MolNFT v1 · #50287 · protein
Crystal structure of human glycolate oxidase (go) in complex with cdst
2RDT · Hydroxyacid oxidase 1: “Crystal structure of human glycolate oxidase (go) in complex with cdst”. X-ray diffraction, 2 ligands (FMN, 2RD), 3 pockets (best druggability 0.78). MolNFT v1 #50287 on GenesisL1: 3D structure, binding sites…
- PDB
- 2RDT
- Type
- protein
- Length
- 335 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Hydroxyacid oxidase 1
- EC
- 1.1.3.15
- UniProt
- Q9UJM8
- Ligands
- FMN, 2RD
- Pockets
- 3 · best druggability 0.78
Structure
x-ray diffraction · 1 distinct chain · 47% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Hydroxyacid oxidase 1 (EC 1.1.3.15) | protein | 335 | 47% helix, 15% strand | Q9UJM8 |
Ligands and binding sites
- FMN · Flavin mononucleotide · ligand · chains A
- 2RD · 5-(dodecylthio)-1H-1,2,3-triazole-4-carboxylic acid · ligand · 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, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 206 | 0.78 | 0.92 | 38 | FMN, 2RD |
| 2 | 98 | 0.43 | 0.78 | 20 | empty |
| 3 | 63 | 0.30 | 0.74 | 14 | empty |
Compared structures
- 2RDT · Crystal Structure of Human Glycolate Oxidase (GO) in Complex with CDST · the same entry in another collection · chain A against A, TM-score 1.00
- Q9UJM8 · AlphaFold monomer V2.0 prediction for hydroxyacid oxidase 1 (Q9UJM8) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 Q9UJM8
- Elsewhere: RCSB PDB 2RDT · PDBe 2RDT · UniProt Q9UJM8
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