Research workbench
Crystal structure of Yijc from B. subtilis in complex with UDP
Analyse Crystal structure of Yijc from B. subtilis in complex with UDP in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6KQX
- Type
- protein
- Length
- 327 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2.44
- Source
- Bacillus subtilis subsp. subtilis str. 168
- Molecule
- Uncharacterized UDP-glucosyltransferase YjiC
- EC
- 2.4.1.-
- UniProt
- O34539
- Ligands
- UDP
- Pockets
- 2 · best druggability 0.70
Structure
x-ray diffraction · resolution 2.44 · 1 distinct chain · 38% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Uncharacterized UDP-glucosyltransferase YjiC (EC 2.4.1.-) | protein | 327 | 38% helix, 15% strand | O34539 |
Ligands and binding sites
- UDP · Uridine-5'-diphosphate · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 717 | 0.70 | 0.77 | 77 | UDP |
| 2 | 64 | 0.29 | 0.73 | 16 | empty |
Compared structures
- 6KQX · Crystal structure of yijc from B. subtilis in complex with udp · the same entry in another collection · chain A against A, TM-score 1.00
- O34539 · AlphaFold monomer V2.0 prediction for uncharacterized udp- glucosyltransferase yjic… · a predicted model of the same protein · chain A 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 O34539
- Elsewhere: RCSB PDB 6KQX · PDBe 6KQX · UniProt O34539
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