Research workbench
Crystal structure of oxidized cytochrome C6 from the green algae scenedesmus obliquus
Analyse Crystal structure of oxidized cytochrome C6 from the green algae scenedesmus… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- 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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