MolNFT v1 · #56326 · protein
Crystal structure of low-redox-potential cytochrom C6 from brown alga hizikia fusiformis at 1.6 a resolution
2ZBO · Cytochrome C6: “Crystal structure of low-redox-potential cytochrom C6 from brown alga hizikia fusiformis at 1.6 a resolution”. X-ray diffraction, 2 ligands (HEM, SO4), 10 pockets (best druggability 0.84). MolNFT v1 #56326 on…
- PDB
- 2ZBO
- Type
- protein
- Length
- 516 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cytochrome C6
- UniProt
- Q76FN8
- Ligands
- HEM, SO4
- Pockets
- 10 · best druggability 0.84
Structure
x-ray diffraction · 1 distinct chain · 58% helix, 2% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C, E, G, I, K | Cytochrome C6 | protein | 86 | 58% helix, 2% strand | Q76FN8 |
Ligands and binding sites
- HEM · Protoporphyrin IX containing Fe · ligand · 6 copies · chains A, C, E, G, I, K
- SO4 · Sulfate ion · ion · 4 copies · chains A, C, E, G, I, K
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
10 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 561 | 0.84 | 0.89 | 84 | HEM |
| 2 | 264 | 0.80 | 0.91 | 41 | HEM |
| 3 | 224 | 0.79 | 0.92 | 31 | HEM |
| 4 | 236 | 0.77 | 0.90 | 35 | HEM |
| 5 | 197 | 0.76 | 0.91 | 31 | HEM |
Interfaces
12 interfaces between chains.
- A–K · 320 Ų buried · 2 hydrogen bonds · protein-protein
- C–G · 314 Ų buried · 2 hydrogen bonds · protein-protein
- E–G · 310 Ų buried · 3 hydrogen bonds · protein-protein
- E–I · 309 Ų buried · 2 hydrogen bonds · protein-protein
- C–E · 307 Ų buried · 1 hydrogen bond · protein-protein
Modifications
Observed in the structure: 12 cofactor (heme attachment).
Compared structures
- 2ZBO · Crystal structure of low-redox-potential cytochrom c6 from brown alga Hizikia fusiformis… · 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 Q76FN8
- Elsewhere: RCSB PDB 2ZBO · PDBe 2ZBO · UniProt Q76FN8
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