MolNFT v1 · #3868 · protein
Crystal structure of E. COLI mnsod at 100K
1D5N · Protein (manganese superoxide dismutase): “Crystal structure of E. COLI mnsod at 100K”. X-ray diffraction, 1 ligand (MN), 11 pockets (best druggability 0.60). MolNFT v1 #3868 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 1D5N
- Type
- protein
- Length
- 820 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein (manganese superoxide dismutase)
- EC
- 1.15.1.1
- UniProt
- P00448
- Ligands
- MN
- Pockets
- 11 · best druggability 0.60
Structure
x-ray diffraction · 1 distinct chain · 57% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D | Protein (manganese superoxide dismutase) (EC 1.15.1.1) | protein | 205 | 57% helix, 12% strand | P00448 |
Ligands and binding sites
- MN · Manganese (II) ion · metal · 4 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
11 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 388 | 0.60 | 0.76 | 41 | empty |
| 2 | 167 | 0.55 | 0.80 | 20 | empty |
| 3 | 163 | 0.54 | 0.80 | 23 | empty |
| 4 | 190 | 0.54 | 0.79 | 22 | empty |
| 5 | 156 | 0.53 | 0.80 | 21 | empty |
Interfaces
3 interfaces between chains.
- A–B · 923 Ų buried · 13 hydrogen bonds · protein-protein
- C–D · 918 Ų buried · 13 hydrogen bonds · protein-protein
- A–D · 233 Ų buried · 5 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 P00448
- Elsewhere: RCSB PDB 1D5N · PDBe 1D5N · UniProt P00448
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.