MolNFT v1 · #171395 · protein
L-ferritinmsa
6Z3D: “L-ferritinmsa”. X-ray diffraction, 12 pockets (best druggability 0.75). MolNFT v1 #171395 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6Z3D
- Type
- protein
- Length
- 1,019 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ferritin
- UniProt
- Q9CPX4
- Pockets
- 12 · best druggability 0.75
Structure
x-ray diffraction · 3 distinct chains · 74% helix, 1% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ferritin | protein | 169 | 74% helix, 1% strand | Q9CPX4 |
| B, C, D, E | Ferritin | protein | 170 | 74% helix, 1% strand | Q9CPX4 |
| F | Ferritin | protein | 170 | 74% helix, 1% strand | Q9CPX4 |
Ligands and binding sites
- ACT · Acetate ion · additive · 6 copies · chains A, B, C, D, E, F
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
12 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 62 | 0.75 | 0.99 | 12 | ACT |
| 2 | 52 | 0.74 | 1.00 | 11 | ACT |
| 3 | 54 | 0.72 | 0.99 | 13 | ACT |
| 4 | 353 | 0.61 | 0.78 | 43 | empty |
| 5 | 245 | 0.51 | 0.76 | 28 | empty |
Interfaces
8 interfaces between chains.
- A–B · 1603 Ų buried · 23 hydrogen bonds · protein-protein
- C–D · 1543 Ų buried · 26 hydrogen bonds · protein-protein
- E–F · 1519 Ų buried · 26 hydrogen bonds · protein-protein
- A–D · 722 Ų buried · 9 hydrogen bonds · protein-protein
- C–E · 707 Ų buried · 8 hydrogen bonds · protein-protein
Compared structures
- 6Z3D · L-FerritinMSA · 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 Q9CPX4
- Elsewhere: RCSB PDB 6Z3D · PDBe 6Z3D · UniProt Q9CPX4
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