6VZ4
Cryo-EM structure of Sth1-Arp7-Arp9-Rtt102 bound to the nucleosome in ADP Beryllium Fluoride state
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, E | Histone H3 | polymer | 136 | 15407.1 | 2 | UniProt (Q92133) Pfam (PF00125) In PDB | Xenopus laevis (African clawed frog) | |
| 2 | B, F | Histone H4 | polymer | 103 | 11394.4 | 2 | UniProt (P62799) Pfam (PF15511) In PDB | Xenopus laevis (African clawed frog) | |
| 3 | C, G | Histone H2A | polymer | 130 | 14109.4 | 2 | UniProt (Q6AZJ8) Pfam (PF00125) Pfam (PF16211) UniProt (by SIFTS) (P06897) In PDB | Xenopus laevis (African clawed frog) | |
| 4 | D, H | Histone H2B | polymer | 125 | 13810.0 | 2 | UniProt (Q92130) Pfam (PF00125) UniProt (by SIFTS) (P02281) In PDB | Xenopus laevis (African clawed frog) | |
| 5 | I | DNA (185-MER) | polymer | 185 | 56840.2 | 1 | synthetic construct | ||
| 6 | J | DNA (185-MER) | polymer | 185 | 57400.6 | 1 | synthetic construct | ||
| 7 | K | Nuclear protein STH1/NPS1 | polymer | 813 | 95105.3 | 1 | UniProt (P32597) Pfam (PF07529) Pfam (PF00176) Pfam (PF00271) Pfam (PF14619) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | ATP-dependent helicase STH1,Chromatin structure-remodeling complex protein STH1,SNF2 homolog |
| 8 | L | Actin-related protein 7 | polymer | 477 | 53863.0 | 1 | UniProt (Q12406) Pfam (PF00022) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | Actin-like protein ARP7,Chromatin structure-remodeling complex protein ARP7,SWI/SNF complex component ARP7 |
| 9 | M | Actin-like protein ARP9 | polymer | 467 | 53131.9 | 1 | UniProt (Q05123) Pfam (PF00022) In PDB | Saccharomyces cerevisiae (Baker's yeast) | Chromatin structure-remodeling complex protein ARP9,SWI/SNF complex component ARP9 |
| 10 | N | Regulator of Ty1 transposition protein 102 | polymer | 157 | 17817.6 | 1 | UniProt (P53330) Pfam (PF09510) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | |
| 11 | K | MAGNESIUM ION | non-polymer | 24.3 | 1 | Chemie (MG) | |||
| 12 | K | ADENOSINE-5'-DIPHOSPHATE | non-polymer | 427.2 | 1 | Chemie (ADP) | |||
| 13 | K | BERYLLIUM TRIFLUORIDE ION | non-polymer | 66.0 | 1 | Chemie (BEF) | |||
| 14 | L | ADENOSINE-5'-TRIPHOSPHATE | non-polymer | 507.2 | 1 | Chemie (ATP) |
Sequence modifications
D, H: 1 - 125 (UniProt: Q92130)
K: 301 - 1097 (UniProt: P32597)
| PDB | External Database | Details |
|---|---|---|
| Thr 33 | Ser 33 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Met 285 | - | initiating methionine |
| Gly 286 | - | expression tag |
| Ser 287 | - | expression tag |
| Ser 288 | - | expression tag |
| His 289 | - | expression tag |
| His 290 | - | expression tag |
| His 291 | - | expression tag |
| His 292 | - | expression tag |
| His 293 | - | expression tag |
| His 294 | - | expression tag |
| Ser 295 | - | expression tag |
| Gln 296 | - | expression tag |
| Asp 297 | - | expression tag |
| Pro 298 | - | expression tag |
| Asn 299 | - | expression tag |
| Ser 300 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 14 |
| Total formula weight | 443600.6 | |
| Non-Polymers* | Number of molecules | 4 |
| Total formula weight | 1024.7 | |
| All* | Total formula weight | 444625.3 |
