Research workbench
Nerol dehydrogenase from persicaria minor
Analyse Nerol dehydrogenase from persicaria minor in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5Z0C
- Type
- protein
- Length
- 367 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Nerol dehydrogenase
- UniProt
- J7JYU1
- Ligands
- ZN
- Pockets
- 3 · best druggability 0.61
Structure
x-ray diffraction · 1 distinct chain · 30% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Nerol dehydrogenase | protein | 367 | 30% helix, 27% strand | J7JYU1 |
Ligands and binding sites
- ZN · Zinc ion · metal · 2 copies · chains A
- GOL · Glycerol · additive · 2 copies · chains A
- BME · Beta-mercaptoethanol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 301 | 0.61 | 0.79 | 40 | BME |
| 2 | 259 | 0.56 | 0.77 | 27 | empty |
| 3 | 52 | 0.54 | 0.89 | 17 | empty |
Compared structures
- 5Z0C · Nerol dehydrogenase from Persicaria minor · 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 J7JYU1
- Elsewhere: RCSB PDB 5Z0C · PDBe 5Z0C · UniProt J7JYU1
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