Research workbench
Crystal structure of human BAZ2A phd zinc finger in complex with FR23
Analyse Crystal structure of human BAZ2A phd zinc finger in complex with FR23 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6FAP
- Type
- protein
- Length
- 209 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Bromodomain adjacent to zinc finger domain protein 2A
- UniProt
- Q9UIF9
- Ligands
- D3H, ZN, PO4
- Pockets
- 3 · best druggability 0.55
Structure
x-ray diffraction · 3 distinct chains · 15% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, D | Bromodomain adjacent to zinc finger domain protein 2A | protein | 53 | 13% helix, 15% strand | Q9UIF9 |
| B | Bromodomain adjacent to zinc finger domain protein 2A | protein | 51 | 14% helix, 16% strand | Q9UIF9 |
| C | Bromodomain adjacent to zinc finger domain protein 2A | protein | 52 | 17% helix, 15% strand | Q9UIF9 |
Ligands and binding sites
- D3H · ~{N}-(4-aminophenyl)-2-azanyl-ethanamide · ligand · 2 copies · chains B, C
- ZN · Zinc ion · metal · 8 copies · chains A, B, C, D
- PO4 · Phosphate ion · ion · 3 copies · chains A, B, D
- GOL · Glycerol · additive · chains C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 86 | 0.55 | 0.85 | 26 | empty |
| 2 | 93 | 0.52 | 0.83 | 18 | empty |
| 3 | 62 | 0.49 | 0.85 | 18 | empty |
Interfaces
6 interfaces between chains.
- B–D · 715 Ų buried · 7 hydrogen bonds · protein-protein
- A–C · 711 Ų buried · 9 hydrogen bonds · protein-protein
- A–D · 401 Ų buried · 6 hydrogen bonds · protein-protein
- A–B · 81 Ų buried · 0 hydrogen bonds · protein-protein
- C–D · 69 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 6FAP · Crystal structure of human BAZ2A PHD zinc finger in complex with Fr23 · the same entry in another collection · chain D against D, TM-score 1.00
- Q9UIF9 · AlphaFold monomer V2.0 prediction for bromodomain adjacent to zinc finger domain protein… · a predicted model of the same protein · chain C against A, TM-score 0.88
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 Q9UIF9
- Elsewhere: RCSB PDB 6FAP · PDBe 6FAP · UniProt Q9UIF9
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