Research workbench
Crystal structure of UCH37-nfrkb inhibited deubiquitylating complex
Analyse Crystal structure of UCH37-nfrkb inhibited deubiquitylating complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4WLP
- Type
- protein
- Length
- 410 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ubiquitin carboxyl-terminal hydrolase isozyme L5; Nuclear factor related to…
- EC
- 3.4.19.12
- UniProt
- Q9Y5K5, Q6P4R8
- Pockets
- 6 · best druggability 0.69
Structure
x-ray diffraction · 2 distinct chains · 59% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ubiquitin carboxyl-terminal hydrolase isozyme L5 (EC 3.4.19.12) | protein | 296 | 53% helix, 15% strand | Q9Y5K5 |
| B | Nuclear factor related to kappa-B-binding protein | protein | 114 | 74% helix, 0% strand | Q6P4R8 |
Pockets
6 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 543 | 0.69 | 0.79 | 46 | empty |
| 2 | 308 | 0.66 | 0.81 | 36 | empty |
| 3 | 171 | 0.50 | 0.77 | 26 | empty |
| 4 | 77 | 0.39 | 0.78 | 17 | empty |
| 5 | 89 | 0.36 | 0.75 | 17 | empty |
Interfaces
1 interface between chains.
- A–B · 2482 Ų buried · 17 hydrogen bonds · protein-protein
Compared structures
- 4WLP · Crystal structure of UCH37-NFRKB Inhibited Deubiquitylating Complex · the same entry in another collection · chain A against A, TM-score 1.00
- Q6P4R8 · AlphaFold monomer V2.0 prediction for nuclear factor related to kappa-B-binding protein… · a predicted model of the same protein · chain B against A, TM-score 0.92
- Q9Y5K5 · AlphaFold monomer V2.0 prediction for ubiquitin carboxyl-terminal hydrolase isozyme L5… · a predicted model of the same protein · chain A against A, TM-score 0.77
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 Q9Y5K5
- Every structure of UniProt Q6P4R8
- Elsewhere: RCSB PDB 4WLP · PDBe 4WLP · UniProt Q9Y5K5 · UniProt Q6P4R8
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