MolNFT v2 · #117943 · protein
Crystal structure of Danio rerio histone deacetylase 6 catalytic domain 2
5EEM: “Crystal structure of Danio rerio histone deacetylase 6 catalytic domain 2”. X-ray diffraction at 2, 3 ligands (K, ZN, NA). MolNFT v2 #117943 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5EEM
- Type
- protein
- Length
- 707 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2
- Source
- Danio rerio
- UniProt
- A7YT55
- Ligands
- K, ZN, NA
Structure
x-ray diffraction · resolution 2 · 2 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | — | protein | 353 | — | A7YT55 |
| A | — | protein | 354 | — | A7YT55 |
Ligands and binding sites
- K · Potassium ion · metal · 4 copies · chains B, A
- ZN · Zinc ion · metal · 2 copies · chains B, A
- NA · Sodium ion · metal · chains B
- FMT · Formic acid · additive · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 5EEM · Crystal structure of danio rerio histone deacetylase 6 catalytic domain 2 · the same entry in another collection · chain A against A, TM-score 1.00
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 A7YT55
- Elsewhere: RCSB PDB 5EEM · PDBe 5EEM · UniProt A7YT55
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