Research workbench
The crystal structure of the ferredoxin protease fusc E83A mutant in complex with arabidopsis ferredoxin
Analyse The crystal structure of the ferredoxin protease fusc E83A mutant in complex… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- 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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