MolNFT v1 · #38904 · protein
USP2 in complex with ubiquitin
2HD5 · Ubiquitin carboxyl-terminal hydrolase 2: “USP2 in complex with ubiquitin”. X-ray diffraction, 1 ligand (ZN), 3 pockets (best druggability 0.61). MolNFT v1 #38904 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 2HD5
- Type
- protein
- Length
- 391 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ubiquitin carboxyl-terminal hydrolase 2; Polyubiquitin
- EC
- 3.1.2.15
- UniProt
- O75604, Q24K23
- Ligands
- ZN
- Pockets
- 3 · best druggability 0.61
Structure
x-ray diffraction · 2 distinct chains · 30% helix, 31% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ubiquitin carboxyl-terminal hydrolase 2 (EC 3.1.2.15) | protein | 315 | 32% helix, 30% strand | O75604 |
| B | Polyubiquitin | protein | 76 | 21% helix, 32% strand | Q24K23 |
Ligands and binding sites
- ZN · Zinc ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 137 | 0.61 | 0.85 | 32 | empty |
| 2 | 63 | 0.33 | 0.77 | 16 | empty |
| 3 | 51 | 0.30 | 0.76 | 18 | empty |
Interfaces
1 interface between chains.
- A–B · 2010 Ų buried · 42 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 O75604
- Every structure of UniProt Q24K23
- Elsewhere: RCSB PDB 2HD5 · PDBe 2HD5 · UniProt O75604 · UniProt Q24K23
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