Research workbench
Crystal structure of uroporphyrinogen decarboxylase from aquifex aeolicus
Analyse Crystal structure of uroporphyrinogen decarboxylase from aquifex aeolicus in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2EJA
- Type
- protein
- Length
- 673 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Uroporphyrinogen decarboxylase
- EC
- 4.1.1.37
- UniProt
- O66667
- Pockets
- 4 · best druggability 0.76
Structure
x-ray diffraction · 2 distinct chains · 51% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Uroporphyrinogen decarboxylase (EC 4.1.1.37) | protein | 337 | 51% helix, 12% strand | O66667 |
| B | Uroporphyrinogen decarboxylase (EC 4.1.1.37) | protein | 336 | 51% helix, 12% strand | O66667 |
Ligands and binding sites
- ACT · Acetate ion · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 391 | 0.76 | 0.86 | 36 | empty |
| 2 | 369 | 0.75 | 0.85 | 38 | empty |
| 3 | 374 | 0.70 | 0.82 | 55 | empty |
| 4 | 324 | 0.60 | 0.78 | 30 | empty |
Interfaces
1 interface between chains.
- A–B · 1139 Ų buried · 18 hydrogen bonds · protein-protein
Compared structures
- 2EJA · Crystal Structure Of Uroporphyrinogen Decarboxylase From Aquifex aeolicus · the same entry in another collection · chain A against A, TM-score 1.00
- O66667 · AlphaFold monomer V2.0 prediction for uroporphyrinogen decarboxylase (O66667) · a predicted model of the same protein · chain B 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 O66667
- Elsewhere: RCSB PDB 2EJA · PDBe 2EJA · UniProt O66667
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.