MolNFT v1 · #2766 · protein
Crystal structure of oxidized cytochrome C6 from the green algae scenedesmus obliquus
1C6O: “Crystal structure of oxidized cytochrome C6 from the green algae scenedesmus obliquus”. X-ray diffraction, 1 ligand (HEM), 2 pockets (best druggability 0.72). MolNFT v1 #2766 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 1C6O
- Type
- protein
- Length
- 178 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cytochrome C6
- UniProt
- P57736
- Ligands
- HEM
- Pockets
- 2 · best druggability 0.72
Structure
x-ray diffraction · 1 distinct chain · 58% helix, 2% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Cytochrome C6 | protein | 89 | 58% helix, 2% strand | P57736 |
Ligands and binding sites
- HEM · Protoporphyrin IX containing Fe · ligand · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 236 | 0.72 | 0.87 | 31 | HEM |
| 2 | 222 | 0.70 | 0.86 | 30 | HEM |
Interfaces
1 interface between chains.
- A–B · 399 Ų buried · 3 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 cofactor (heme attachment).
Compared structures
- 1C6O · Crystal structure of oxidized cytochrome C6 from the green algae scenedesmus obliquus · the same entry in another collection · chain A against A, TM-score 1.00
- P57736 · AlphaFold monomer V2.0 prediction for cytochrome C6 (P57736) · a predicted model of the same protein · chain A against A, TM-score 0.98
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 P57736
- Elsewhere: RCSB PDB 1C6O · PDBe 1C6O · UniProt P57736
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