MolNFT v1 · #104061 · protein
Crystal structure of human sorting nexin 10 (SNX10)
4PZG · Sorting nexin-10: “Crystal structure of human sorting nexin 10 (SNX10)”. X-ray diffraction, 1 ligand (NO3), 4 pockets (best druggability 0.52). MolNFT v1 #104061 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 4PZG
- Type
- protein
- Length
- 302 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Sorting nexin-10
- UniProt
- Q9Y5X0
- Ligands
- NO3
- Pockets
- 4 · best druggability 0.52
Structure
x-ray diffraction · 2 distinct chains · 44% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Sorting nexin-10 | protein | 152 | 45% helix, 18% strand | Q9Y5X0 |
| B | Sorting nexin-10 | protein | 150 | 43% helix, 21% strand | Q9Y5X0 |
Ligands and binding sites
- NO3 · Nitrate ion · ion · 11 copies · chains A, B
- PE5 · 3,6,9,12,15,18,21,24-octaoxahexacosan-1-ol · additive · 7 copies · chains A, B
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 | 153 | 0.52 | 0.79 | 32 | PE5 |
| 2 | 64 | 0.36 | 0.78 | 10 | NO3 |
| 3 | 78 | 0.34 | 0.75 | 16 | empty |
| 4 | 64 | 0.32 | 0.75 | 13 | NO3 |
Interfaces
1 interface between chains.
- A–B · 847 Ų buried · 8 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (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 Q9Y5X0
- Elsewhere: RCSB PDB 4PZG · PDBe 4PZG · UniProt Q9Y5X0
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