Research workbench
Crystal structure of the scan domain from human paternally expressed gene 3 protein
Analyse Crystal structure of the scan domain from human paternally expressed gene 3… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4BHX
- Type
- protein
- Length
- 182 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Paternally-expressed gene 3 protein
- UniProt
- Q9GZU2
- Pockets
- 2 · best druggability 0.42
Structure
x-ray diffraction · 2 distinct chains · 70% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Paternally-expressed gene 3 protein | protein | 90 | 70% helix, 0% strand | Q9GZU2 |
| B | Paternally-expressed gene 3 protein | protein | 92 | 70% helix, 0% strand | Q9GZU2 |
Ligands and binding sites
- EDO · 1,2-ethanediol · additive · 21 copies · chains A, B
- PEG · Di(hydroxyethyl)ether · additive · 4 copies · chains A, B
- PGE · Triethylene glycol · additive · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 168 | 0.42 | 0.73 | 17 | PEG, EDO |
| 2 | 127 | 0.41 | 0.75 | 17 | PGE |
Interfaces
1 interface between chains.
- A–B · 1806 Ų buried · 24 hydrogen bonds · protein-protein
Compared structures
- 4BHX · Crystal structure of the SCAN domain from human paternally expressed gene 3 protein · the same entry in another collection · chain A against A, TM-score 1.00
- Q9GZU2 · AlphaFold monomer V2.0 prediction for paternally-expressed gene 3 protein (Q9GZU2) · a predicted model of the same protein · chain A against A, TM-score 0.86
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 Q9GZU2
- Elsewhere: RCSB PDB 4BHX · PDBe 4BHX · UniProt Q9GZU2
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