Research workbench
Superoxide dismutase from sulfolobus acidocaldarius
Analyse Superoxide dismutase from sulfolobus acidocaldarius in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1B06
- Type
- protein
- Length
- 1,248 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein (superoxide dismutase)
- EC
- 1.15.1.1
- UniProt
- Q08713
- Ligands
- FE
- Pockets
- 10 · best druggability 0.73
Structure
x-ray diffraction · 1 distinct chain · 51% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F | Protein (superoxide dismutase) (EC 1.15.1.1) | protein | 208 | 51% helix, 11% strand | Q08713 |
Ligands and binding sites
- FE · Fe (III) ion · metal · 6 copies · chains A, B, C, D, E, F
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
10 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1001 | 0.73 | 0.76 | 81 | empty |
| 2 | 1153 | 0.72 | 0.76 | 89 | empty |
| 3 | 426 | 0.63 | 0.77 | 43 | empty |
| 4 | 457 | 0.63 | 0.77 | 40 | empty |
| 5 | 361 | 0.60 | 0.76 | 39 | empty |
Interfaces
11 interfaces between chains.
- C–E · 2416 Ų buried · 38 hydrogen bonds · protein-protein
- D–F · 2409 Ų buried · 39 hydrogen bonds · protein-protein
- A–B · 915 Ų buried · 19 hydrogen bonds · protein-protein
- E–F · 906 Ų buried · 16 hydrogen bonds · protein-protein
- C–D · 904 Ų buried · 17 hydrogen bonds · protein-protein
Compared structures
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 Q08713
- Elsewhere: RCSB PDB 1B06 · PDBe 1B06 · UniProt Q08713
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