MolNFT v1 · #149431 · protein
Crystal structure of sdea catalytic core
6G0C · UBIQUITINATING/DEUBIQUITINATING enzyme sdea: “Crystal structure of sdea catalytic core”. X-ray diffraction, 1 ligand (1PS), 4 pockets (best druggability 0.75). MolNFT v1 #149431 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 6G0C
- Type
- protein
- Length
- 624 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- UBIQUITINATING/DEUBIQUITINATING enzyme sdea
- EC
- 3.4.22.-, 2.3.2.-, 2.4.2.31
- UniProt
- Q5ZTK4
- Ligands
- 1PS
- Pockets
- 4 · best druggability 0.75
Structure
x-ray diffraction · 1 distinct chain · 50% helix, 10% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | UBIQUITINATING/DEUBIQUITINATING enzyme sdea (EC 3.4.22.-, 2.3.2.-, 2.4.2.31) | protein | 624 | 50% helix, 10% strand | Q5ZTK4 |
Ligands and binding sites
- 1PS · 3-pyridinium-1-ylpropane-1-sulfonate · ligand · chains A
- EDO · 1,2-ethanediol · additive · 3 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 432 | 0.75 | 0.84 | 52 | empty |
| 2 | 158 | 0.41 | 0.73 | 25 | empty |
| 3 | 91 | 0.34 | 0.74 | 19 | EDO |
| 4 | 66 | 0.32 | 0.74 | 16 | empty |
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 Q5ZTK4
- Elsewhere: RCSB PDB 6G0C · PDBe 6G0C · UniProt Q5ZTK4
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