MolNFT v1 · #20463 · protein
Crystal structure of 2FE2S ferredoxin from thermophilic cyanobacterium mastigocladus laminosus
1RFK: “Crystal structure of 2FE2S ferredoxin from thermophilic cyanobacterium mastigocladus laminosus”. X-ray diffraction, 1 ligand (FES), 1 pocket (best druggability 0.58). MolNFT v1 #20463 on GenesisL1: 3D structure, binding sites and…
- PDB
- 1RFK
- Type
- protein
- Length
- 192 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ferredoxin
- UniProt
- P00248
- Ligands
- FES
- Pockets
- 1 · best druggability 0.58
Structure
x-ray diffraction · 2 distinct chains · 21% helix, 33% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ferredoxin | protein | 95 | 20% helix, 33% strand | P00248 |
| B | Ferredoxin | protein | 97 | 23% helix, 34% strand | P00248 |
Ligands and binding sites
- FES · Fe2/s2 (inorganic) cluster · ligand · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 380 | 0.58 | 0.76 | 37 | empty |
Interfaces
1 interface between chains.
- A–B · 187 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 1RFK · Crystal Structure of 2Fe2S Ferredoxin from Thermophilic Cyanobacterium Mastigocladus… · the same entry in another collection · chain A against A, TM-score 1.00
- P00248 · AlphaFold monomer V2.0 prediction for ferredoxin (P00248) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 P00248
- Elsewhere: RCSB PDB 1RFK · PDBe 1RFK · UniProt P00248
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