Research workbench
Crystal structure of iron-loaded yersinia enterocolitica yfua
Analyse Crystal structure of iron-loaded yersinia enterocolitica yfua in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1XVX
- Type
- protein
- Length
- 311 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Yfua
- UniProt
- Q56925
- Ligands
- ZN, FE, CO3
- Pockets
- 3 · best druggability 0.48
Structure
x-ray diffraction · 1 distinct chain · 45% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Yfua | protein | 311 | 45% helix, 17% strand | Q56925 |
Ligands and binding sites
- ZN · Zinc ion · metal · 5 copies · chains A
- FE · Fe (III) ion · metal · chains A
- CO3 · Carbonate ion · ion · chains A
- EDO · 1,2-ethanediol · additive · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 131 | 0.48 | 0.78 | 30 | EDO |
| 2 | 95 | 0.35 | 0.75 | 24 | empty |
| 3 | 85 | 0.35 | 0.75 | 18 | empty |
Compared structures
- 1XVX · Crystal Structure of iron-loaded Yersinia enterocolitica YfuA · 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 Q56925
- Elsewhere: RCSB PDB 1XVX · PDBe 1XVX · UniProt Q56925
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