MolNFT v1 · #99132 · protein
Crystal structure of orotidine 5'-monophosphate decarboxylase from methanocaldococcus jannaschii
4LUI · Orotidine 5'-phosphate decarboxylase: “Crystal structure of orotidine 5'-monophosphate decarboxylase from methanocaldococcus jannaschii”. X-ray diffraction, 1 ligand (CL), 3 pockets (best druggability 0.71). MolNFT v1 #99132 on…
- PDB
- 4LUI
- Type
- protein
- Length
- 418 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Orotidine 5'-phosphate decarboxylase
- EC
- 4.1.1.23
- UniProt
- Q57700
- Ligands
- CL
- Pockets
- 3 · best druggability 0.71
Structure
x-ray diffraction · 2 distinct chains · 47% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Orotidine 5'-phosphate decarboxylase (EC 4.1.1.23) | protein | 204 | 48% helix, 19% strand | Q57700 |
| B | Orotidine 5'-phosphate decarboxylase (EC 4.1.1.23) | protein | 214 | 46% helix, 19% strand | Q57700 |
Ligands and binding sites
- CL · Chloride ion · ion · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 438 | 0.71 | 0.82 | 51 | CL |
| 2 | 247 | 0.63 | 0.81 | 31 | empty |
| 3 | 72 | 0.41 | 0.79 | 15 | empty |
Interfaces
1 interface between chains.
- A–B · 1570 Ų buried · 20 hydrogen bonds · protein-protein
Compared structures
- 4LUI · Crystal structure of Orotidine 5'-monophosphate decarboxylase from methanocaldococcus… · the same entry in another collection · chain A against A, TM-score 1.00
- Q57700 · AlphaFold monomer V2.0 prediction for orotidine 5'-phosphate decarboxylase (Q57700) · a predicted model of the same protein · chain A against A, TM-score 0.95
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 Q57700
- Elsewhere: RCSB PDB 4LUI · PDBe 4LUI · UniProt Q57700
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.