4F56
The bicyclic intermediate structure provides insights into the desuccinylation mechanism of SIRT5
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, B | NAD-dependent lysine demalonylase and desuccinylase sirtuin-5, mitochondrial | polymer | 273 | 29674.8 | 2 | UniProt (Q9NXA8) Pfam (PF02146) In PDB | Homo sapiens (human) | SIR2-like protein 5 |
| 2 | C, D | peptide from Histone H3.1 | polymer | 12 | 1236.4 | 2 | UniProt (P68431) In PDB | Homo sapiens | Histone H3/a, Histone H3/b, Histone H3/c, Histone H3/d, Histone H3/f, Histone H3/h, Histone H3/i, Histone H3/j, Histone H3/k, Histone H3/l |
| 3 | A, B | ZINC ION | non-polymer | 65.4 | 2 | Chemie (ZN) | |||
| 4 | C, D | 3-[(2R,3aR,5R,6R,6aR)-5-({[(S)-{[(S)-{[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methoxy}(hydroxy)phosphoryl]oxy}(hydroxy)phosphoryl]oxy}methyl)-2,6-dihydroxytetrahydrofuro[2,3-d][1,3]oxathiol-2-yl]propanoic acid | non-polymer | 675.5 | 2 | Chemie (CGK) | |||
| 5 | water | water | 18.0 | 408 | Chemie (HOH) |
Sequence modifications
A, B: 34 - 302 (UniProt: Q9NXA8)
| PDB | External Database | Details |
|---|---|---|
| Gly 30 | - | expression tag |
| Ser 31 | - | expression tag |
| Phe 32 | - | expression tag |
| Thr 33 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 4 |
| Total formula weight | 61822.4 | |
| Non-Polymers* | Number of molecules | 4 |
| Total formula weight | 1481.7 | |
| All* | Total formula weight | 63304.2 |
