MolNFT v1 · #89130 · protein
Crystal structure of domains 1 and 2 of LRP6
4DG6 · Low-density lipoprotein receptor-related protein 6: “Crystal structure of domains 1 and 2 of LRP6”. X-ray diffraction, 2 ligands (NAG, PO4), 4 pockets (best druggability 0.80). MolNFT v1 #89130 on GenesisL1: 3D structure, binding…
- PDB
- 4DG6
- Type
- protein
- Length
- 616 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Low-density lipoprotein receptor-related protein 6
- UniProt
- O75581
- Ligands
- NAG, PO4
- Pockets
- 4 · best druggability 0.80
Structure
x-ray diffraction · 1 distinct chain · 2% helix, 43% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Low-density lipoprotein receptor-related protein 6 | protein | 616 | 2% helix, 43% strand | O75581 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 6 copies · chains A
- PO4 · Phosphate ion · ion · 2 copies · 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, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 407 | 0.80 | 0.89 | 54 | empty |
| 2 | 255 | 0.75 | 0.88 | 47 | PO4 |
| 3 | 397 | 0.59 | 0.76 | 54 | empty |
| 4 | 91 | 0.33 | 0.74 | 18 | empty |
Modifications
Observed in the structure: 3 glycan (N-glycosylation).
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 O75581
- Elsewhere: RCSB PDB 4DG6 · PDBe 4DG6 · UniProt O75581
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