Research workbench
Dimeric aquifex aeolicus cytochrome C555
Analyse Dimeric aquifex aeolicus cytochrome C555 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3X15
- Type
- protein
- Length
- 348 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cytochrome C552
- UniProt
- O67504
- Ligands
- HEC
- Pockets
- 3 · best druggability 0.85
Structure
x-ray diffraction · 1 distinct chain · 56% helix, 2% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, D, G, J | Cytochrome C552 | protein | 87 | 56% helix, 2% strand | O67504 |
Ligands and binding sites
- HEC · Heme C · ligand · 4 copies · chains A, D, G, J
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1159 | 0.85 | 0.85 | 121 | HEC |
| 2 | 245 | 0.74 | 0.88 | 36 | HEC |
| 3 | 76 | 0.30 | 0.73 | 12 | empty |
Interfaces
6 interfaces between chains.
- D–J · 2251 Ų buried · 8 hydrogen bonds · protein-protein
- A–G · 2239 Ų buried · 10 hydrogen bonds · protein-protein
- G–J · 198 Ų buried · 3 hydrogen bonds · protein-protein
- A–D · 148 Ų buried · 0 hydrogen bonds · protein-protein
- A–J · 110 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 cofactor (heme c attachment).
Compared structures
- 3X15 · Dimeric Aquifex aeolicus cytochrome c555 · 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 O67504
- Elsewhere: RCSB PDB 3X15 · PDBe 3X15 · UniProt O67504
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.