Research workbench
Crystal structure of ycie protein from E. COLI CFT073, a member of ferritine-like superfamily of diiron-containing four-helix-bundle proteins
Analyse Crystal structure of ycie protein from E. COLI CFT073, a member of… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3OGH
- Type
- protein
- Length
- 296 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein ycie
- UniProt
- Q8FHW2
- Ligands
- MG, FE, CL
- Pockets
- 3 · best druggability 0.41
Structure
x-ray diffraction · 2 distinct chains · 88% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | Protein ycie | protein | 151 | 87% helix, 0% strand | Q8FHW2 |
| A | Protein ycie | protein | 145 | 89% helix, 0% strand | Q8FHW2 |
Ligands and binding sites
- MG · Magnesium ion · metal · 2 copies · chains B, A
- FE · Fe (III) ion · metal · 2 copies · chains B, A
- CL · Chloride ion · ion · chains B
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 | 78 | 0.41 | 0.79 | 19 | empty |
| 2 | 53 | 0.28 | 0.74 | 15 | empty |
| 3 | 59 | 0.27 | 0.73 | 16 | empty |
Interfaces
1 interface between chains.
- B–A · 1498 Ų buried · 14 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 12 modified (engineered).
Compared structures
- 3OGH · Crystal structure of yciE protein from E. coli CFT073, a member of ferritine-like… · the same entry in another collection · chain B against B, 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 Q8FHW2
- Elsewhere: RCSB PDB 3OGH · PDBe 3OGH · UniProt Q8FHW2
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