MolNFT v1 · #93888 · protein
Structure of the variant histone H3.3-H4 heterodimer in complex with its chaperone daxx
4HGA · Death domain-associated protein 6: “Structure of the variant histone H3.3-H4 heterodimer in complex with its chaperone daxx”. X-ray diffraction, 1 ligand (PC4), 6 pockets (best druggability 0.71). MolNFT v1 #93888 on GenesisL1: 3D…
- PDB
- 4HGA
- Type
- protein
- Length
- 375 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Death domain-associated protein 6; Histone H3.3; Histone H4
- UniProt
- Q9UER7, P84243, P62805
- Ligands
- PC4
- Pockets
- 6 · best druggability 0.71
Structure
x-ray diffraction · 3 distinct chains · 67% helix, 2% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Death domain-associated protein 6 | protein | 207 | 70% helix, 1% strand | Q9UER7 |
| B | Histone H3.3 | protein | 93 | 66% helix, 4% strand | P84243 |
| C | Histone H4 | protein | 75 | 61% helix, 4% strand | P62805 |
Ligands and binding sites
- PC4 · Tetrachloroplatinate(ii) · ligand · 4 copies · chains A, B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 58 | 0.71 | 0.98 | 23 | empty |
| 2 | 232 | 0.69 | 0.86 | 34 | empty |
| 3 | 50 | 0.57 | 0.91 | 21 | empty |
| 4 | 63 | 0.45 | 0.83 | 15 | empty |
| 5 | 72 | 0.31 | 0.74 | 12 | empty |
Interfaces
3 interfaces between chains.
- A–B · 3105 Ų buried · 52 hydrogen bonds · protein-protein
- B–C · 1939 Ų buried · 12 hydrogen bonds · protein-protein
- A–C · 1840 Ų buried · 22 hydrogen bonds · protein-protein
Compared structures
- 4HGA · Structure of the variant histone H3.3-H4 heterodimer in complex with its chaperone DAXX · the same entry in another collection · chain A against A, TM-score 1.00
- Q9UER7 · AlphaFold monomer V2.0 prediction for death domain-associated protein 6 (Q9UER7) · a predicted model of the same protein · chain A against A, TM-score 0.97
- P84243 · AlphaFold monomer V2.0 prediction for histone H3.3 (P84243) · a predicted model of the same protein · chain B against A, TM-score 0.68
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt Q9UER7
- Every structure of UniProt P84243
- Every structure of UniProt P62805
- Elsewhere: RCSB PDB 4HGA · PDBe 4HGA · UniProt Q9UER7 · UniProt P84243 · UniProt P62805
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