Research workbench
Molecular structure of a high potential cytochrome C2 isolated from rhodopila globiformis
Analyse Molecular structure of a high potential cytochrome C2 isolated from rhodopila… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1HRO
- Type
- protein
- Length
- 210 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cytochrome C2
- UniProt
- P00080
- Ligands
- HEM
- Pockets
- 2 · best druggability 0.77
Structure
x-ray diffraction · 1 distinct chain · 39% helix, 4% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Cytochrome C2 | protein | 105 | 39% helix, 4% strand | P00080 |
Ligands and binding sites
- HEM · Protoporphyrin IX containing Fe · ligand · 2 copies · chains A, B
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 | 209 | 0.77 | 0.91 | 33 | HEM |
| 2 | 212 | 0.74 | 0.89 | 33 | HEM |
Interfaces
1 interface between chains.
- A–B · 312 Ų buried · 6 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 cofactor (heme attachment).
Compared structures
- 1HRO · Molecular structure of a high potential cytochrome C2 isolated from rhodopila globiformis · the same entry in another collection · chain A against A, TM-score 1.00
- P00080 · AlphaFold monomer V2.0 prediction for cytochrome C2 (P00080) · a predicted model of the same protein · chain B 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 P00080
- Elsewhere: RCSB PDB 1HRO · PDBe 1HRO · UniProt P00080
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