MolNFT v1 · #143454 · protein
The crystal structure of the ferredoxin protease fusc E83A mutant in complex with arabidopsis ferredoxin
6B05 · Putative zinc protease: “The crystal structure of the ferredoxin protease fusc E83A mutant in complex with arabidopsis ferredoxin”. X-ray diffraction, 1 ligand (ZN), 10 pockets (best druggability 0.84). MolNFT v1 #143454 on…
- PDB
- 6B05
- Type
- protein
- Length
- 944 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Putative zinc protease; Ferredoxin-2, chloroplastic
- UniProt
- Q6D8U3, P16972
- Ligands
- ZN
- Pockets
- 10 · best druggability 0.84
Structure
x-ray diffraction · 3 distinct chains · 45% helix, 21% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Putative zinc protease | protein | 896 | 46% helix, 20% strand | Q6D8U3 |
| B | Ferredoxin-2, chloroplastic | protein | 41 | 20% helix, 41% strand | P16972 |
| C | Ferredoxin-2, chloroplastic | protein | 7 | 0% helix, 0% strand | P16972 |
Ligands and binding sites
- ZN · Zinc ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
10 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 991 | 0.84 | 0.85 | 119 | empty |
| 2 | 605 | 0.66 | 0.76 | 59 | empty |
| 3 | 544 | 0.62 | 0.75 | 51 | empty |
| 4 | 96 | 0.54 | 0.84 | 21 | empty |
| 5 | 153 | 0.48 | 0.77 | 25 | empty |
Interfaces
2 interfaces between chains.
- A–B · 837 Ų buried · 19 hydrogen bonds · protein-protein
- A–C · 346 Ų buried · 3 hydrogen bonds · protein-protein
Compared structures
- 6B05 · The Crystal Structure of the Ferredoxin Protease FusC E83A mutant in complex with… · the same entry in another collection · chain A against A, TM-score 1.00
- P16972 · AlphaFold monomer V2.0 prediction for ferredoxin-2, chloroplastic (P16972) · a predicted model of the same protein · chain B against A, TM-score 0.85
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 Q6D8U3
- Every structure of UniProt P16972
- Elsewhere: RCSB PDB 6B05 · PDBe 6B05 · UniProt Q6D8U3 · UniProt P16972
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