Research workbench
Crystal structure of hddc from yersinia pseudotuberculosis
Analyse Crystal structure of hddc from yersinia pseudotuberculosis in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5XHW
- Type
- protein
- Length
- 225 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Putative 6-deoxy-D-mannoheptose pathway protein
- UniProt
- Q8GJ90
- Ligands
- SO4
- Pockets
- 2 · best druggability 0.62
Structure
x-ray diffraction · 1 distinct chain · 28% helix, 32% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Putative 6-deoxy-D-mannoheptose pathway protein | protein | 225 | 28% helix, 32% strand | Q8GJ90 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 4 copies · 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 | 379 | 0.62 | 0.77 | 44 | SO4 |
| 2 | 52 | 0.33 | 0.77 | 11 | empty |
Modifications
Observed in the structure: 3 modified (engineered).
Compared structures
- 5XHW · Crystal structure of HddC from Yersinia pseudotuberculosis · 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 Q8GJ90
- Elsewhere: RCSB PDB 5XHW · PDBe 5XHW · UniProt Q8GJ90
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