Research workbench
Crystal structure of the iron/manganese cambialistic superoxide dismutase from Rhodobacter capsulatus complex with Mn
Analyse Crystal structure of the iron/manganese cambialistic superoxide dismutase from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7AZR
- Type
- protein
- Length
- 398 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2.1
- Source
- Rhodobacter capsulatus
- Molecule
- Superoxide dismutase [Fe]
- EC
- 1.15.1.1
- UniProt
- O30970
- Ligands
- MN, CA
- Pockets
- 3 · best druggability 0.55
Structure
x-ray diffraction · resolution 2.1 · 1 distinct chain · 53% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, E | Superoxide dismutase [Fe] (EC 1.15.1.1) | protein | 199 | 53% helix, 12% strand | O30970 |
Ligands and binding sites
- MN · Manganese (II) ion · metal · 2 copies · chains A, E
- CA · Calcium ion · metal · 2 copies · chains A, E
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 185 | 0.55 | 0.79 | 22 | empty |
| 2 | 156 | 0.52 | 0.79 | 19 | empty |
| 3 | 124 | 0.51 | 0.81 | 38 | empty |
Interfaces
1 interface between chains.
- A–E · 1133 Ų buried · 17 hydrogen bonds · protein-protein
Compared structures
- 7AZR · Crystal structure of the IRON/MANGANESE cambialistic superoxide dismutase from… · the same entry in another collection · chain A against A, TM-score 1.00
- O30970 · AlphaFold monomer V2.0 prediction for superoxide dismutase [fe] (O30970) · 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 O30970
- Elsewhere: RCSB PDB 7AZR · PDBe 7AZR · UniProt O30970
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