MolNFT v1 · #70350 · protein
Crystal structure of a ketodeoxygluconokinase (kdgk) from shigella flexneri
3LHX: “Crystal structure of a ketodeoxygluconokinase (kdgk) from shigella flexneri”. X-ray diffraction, 3 pockets (best druggability 0.75). MolNFT v1 #70350 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 3LHX
- Type
- protein
- Length
- 595 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ketodeoxygluconokinase
- UniProt
- Q83J55
- Pockets
- 3 · best druggability 0.75
Structure
x-ray diffraction · 2 distinct chains · 41% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ketodeoxygluconokinase | protein | 300 | 40% helix, 23% strand | Q83J55 |
| B | Ketodeoxygluconokinase | protein | 295 | 41% helix, 23% strand | Q83J55 |
Pockets
3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1001 | 0.75 | 0.78 | 116 | empty |
| 2 | 370 | 0.64 | 0.79 | 52 | empty |
| 3 | 77 | 0.36 | 0.76 | 12 | empty |
Interfaces
1 interface between chains.
- A–B · 852 Ų buried · 9 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 10 modified (engineered).
Compared structures
- 3LHX · Crystal structure of a Ketodeoxygluconokinase (kdgk) from Shigella flexneri · the same entry in another collection · 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 Q83J55
- Elsewhere: RCSB PDB 3LHX · PDBe 3LHX · UniProt Q83J55
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