Research workbench
Crystal structure of the rat USP11 dusp-ubl domains
Analyse Crystal structure of the rat USP11 dusp-ubl domains in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4MEM
- Type
- protein
- Length
- 428 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ubiquitin carboxyl-terminal hydrolase 11
- EC
- 3.4.19.12
- UniProt
- Q5D006
- Pockets
- 3 · best druggability 0.62
Structure
x-ray diffraction · 2 distinct chains · 25% helix, 29% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ubiquitin carboxyl-terminal hydrolase 11 (EC 3.4.19.12) | protein | 212 | 25% helix, 29% strand | Q5D006 |
| B | Ubiquitin carboxyl-terminal hydrolase 11 (EC 3.4.19.12) | protein | 216 | 25% helix, 29% strand | Q5D006 |
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 | 328 | 0.62 | 0.79 | 26 | empty |
| 2 | 122 | 0.41 | 0.76 | 15 | empty |
| 3 | 151 | 0.41 | 0.74 | 24 | empty |
Interfaces
1 interface between chains.
- A–B · 158 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 4MEM · Crystal Structure of the rat USP11 DUSP-UBL domains · the same entry in another collection · chain A against A, TM-score 1.00
- Q5D006 · AlphaFold monomer V2.0 prediction for ubiquitin carboxyl-terminal hydrolase 11 (Q5D006) · a predicted model of the same protein · chain A against A, TM-score 0.89
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 Q5D006
- Elsewhere: RCSB PDB 4MEM · PDBe 4MEM · UniProt Q5D006
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