Research workbench
Crystal structure of the LYS29, LYS33-linkage-specific trabid otu deubiquitinase domain reveals an ankyrin-repeat ubiquitin binding domain (ankubd)
Analyse Crystal structure of the LYS29, LYS33-linkage-specific trabid otu… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3ZRH
- Type
- protein
- Length
- 428 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ubiquitin thioesterase ZRANB1
- EC
- 3.4.19.12
- UniProt
- Q9UGI0
- Ligands
- CL
- Pockets
- 3 · best druggability 0.63
Structure
x-ray diffraction · 1 distinct chain · 48% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ubiquitin thioesterase ZRANB1 (EC 3.4.19.12) | protein | 428 | 48% helix, 13% strand | Q9UGI0 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 310 | 0.63 | 0.80 | 35 | empty |
| 2 | 108 | 0.55 | 0.84 | 22 | empty |
| 3 | 209 | 0.52 | 0.77 | 32 | empty |
Compared structures
- 3ZRH · Crystal structure of the Lys29, Lys33-linkage-specific TRABID OTU deubiquitinase domain… · the same entry in another collection · chain A against A, TM-score 1.00
- Q9UGI0 · AlphaFold monomer V2.0 prediction for ubiquitin thioesterase ZRANB1 (Q9UGI0) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 Q9UGI0
- Elsewhere: RCSB PDB 3ZRH · PDBe 3ZRH · UniProt Q9UGI0
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