MolNFT v1 · #154279 · protein
Structure of uridylyltransferase
6K5Z · Galactose-1-phosphate uridylyltransferase: “Structure of uridylyltransferase”. X-ray diffraction, 3 ligands (ZN, FE, PO4), 8 pockets (best druggability 0.79). MolNFT v1 #154279 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 6K5Z
- Type
- protein
- Length
- 623 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Galactose-1-phosphate uridylyltransferase
- UniProt
- Q8ZXN7
- Ligands
- ZN, FE, PO4
- Pockets
- 8 · best druggability 0.79
Structure
x-ray diffraction · 2 distinct chains · 31% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Galactose-1-phosphate uridylyltransferase | protein | 309 | 30% helix, 23% strand | Q8ZXN7 |
| B | Galactose-1-phosphate uridylyltransferase | protein | 314 | 31% helix, 22% strand | Q8ZXN7 |
Ligands and binding sites
- ZN · Zinc ion · metal · 4 copies · chains A, B
- FE · Fe (III) ion · metal · 2 copies · chains A, B
- PO4 · Phosphate ion · ion · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 580 | 0.79 | 0.85 | 54 | PO4 |
| 2 | 532 | 0.74 | 0.82 | 42 | PO4 |
| 3 | 285 | 0.65 | 0.81 | 38 | empty |
| 4 | 66 | 0.44 | 0.82 | 17 | empty |
| 5 | 53 | 0.38 | 0.81 | 13 | empty |
Interfaces
1 interface between chains.
- A–B · 3290 Ų buried · 50 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 6K5Z · Structure of uridylyltransferase · 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 Q8ZXN7
- Elsewhere: RCSB PDB 6K5Z · PDBe 6K5Z · UniProt Q8ZXN7
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