MolNFT v1 · #106397 · protein
Crystal structure of the N-terminal domain of human ubiquitin specific protease 38
4RXX · Ubiquitin carboxyl-terminal hydrolase 38: “Crystal structure of the N-terminal domain of human ubiquitin specific protease 38”. X-ray diffraction, 2 ligands (UNX, CL), 2 pockets (best druggability 0.58). MolNFT v1 #106397 on…
- PDB
- 4RXX
- Type
- protein
- Length
- 426 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ubiquitin carboxyl-terminal hydrolase 38
- EC
- 3.4.19.12
- UniProt
- Q8NB14
- Ligands
- UNX, CL
- Pockets
- 2 · best druggability 0.58
Structure
x-ray diffraction · 1 distinct chain · 73% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ubiquitin carboxyl-terminal hydrolase 38 (EC 3.4.19.12) | protein | 426 | 73% helix, 0% strand | Q8NB14 |
Ligands and binding sites
- UNX · Unknown atom or ion · ion · 5 copies · chains A
- CL · Chloride ion · ion · chains A
- EDO · 1,2-ethanediol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 53 | 0.58 | 0.90 | 20 | empty |
| 2 | 52 | 0.29 | 0.75 | 16 | empty |
Modifications
Observed in the structure: 10 modified (engineered).
Compared structures
- 4RXX · Crystal Structure of the N-terminal Domain of Human Ubiquitin Specific Protease 38 · the same entry in another collection · chain A against A, TM-score 1.00
- Q8NB14 · AlphaFold monomer V2.0 prediction for ubiquitin carboxyl-terminal hydrolase 38 (Q8NB14) · a predicted model of the same protein · chain A against A, TM-score 1.00
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 Q8NB14
- Elsewhere: RCSB PDB 4RXX · PDBe 4RXX · UniProt Q8NB14
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