Research workbench
Crystal structure of BRD9 bromodomain bound to a crotonyllysine peptide
Analyse Crystal structure of BRD9 bromodomain bound to a crotonyllysine peptide in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4YYH
- Type
- protein
- Length
- 213 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Bromodomain-containing protein 9; Histone H4
- UniProt
- Q9H8M2, P62805
- Pockets
- 1 · best druggability 0.34
Structure
x-ray diffraction · 3 distinct chains · 61% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Bromodomain-containing protein 9 | protein | 102 | 63% helix, 0% strand | Q9H8M2 |
| B | Bromodomain-containing protein 9 | protein | 103 | 61% helix, 0% strand | Q9H8M2 |
| Z, Y | Histone H4 | protein | 4 | 0% helix, 0% strand | P62805 |
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 105 | 0.34 | 0.73 | 24 | empty |
Interfaces
3 interfaces between chains.
- B–Y · 318 Ų buried · 1 hydrogen bond · protein-protein
- A–Z · 312 Ų buried · 1 hydrogen bond · protein-protein
- A–B · 227 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 modified (nonstandard).
Compared structures
- 4YYH · Crystal structure of BRD9 Bromodomain bound to a crotonyllysine peptide · the same entry in another collection · chain A against A, TM-score 1.00
- Q9H8M2 · AlphaFold monomer V2.0 prediction for bromodomain-containing protein 9 (Q9H8M2) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 Q9H8M2
- Every structure of UniProt P62805
- Elsewhere: RCSB PDB 4YYH · PDBe 4YYH · UniProt Q9H8M2 · UniProt P62805
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