Research workbench
Crystal structure of pucm in the presence of 5,6-diaminouracil
Analyse Crystal structure of pucm in the presence of 5,6-diaminouracil in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2H0J
- Type
- protein
- Length
- 226 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Transthyretin-like protein pucm
- UniProt
- O32142
- Ligands
- URN
- Pockets
- 1 · best druggability 0.44
Structure
x-ray diffraction · 2 distinct chains · 7% helix, 44% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Transthyretin-like protein pucm | protein | 112 | 8% helix, 44% strand | O32142 |
| B | Transthyretin-like protein pucm | protein | 114 | 6% helix, 45% strand | O32142 |
Ligands and binding sites
- URN · 5,6-diaminopyrimidine-2,4(1H,3H)-dione · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
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 | 136 | 0.44 | 0.76 | 18 | empty |
Interfaces
1 interface between chains.
- A–B · 444 Ų buried · 8 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 9 modified (engineered).
Compared structures
- 2H0J · Crystal structure of PucM in the presence of 5,6-diaminouracil · the same entry in another collection · chain A against A, TM-score 1.00
- O32142 · AlphaFold monomer V2.0 prediction for 5-hydroxyisourate hydrolase (O32142) · a predicted model of the same protein · chain A against A, TM-score 0.98
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 O32142
- Elsewhere: RCSB PDB 2H0J · PDBe 2H0J · UniProt O32142
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