MolNFT v1 · #52709 · protein
N100Y spt with plp-ser
2W8W · Serine palmitoyltransferase: “N100Y spt with plp-ser”. X-ray diffraction, 1 ligand (PLS), 4 pockets (best druggability 0.47). MolNFT v1 #52709 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 2W8W
- 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
- PLS
- Pockets
- 4 · best druggability 0.47
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
- PLS · [3-hydroxy-2-methyl-5-phosphonooxymethyl-pyridin-4-ylmethyl]-serine · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 188 | 0.47 | 0.75 | 36 | PLS |
| 2 | 71 | 0.36 | 0.77 | 15 | empty |
| 3 | 69 | 0.35 | 0.76 | 16 | empty |
| 4 | 53 | 0.26 | 0.73 | 19 | empty |
Compared structures
- 2W8W · N100Y SPT with PLP-ser · 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 2W8W · PDBe 2W8W · UniProt Q93UV0
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.