Research workbench
Crystal structure of USP18-ISG15 complex
Analyse Crystal structure of USP18-ISG15 complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5CHV
- Type
- protein
- Length
- 910 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ubl carboxyl-terminal hydrolase 18; Ubiquitin-like protein ISG15
- EC
- 3.4.19.-
- UniProt
- Q9WTV6, Q64339
- Ligands
- AYE, ZN, SO4, CL
- Pockets
- 16 · best druggability 0.79
Structure
x-ray diffraction · 3 distinct chains · 28% helix, 34% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ubl carboxyl-terminal hydrolase 18 (EC 3.4.19.-) | protein | 304 | 29% helix, 33% strand | Q9WTV6 |
| C, D | Ubiquitin-like protein ISG15 | protein | 153 | 24% helix, 36% strand | Q64339 |
| B | Ubl carboxyl-terminal hydrolase 18 (EC 3.4.19.-) | protein | 300 | 28% helix, 33% strand | Q9WTV6 |
Ligands and binding sites
- AYE · prop-2-en-1-amine · ligand · 2 copies · chains A, C, B, D
- ZN · Zinc ion · metal · 2 copies · chains A, B
- SO4 · Sulfate ion · ion · 2 copies · chains A, B
- CL · Chloride ion · ion · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
16 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 144 | 0.79 | 0.96 | 44 | empty |
| 2 | 633 | 0.70 | 0.78 | 63 | SO4 |
| 3 | 332 | 0.65 | 0.80 | 38 | empty |
| 4 | 388 | 0.61 | 0.77 | 39 | SO4 |
| 5 | 61 | 0.53 | 0.86 | 16 | empty |
Interfaces
3 interfaces between chains.
- A–C · 2208 Ų buried · 24 hydrogen bonds · protein-protein
- B–D · 1948 Ų buried · 24 hydrogen bonds · protein-protein
- A–B · 797 Ų buried · 3 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 covalent (covalent ligand).
Compared structures
- 5CHV · Crystal structure of USP18-ISG15 complex · the same entry in another collection · chain A against A, TM-score 1.00
- Q9WTV6 · AlphaFold monomer V2.0 prediction for ubl carboxyl-terminal hydrolase 18 (Q9WTV6) · a predicted model of the same protein · chain B against A, TM-score 0.99
- Q64339 · AlphaFold monomer V2.0 prediction for ubiquitin-like protein ISG15 (Q64339) · a predicted model of the same protein · chain C against A, TM-score 0.82
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 Q9WTV6
- Every structure of UniProt Q64339
- Elsewhere: RCSB PDB 5CHV · PDBe 5CHV · UniProt Q9WTV6 · UniProt Q64339
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.