MolNFT v1 · #169185 · protein
Sortilin-progranulin interaction with compound 2
6X3L: “Sortilin-progranulin interaction with compound 2”. X-ray diffraction, 2 ligands (UMJ, NAG), 4 pockets (best druggability 0.63). MolNFT v1 #169185 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6X3L
- Type
- protein
- Length
- 654 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Sortilin
- UniProt
- Q99523
- Ligands
- UMJ, NAG
- Pockets
- 4 · best druggability 0.63
Structure
x-ray diffraction · 1 distinct chain · 6% helix, 39% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Sortilin | protein | 654 | 6% helix, 39% strand | Q99523 |
Ligands and binding sites
- UMJ · 1-benzyl-3-tert-butyl-1H-pyrazole-5-carboxylic acid · ligand · chains A
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 4 copies · chains A
- GOL · Glycerol · additive · 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, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 492 | 0.63 | 0.76 | 59 | empty |
| 2 | 105 | 0.44 | 0.78 | 18 | UMJ |
| 3 | 99 | 0.36 | 0.75 | 24 | empty |
| 4 | 55 | 0.28 | 0.74 | 12 | empty |
Modifications
Observed in the structure: 2 glycan, 1 disulfide (N-glycosylation, disulfide).
Compared structures
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 Q99523
- Elsewhere: RCSB PDB 6X3L · PDBe 6X3L · UniProt Q99523
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.