Research workbench
Crystal structure analysis of the H75I mutant of Superoxide Dismutase from Trichoderma reesei
Analyse Crystal structure analysis of the H75I mutant of 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
- 6CYP
- Type
- protein
- Length
- 1,266 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2
- Source
- Hypocrea jecorina (strain QM6a)
- Molecule
- Superoxide dismutase
- EC
- 1.15.1.1
- UniProt
- G0RQS7
- Ligands
- FE
- Pockets
- 15 · best druggability 0.70
Structure
x-ray diffraction · resolution 2 · 1 distinct chain · 60% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F | Superoxide dismutase (EC 1.15.1.1) | protein | 211 | 60% helix, 12% strand | G0RQS7 |
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
15 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 766 | 0.70 | 0.76 | 60 | empty |
| 2 | 154 | 0.56 | 0.82 | 24 | empty |
| 3 | 149 | 0.56 | 0.82 | 23 | empty |
| 4 | 137 | 0.55 | 0.82 | 24 | empty |
| 5 | 146 | 0.54 | 0.81 | 22 | empty |
Interfaces
10 interfaces between chains.
- B–C · 1138 Ų buried · 6 hydrogen bonds · protein-protein
- A–D · 1138 Ų buried · 6 hydrogen bonds · protein-protein
- E–F · 1133 Ų buried · 6 hydrogen bonds · protein-protein
- D–E · 928 Ų buried · 14 hydrogen bonds · protein-protein
- A–F · 911 Ų buried · 14 hydrogen bonds · protein-protein
Compared structures
- 6CYP · Crystal structure analysis of the H75I mutant of superoxide dismutase from trichoderma… · 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 G0RQS7
- Elsewhere: RCSB PDB 6CYP · PDBe 6CYP · UniProt G0RQS7
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