Research workbench
Cytochrome C - calixarene free
Analyse Cytochrome C - calixarene free in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5T8W
- Type
- protein
- Length
- 216 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- CYC1P
- UniProt
- A0A0C6AZG8
- Ligands
- HEC, CL
- Pockets
- 5 · best druggability 0.73
Structure
x-ray diffraction · 1 distinct chain · 41% helix, 2% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | CYC1P | protein | 108 | 41% helix, 2% strand | A0A0C6AZG8 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 194 | 0.73 | 0.89 | 31 | HEC |
| 2 | 182 | 0.73 | 0.89 | 34 | HEC |
| 3 | 122 | 0.44 | 0.77 | 19 | empty |
| 4 | 112 | 0.44 | 0.78 | 21 | empty |
| 5 | 73 | 0.34 | 0.75 | 14 | empty |
Interfaces
1 interface between chains.
- A–B · 516 Ų buried · 12 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 cofactor (heme c attachment).
Compared structures
- 5T8W · Cytochrome c - calixarene free · 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 A0A0C6AZG8
- Elsewhere: RCSB PDB 5T8W · PDBe 5T8W · UniProt A0A0C6AZG8
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