MolNFT v1 · #52707 · protein
Spt with plp, N100Y
2W8U · Serine palmitoyltransferase: “Spt with plp, N100Y”. X-ray diffraction, 1 ligand (PLP), 3 pockets (best druggability 0.38). MolNFT v1 #52707 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 2W8U
- Type
- protein
- Length
- 397 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Serine palmitoyltransferase
- UniProt
- Q93UV0
- Ligands
- PLP
- Pockets
- 3 · best druggability 0.38
Structure
x-ray diffraction · 1 distinct chain · 43% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Serine palmitoyltransferase | protein | 397 | 43% helix, 18% strand | Q93UV0 |
Ligands and binding sites
- PLP · Pyridoxal-5'-phosphate · 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, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 111 | 0.38 | 0.75 | 21 | empty |
| 2 | 63 | 0.37 | 0.78 | 16 | empty |
| 3 | 59 | 0.34 | 0.78 | 14 | empty |
Modifications
Observed in the structure: 1 cofactor (pyridoxal phosphate Schiff base).
Compared structures
- 2W8U · SPT with PLP, N100Y · 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 Q93UV0
- Elsewhere: RCSB PDB 2W8U · PDBe 2W8U · UniProt Q93UV0
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.