MolNFT v1 · #13932 · protein
Crystal structure of the E110Q mutant of L-3-hydroxyacyl-CoA dehydrogenase in complex with NAD
1LSJ: “Crystal structure of the E110Q mutant of L-3-hydroxyacyl-CoA dehydrogenase in complex with NAD”. X-ray diffraction, 1 ligand (NAD), 10 pockets (best druggability 0.70). MolNFT v1 #13932 on GenesisL1: 3D structure, binding sites and…
- PDB
- 1LSJ
- Type
- protein
- Length
- 582 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 3-hydroxyacyl-CoA dehydrogenase
- EC
- 1.1.1.35
- UniProt
- Q16836
- Ligands
- NAD
- Pockets
- 10 · best druggability 0.70
Structure
x-ray diffraction · 1 distinct chain · 52% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | 3-hydroxyacyl-CoA dehydrogenase (EC 1.1.1.35) | protein | 291 | 52% helix, 15% strand | Q16836 |
Ligands and binding sites
- NAD · Nicotinamide-adenine-dinucleotide · ligand · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
10 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 451 | 0.70 | 0.81 | 44 | NAD |
| 2 | 453 | 0.69 | 0.80 | 47 | NAD |
| 3 | 68 | 0.37 | 0.77 | 14 | empty |
| 4 | 50 | 0.34 | 0.78 | 17 | empty |
| 5 | 77 | 0.30 | 0.73 | 17 | empty |
Interfaces
1 interface between chains.
- A–B · 1658 Ų buried · 9 hydrogen bonds · protein-protein
Compared structures
- 1LSJ · Crystal Structure of the E110Q Mutant of L-3-Hydroxyacyl-CoA Dehydrogenase in Complex… · the same entry in another collection · chain A against A, TM-score 1.00
- Q16836 · AlphaFold monomer V2.0 prediction for hydroxyacyl-coenzyme a dehydrogenase, mitochondrial… · 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 Q16836
- Elsewhere: RCSB PDB 1LSJ · PDBe 1LSJ · UniProt Q16836
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