Research workbench
Crystal structure of cytochrome C' beta from nitrosomonas europaea atcc 19718
Analyse Crystal structure of cytochrome C' beta from nitrosomonas europaea atcc 19718 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7S5O
- Type
- protein
- Length
- 472 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- CYTOCHROME_P460 domain-containing protein
- UniProt
- Q82W71
- Ligands
- HEC, SO4
- Pockets
- 2 · best druggability 0.79
Structure
x-ray diffraction · 2 distinct chains · 22% helix, 29% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | CYTOCHROME_P460 domain-containing protein | protein | 156 | 24% helix, 29% strand | Q82W71 |
| C | CYTOCHROME_P460 domain-containing protein | protein | 160 | 21% helix, 29% strand | Q82W71 |
Ligands and binding sites
- HEC · Heme C · ligand · 3 copies · chains A, B, C
- SO4 · Sulfate ion · ion · 6 copies · chains A, B, C
- ACT · Acetate ion · additive · 3 copies · chains A, B, C
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 | 1048 | 0.79 | 0.80 | 90 | HEC, ACT |
| 2 | 240 | 0.63 | 0.81 | 31 | HEC, ACT |
Interfaces
3 interfaces between chains.
- B–C · 707 Ų buried · 9 hydrogen bonds · protein-protein
- A–B · 634 Ų buried · 9 hydrogen bonds · protein-protein
- A–C · 12 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 cofactor (heme c attachment).
Compared structures
- 7S5O · Crystal structure of Cytochrome c' beta from Nitrosomonas europaea ATCC 19718 · 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 Q82W71
- Elsewhere: RCSB PDB 7S5O · PDBe 7S5O · UniProt Q82W71
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