Research workbench
UDP-galactose:glucoside-Skp1 alpha-D-galactosyltransferase with bound UDP and Manganese
Analyse UDP-galactose:glucoside-Skp1 alpha-D-galactosyltransferase with bound UDP and… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6MW8
- Type
- protein
- Length
- 239 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 1.756
- Source
- Pythium ultimum
- Molecule
- UDP-galactose:glucoside-Skp1 alpha-D-galactosyltransferase
- EC
- 2.4.1.87
- UniProt
- K3WC47
- Ligands
- UDP, MN
- Pockets
- 1 · best druggability 0.52
Structure
x-ray diffraction · resolution 1.756 · 1 distinct chain · 43% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | UDP-galactose:glucoside-Skp1 alpha-D-galactosyltransferase (EC 2.4.1.87) | protein | 239 | 43% helix, 19% strand | K3WC47 |
Ligands and binding sites
- UDP · Uridine-5'-diphosphate · ligand · chains A
- MN · Manganese (II) ion · metal · chains A
- ACT · Acetate ion · additive · 3 copies · chains A
- EDO · 1,2-ethanediol · additive · 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, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 246 | 0.52 | 0.76 | 31 | MN, UDP |
Compared structures
- 6MW8 · Udp-GALACTOSE:GLUCOSIDE-SKP1 alpha-D-galactosyltransferase with bound udp and manganese · 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 K3WC47
- Elsewhere: RCSB PDB 6MW8 · PDBe 6MW8 · UniProt K3WC47
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