MolNFT v1 · #41236 · protein
Structural evidence for a ligand coordination switch in liver alcohol dehydrogenase
2JHF · Alcohol dehydrogenase E chain: “Structural evidence for a ligand coordination switch in liver alcohol dehydrogenase”. X-ray diffraction, 2 ligands (NAD, CD), 4 pockets (best druggability 0.75). MolNFT v1 #41236 on GenesisL1: 3D…
- PDB
- 2JHF
- Type
- protein
- Length
- 748 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Alcohol dehydrogenase E chain
- EC
- 1.1.1.1
- UniProt
- P00327
- Ligands
- NAD, CD
- Pockets
- 4 · best druggability 0.75
Structure
x-ray diffraction · 1 distinct chain · 30% helix, 25% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Alcohol dehydrogenase E chain (EC 1.1.1.1) | protein | 374 | 30% helix, 25% strand | P00327 |
Ligands and binding sites
- NAD · Nicotinamide-adenine-dinucleotide · ligand · 2 copies · chains A, B
- CD · Cadmium ion · metal · 4 copies · chains A, B
- DMS · Dimethyl sulfoxide · additive · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 533 | 0.75 | 0.83 | 63 | NAD, DMS |
| 2 | 409 | 0.74 | 0.84 | 46 | NAD, DMS |
| 3 | 414 | 0.65 | 0.79 | 48 | empty |
| 4 | 205 | 0.50 | 0.76 | 32 | empty |
Interfaces
1 interface between chains.
- A–B · 1772 Ų buried · 31 hydrogen bonds · protein-protein
Compared structures
- 2JHF · Structural evidence for a ligand coordination switch in liver alcohol dehydrogenase · the same entry in another collection · chain A against A, TM-score 1.00
- P00327 · AlphaFold monomer V2.0 prediction for alcohol dehydrogenase E chain (P00327) · a predicted model of the same protein · 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 P00327
- Elsewhere: RCSB PDB 2JHF · PDBe 2JHF · UniProt P00327
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