MolNFT v1 · #146936 · protein
Structure of USP5 zinc-finger ubiquitin binding domain co-crystallized with 4-(4-tert-butylphenyl)-4-oxobutanoate
6DXH · Ubiquitin carboxyl-terminal hydrolase 5: “Structure of USP5 zinc-finger ubiquitin binding domain co-crystallized with…”. X-ray diffraction, 3 ligands (HH4, ZN, UNX), 1 pocket (best druggability 0.34). MolNFT v1 #146936 on GenesisL1…
- PDB
- 6DXH
- Type
- protein
- Length
- 117 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ubiquitin carboxyl-terminal hydrolase 5
- EC
- 3.4.19.12
- UniProt
- P45974
- Ligands
- HH4, ZN, UNX
- Pockets
- 1 · best druggability 0.34
Structure
x-ray diffraction · 1 distinct chain · 13% helix, 21% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ubiquitin carboxyl-terminal hydrolase 5 (EC 3.4.19.12) | protein | 117 | 13% helix, 21% strand | P45974 |
Ligands and binding sites
- HH4 · 4-(4-tert-butylphenyl)-4-oxobutanoic acid · ligand · chains A
- ZN · Zinc ion · metal · chains A
- UNX · Unknown atom or ion · ion · 7 copies · chains A
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 | 52 | 0.34 | 0.78 | 14 | HH4 |
Compared structures
- 6DXH · Structure of USP5 zinc-finger ubiquitin binding domain co-crystallized with… · the same entry in another collection · chain A against A, TM-score 1.00
- P45974 · AlphaFold monomer V2.0 prediction for ubiquitin carboxyl-terminal hydrolase 5 (P45974) · a predicted model of the same protein · chain A against A, TM-score 0.94
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 P45974
- Elsewhere: RCSB PDB 6DXH · PDBe 6DXH · UniProt P45974
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.