Research workbench
Crystal structure of fructokinase with ADP and fructose bound in the active site
Analyse Crystal structure of fructokinase with ADP and fructose bound in the active site in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3LM9
- Type
- protein
- Length
- 294 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Fructokinase
- EC
- 2.7.1.4
- UniProt
- O05510
- Ligands
- ADP, FRU, ZN, SO4
- Pockets
- 2 · best druggability 0.68
Structure
x-ray diffraction · 1 distinct chain · 40% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Fructokinase (EC 2.7.1.4) | protein | 294 | 40% helix, 20% strand | O05510 |
Ligands and binding sites
- ADP · Adenosine-5'-diphosphate · ligand · chains A
- FRU · beta-D-fructofuranose · sugar · chains A
- ZN · Zinc ion · metal · chains A
- SO4 · Sulfate ion · ion · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 577 | 0.68 | 0.78 | 60 | FRU |
| 2 | 129 | 0.45 | 0.77 | 22 | empty |
Modifications
Observed in the structure: 8 modified (engineered, methylation).
Compared structures
- 3LM9 · Crystal structure of fructokinase with ADP and Fructose bound in the active site · the same entry in another collection · chain A against A, TM-score 1.00
- O05510 · AlphaFold monomer V2.0 prediction for putative fructokinase (O05510) · 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 O05510
- Elsewhere: RCSB PDB 3LM9 · PDBe 3LM9 · UniProt O05510
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