Research workbench
Crystal structure of type I cytochrome C3 from desulfovibrio africanus
Analyse Crystal structure of type I cytochrome C3 from desulfovibrio africanus in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2BQ4
- Type
- protein
- Length
- 229 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Basic cytochrome C3
- UniProt
- P94691
- Ligands
- HEC, CA
- Pockets
- 2 · best druggability 0.78
Structure
x-ray diffraction · 2 distinct chains · 31% helix, 7% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Basic cytochrome C3 | protein | 114 | 32% helix, 7% strand | P94691 |
| B | Basic cytochrome C3 | protein | 115 | 30% helix, 7% strand | P94691 |
Ligands and binding sites
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 | 749 | 0.78 | 0.82 | 77 | HEC |
| 2 | 734 | 0.76 | 0.81 | 78 | HEC |
Interfaces
1 interface between chains.
- A–B · 45 Ų buried · 1 hydrogen bond · protein-protein
Modifications
Observed in the structure: 14 cofactor (heme c attachment).
Compared structures
- 2BQ4 · Crystal structure of type I cytochrome c3 from Desulfovibrio africanus · the same entry in another collection · chain A against A, TM-score 1.00
- P94691 · AlphaFold monomer V2.0 prediction for basic cytochrome C3 (P94691) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 P94691
- Elsewhere: RCSB PDB 2BQ4 · PDBe 2BQ4 · UniProt P94691
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