Research workbench
The X-ray structure of the unusual dodecameric ferritin from listeria innocua, reveals a novel intersubunit iron binding site.
Analyse The X-ray structure of the unusual dodecameric ferritin from listeria innocua… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1QGH
- Type
- protein
- Length
- 1,800 residues
- Chains
- 12
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Non-heme iron-containing ferritin
- UniProt
- P80725
- Ligands
- FE
- Pockets
- 20 · best druggability 0.58
Structure
x-ray diffraction · 1 distinct chain · 75% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G, H, I, J, K, L | Non-heme iron-containing ferritin | protein | 150 | 75% helix, 0% strand | P80725 |
Ligands and binding sites
- FE · Fe (III) ion · metal · 12 copies · chains E, G, A, C, I, K, F, H, J, L, B, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 354 | 0.58 | 0.76 | 47 | empty |
| 2 | 305 | 0.54 | 0.75 | 34 | empty |
| 3 | 275 | 0.54 | 0.76 | 35 | empty |
| 4 | 265 | 0.53 | 0.76 | 38 | empty |
| 5 | 188 | 0.53 | 0.79 | 30 | empty |
Interfaces
30 interfaces between chains.
- J–L · 1248 Ų buried · 18 hydrogen bonds · protein-protein
- A–C · 1247 Ų buried · 17 hydrogen bonds · protein-protein
- E–G · 1243 Ų buried · 18 hydrogen bonds · protein-protein
- I–K · 1239 Ų buried · 18 hydrogen bonds · protein-protein
- F–H · 1238 Ų buried · 18 hydrogen bonds · protein-protein
Compared structures
- 1QGH · The X-ray structure of the unusual dodecameric ferritin from listeria innocua, reveals a… · the same entry in another collection · chain L against L, 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 P80725
- Elsewhere: RCSB PDB 1QGH · PDBe 1QGH · UniProt P80725
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