MolNFT v1 · #141635 · protein
Crystal structure of a penta-heme cytochrome C552 from thermochromatium tepidum
5ZE8: “Crystal structure of a penta-heme cytochrome C552 from thermochromatium tepidum”. X-ray diffraction, 2 ligands (HEC, SO4), 2 pockets (best druggability 0.88). MolNFT v1 #141635 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 5ZE8
- Type
- protein
- Length
- 385 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cytochrome C552
- Ligands
- HEC, SO4
- Pockets
- 2 · best druggability 0.88
Structure
x-ray diffraction · 1 distinct chain · 26% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Cytochrome C552 | protein | 385 | 26% helix, 27% strand | — |
Ligands and binding sites
- HEC · Heme C · ligand · 5 copies · chains A
- SO4 · Sulfate ion · ion · chains A
- GOL · Glycerol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1065 | 0.88 | 0.89 | 105 | HEC |
| 2 | 93 | 0.38 | 0.76 | 18 | empty |
Modifications
Observed in the structure: 10 cofactor (heme c attachment).
Compared structures
- 5ZE8 · Crystal structure of a penta-heme cytochrome c552 from Thermochromatium tepidum · 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
- Elsewhere: RCSB PDB 5ZE8 · PDBe 5ZE8
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