Research workbench
Crystal Structure of UDP-Glucuronic acid 4-epimerase from Bacillus cereus in complex with UDP and NAD
Analyse Crystal Structure of UDP-Glucuronic acid 4-epimerase from Bacillus cereus in… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6ZL6
- Type
- protein
- Length
- 628 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 1.7
- Source
- Bacillus cereus HuA2-4
- Molecule
- Epimerase domain-containing protein
- UniProt
- J8BY31
- Ligands
- UDP, NAD
- Pockets
- 4 · best druggability 0.86
Structure
x-ray diffraction · resolution 1.7 · 1 distinct chain · 41% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Epimerase domain-containing protein | protein | 314 | 41% helix, 17% strand | J8BY31 |
Ligands and binding sites
- UDP · Uridine-5'-diphosphate · ligand · 2 copies · chains A, B
- NAD · Nicotinamide-adenine-dinucleotide · ligand · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 479 | 0.86 | 0.93 | 61 | UDP, NAD |
| 2 | 602 | 0.86 | 0.91 | 69 | UDP, NAD |
| 3 | 75 | 0.40 | 0.79 | 18 | empty |
| 4 | 60 | 0.35 | 0.78 | 18 | empty |
Interfaces
1 interface between chains.
- A–B · 1348 Ų buried · 10 hydrogen bonds · protein-protein
Compared structures
- 6ZL6 · Crystal structure of udp-glucuronic acid 4-epimerase from bacillus cereus in complex with… · the same entry in another collection · chain A against A, TM-score 1.00
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 J8BY31
- Elsewhere: RCSB PDB 6ZL6 · PDBe 6ZL6 · UniProt J8BY31
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