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Crystal structure of trichoplusia ni secreted ferritin
Analyse Crystal structure of trichoplusia ni secreted ferritin in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1Z6O
- Type
- protein
- Length
- 4,836 residues
- Chains
- 24
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ferritin light chain; Ferritin heavy chain
- UniProt
- Q52SA8, Q52SA9
- Ligands
- FE, CA
- Pockets
- 20 · best druggability 0.74
Structure
x-ray diffraction · 2 distinct chains · 67% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G, H, I, J, K, L | Ferritin light chain | protein | 212 | 66% helix, 0% strand | Q52SA8 |
| M, N, O, P, Q, R, S, T, U, V, W, X | Ferritin heavy chain | protein | 191 | 68% helix, 0% strand | Q52SA9 |
Ligands and binding sites
- FE · Fe (III) ion · metal · 16 copies · chains A, E, L, B, D, K, C, H, I, F, G, J, M, N, O, P, Q, R, S, T, U, V, W, X
- CA · Calcium ion · metal · 8 copies · chains A, E, L, B, D, K, C, H, I, F, G, J
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 164 | 0.74 | 0.91 | 24 | empty |
| 2 | 170 | 0.72 | 0.90 | 20 | empty |
| 3 | 178 | 0.72 | 0.89 | 24 | empty |
| 4 | 176 | 0.71 | 0.89 | 21 | empty |
| 5 | 97 | 0.67 | 0.92 | 20 | CA |
Interfaces
84 interfaces between chains.
- H–T · 1702 Ų buried · 14 hydrogen bonds · protein-protein
- J–V · 1700 Ų buried · 14 hydrogen bonds · protein-protein
- F–R · 1700 Ų buried · 14 hydrogen bonds · protein-protein
- D–P · 1699 Ų buried · 14 hydrogen bonds · protein-protein
- B–N · 1699 Ų buried · 14 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 36 disulfide (disulfide).
Compared structures
- 1Z6O · Crystal Structure of Trichoplusia ni secreted ferritin · 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 Q52SA8
- Every structure of UniProt Q52SA9
- Elsewhere: RCSB PDB 1Z6O · PDBe 1Z6O · UniProt Q52SA8 · UniProt Q52SA9
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