Research workbench
Structure of the soluble domain of cytochrome C552 with its flexible linker segment from paracoccus denitrificans
Analyse Structure of the soluble domain of cytochrome C552 with its flexible linker… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3M97
- Type
- protein
- Length
- 118 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cytochrome C-552
- UniProt
- P54820
- Ligands
- HEC, ZN
- Pockets
- 1 · best druggability 0.77
Structure
x-ray diffraction · 1 distinct chain · 40% helix, 2% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| X | Cytochrome C-552 | protein | 118 | 40% helix, 2% strand | P54820 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 187 | 0.77 | 0.92 | 33 | HEC |
Modifications
Observed in the structure: 2 cofactor (heme c attachment).
Compared structures
- 3M97 · Structure of the soluble domain of cytochrome c552 with its flexible linker segment from… · the same entry in another collection · chain X against X, TM-score 1.00
- P54820 · AlphaFold monomer V2.0 prediction for cytochrome C-552 (P54820) · a predicted model of the same protein · chain X against A, TM-score 0.91
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 P54820
- Elsewhere: RCSB PDB 3M97 · PDBe 3M97 · UniProt P54820
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