MolNFT v1 · #176680 · protein
Crystal structure of VIM1 phd finger.
7DUF · E3 ubiquitin-protein ligase orthrus 2: “Crystal structure of VIM1 phd finger.”. X-ray diffraction, 1 ligand (ZN), 1 pocket (best druggability 0.37). MolNFT v1 #176680 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 7DUF
- Type
- protein
- Length
- 119 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- E3 ubiquitin-protein ligase orthrus 2
- EC
- 2.3.2.27
- UniProt
- Q8VYZ0
- Ligands
- ZN
- Pockets
- 1 · best druggability 0.37
Structure
x-ray diffraction · 2 distinct chains · 15% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | E3 ubiquitin-protein ligase orthrus 2 (EC 2.3.2.27) | protein | 62 | 18% helix, 13% strand | Q8VYZ0 |
| B | E3 ubiquitin-protein ligase orthrus 2 (EC 2.3.2.27) | protein | 57 | 12% helix, 14% strand | Q8VYZ0 |
Ligands and binding sites
- ZN · Zinc ion · metal · 4 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 112 | 0.37 | 0.74 | 20 | empty |
Interfaces
1 interface between chains.
- A–B · 469 Ų buried · 0 hydrogen bonds · protein-protein
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 Q8VYZ0
- Elsewhere: RCSB PDB 7DUF · PDBe 7DUF · UniProt Q8VYZ0
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