Research workbench
Crystal structure of a yeast saga transcriptional coactivator ADA2/GCN5 hat subcomplex, crystal form 1
Analyse Crystal structure of a yeast saga transcriptional coactivator ADA2/GCN5 hat… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6CW2
- Type
- protein
- Length
- 772 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Histone acetyltransferase GCN5; Transcriptional adapter 2; Antibody heavy chain; Antibody…
- EC
- 2.3.1.48
- UniProt
- Q03330, A0A250W8G8
- Ligands
- ZN
- Pockets
- 10 · best druggability 0.69
Structure
x-ray diffraction · 4 distinct chains · 20% helix, 36% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| D | Histone acetyltransferase GCN5 (EC 2.3.1.48) | protein | 241 | 35% helix, 25% strand | Q03330 |
| C | Transcriptional adapter 2 | protein | 115 | 35% helix, 10% strand | A0A250W8G8 |
| A | Antibody heavy chain | protein | 217 | 8% helix, 50% strand | — |
| B | Antibody light chain | protein | 199 | 4% helix, 49% strand | — |
Ligands and binding sites
- ZN · Zinc ion · metal · 2 copies · chains C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
10 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 546 | 0.69 | 0.78 | 57 | empty |
| 2 | 265 | 0.59 | 0.79 | 34 | empty |
| 3 | 488 | 0.59 | 0.74 | 60 | empty |
| 4 | 150 | 0.57 | 0.82 | 27 | empty |
| 5 | 120 | 0.56 | 0.83 | 19 | empty |
Interfaces
6 interfaces between chains.
- D–C · 2233 Ų buried · 19 hydrogen bonds · protein-protein
- A–B · 1723 Ų buried · 12 hydrogen bonds · protein-protein
- D–A · 834 Ų buried · 9 hydrogen bonds · protein-protein
- D–B · 465 Ų buried · 6 hydrogen bonds · protein-protein
- C–A · 235 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 6CW2 · Crystal structure of a yeast SAGA transcriptional coactivator Ada2/Gcn5 HAT subcomplex… · the same entry in another collection · chain D against D, TM-score 1.00
- Q03330 · AlphaFold monomer V2.0 prediction for histone acetyltransferase GCN5 (Q03330) · a predicted model of the same protein · chain D against A, TM-score 0.97
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 Q03330
- Every structure of UniProt A0A250W8G8
- Elsewhere: RCSB PDB 6CW2 · PDBe 6CW2 · UniProt Q03330 · UniProt A0A250W8G8
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