MolNFT v1 · #125055 · protein
Crystal structure of L-aspartate oxidase from salmonella typhimurium in the complex with substrate L-aspartate
5KXJ: “Crystal structure of L-aspartate oxidase from salmonella typhimurium in the complex with substrate L-aspartate”. X-ray diffraction, 2 ligands (ASP, SO4), 4 pockets (best druggability 0.65). MolNFT v1 #125055 on GenesisL1: 3D…
- PDB
- 5KXJ
- Type
- protein
- Length
- 481 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- L-aspartate oxidase
- EC
- 1.4.3.16
- UniProt
- Q8ZMX9
- Ligands
- ASP, SO4
- Pockets
- 4 · best druggability 0.65
Structure
x-ray diffraction · 1 distinct chain · 42% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | L-aspartate oxidase (EC 1.4.3.16) | protein | 481 | 42% helix, 20% strand | Q8ZMX9 |
Ligands and binding sites
- ASP · Aspartic acid · ligand · chains A
- SO4 · Sulfate ion · ion · chains A
- EDO · 1,2-ethanediol · additive · 5 copies · chains A
- GOL · Glycerol · additive · 3 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 407 | 0.65 | 0.79 | 47 | ASP |
| 2 | 180 | 0.49 | 0.77 | 28 | EDO |
| 3 | 79 | 0.34 | 0.75 | 19 | GOL |
| 4 | 57 | 0.28 | 0.74 | 16 | empty |
Compared structures
- 5KXJ · Crystal Structure of L-Aspartate Oxidase from Salmonella typhimurium in the Complex with… · the same entry in another collection · chain A against A, TM-score 1.00
- Q8ZMX9 · AlphaFold monomer V2.0 prediction for L-aspartate oxidase (Q8ZMX9) · a predicted model of the same protein · chain A against A, TM-score 0.93
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 Q8ZMX9
- Elsewhere: RCSB PDB 5KXJ · PDBe 5KXJ · UniProt Q8ZMX9
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.