228 | 24863.6 | 1 | UniProt (Q8N488) Pfam (PF00641) Pfam (PF17219) | Homo sapiens (human) | Apoptin-associating protein 1,APAP-1,Death effector domain-associated factor,DED-associated factor,YY1 and E4TF1-associated factor 1 |
| 9 | L (N) | Ubiquitin | polymer | 76 | 8622.9 | 1 | UniProt (P0CG47) Pfam (PF00240) UniProt (by SIFTS) (P0CG48) | Homo sapiens (human) | |
| 10 | M (M) | ZINC ION | non-polymer | 65.4 | 1 | Chemie (ZN) |
Sequence modifications
A, E: 0 - 135 (UniProt: P84233)
C: 0 - 129 (UniProt: P06897)
D, H: -3 - 122 (UniProt: P02281)
G: 0 - 129 (UniProt: P06897)
N: 1 - 76 (UniProt: P0CG47)
| PDB | External Database | Details |
|---|---|---|
| Ala 102 | Gly 103 | engineered mutation |
| PDB | External Database | Details |
|---|---|---|
| Arg 99 | Gly 100 | engineered mutation |
| PDB | External Database | Details |
|---|---|---|
| Thr 29 | Ser 33 | engineered mutation |
| PDB | External Database | Details |
|---|---|---|
| Arg 99 | Gly 100 | engineered mutation |
| Cys 118 | Lys 119 | engineered mutation |
| PDB | External Database | Details |
|---|---|---|
| Cys 76 | Gly 76 | engineered mutation |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 12 |
| Total formula weight | 258736.5 | |
| Non-Polymers* | Number of molecules | 1 |
| Total formula weight | 65.4 | |
| All* | Total formula weight | 258801.9 |
