MolNFT v1 · #107860 · protein
Crystal structure of the wild-type diacylglycerol kinase refolded in the lipid cubic phase
4UP6: “Crystal structure of the wild-type diacylglycerol kinase refolded in the lipid cubic phase”. X-ray diffraction, 8 pockets (best druggability 0.76). MolNFT v1 #107860 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 4UP6
- Type
- protein
- Length
- 323 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Diacylglycerol kinase
- EC
- 2.7.1.107
- UniProt
- P0ABN1
- Pockets
- 8 · best druggability 0.76
Structure
x-ray diffraction · 3 distinct chains · 85% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Diacylglycerol kinase (EC 2.7.1.107) | protein | 114 | 84% helix, 0% strand | P0ABN1 |
| B | Diacylglycerol kinase (EC 2.7.1.107) | protein | 117 | 85% helix, 0% strand | P0ABN1 |
| C | Diacylglycerol kinase (EC 2.7.1.107) | protein | 92 | 87% helix, 0% strand | P0ABN1 |
Pockets
8 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 98 | 0.76 | 0.96 | 20 | empty |
| 2 | 322 | 0.57 | 0.76 | 30 | empty |
| 3 | 83 | 0.47 | 0.82 | 20 | empty |
| 4 | 130 | 0.45 | 0.76 | 21 | empty |
| 5 | 136 | 0.42 | 0.75 | 21 | empty |
Interfaces
3 interfaces between chains.
- B–C · 1419 Ų buried · 9 hydrogen bonds · protein-protein
- A–B · 1367 Ų buried · 9 hydrogen bonds · protein-protein
- A–C · 982 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 4UP6 · Crystal structure of the wild-type diacylglycerol kinase refolded in the lipid cubic phase · 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 P0ABN1
- Elsewhere: RCSB PDB 4UP6 · PDBe 4UP6 · UniProt P0ABN1
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.