Research workbench
Structure of the complex of ubiquitin and the ubiquitin-like (ubl) domain of DDI1
Analyse Structure of the complex of ubiquitin and the ubiquitin-like (ubl) domain of… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2MWS
- Type
- protein
- Length
- 155 residues
- Chains
- 2
- Method
- solution nmr
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ubiquitin; DNA damage-inducible protein 1
- UniProt
- P0CG48, P40087
- Pockets
- 1 · best druggability 0.46
Structure
solution nmr · 2 distinct chains · 22% helix, 29% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ubiquitin | protein | 76 | 24% helix, 34% strand | P0CG48 |
| B | DNA damage-inducible protein 1 | protein | 79 | 20% helix, 24% strand | P40087 |
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 101 | 0.46 | 0.79 | 19 | empty |
Interfaces
1 interface between chains.
- A–B · 747 Ų buried · 15 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 modified (nonstandard).
Compared structures
- 2MWS · Structure of the complex of ubiquitin and the ubiquitin-like (UBL) domain of Ddi1 · the same entry in another collection · chain A against A, TM-score 1.00
- P40087 · AlphaFold monomer V2.0 prediction for DNA damage-inducible protein 1 (P40087) · a predicted model of the same protein · chain B against A, TM-score 0.79
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 P0CG48
- Every structure of UniProt P40087
- Elsewhere: RCSB PDB 2MWS · PDBe 2MWS · UniProt P0CG48 · UniProt P40087
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