MolNFT v1 · #136062 · protein
Crystal structure of the core catalytic domain of human O-glcnacase
5UHK · O-glcnacase tim-barrel domain: “Crystal structure of the core catalytic domain of human O-glcnacase”. X-ray diffraction, 6 pockets (best druggability 0.81). MolNFT v1 #136062 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 5UHK
- Type
- protein
- Length
- 846 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- O-glcnacase tim-barrel domain; O-glcnacase stalk domain
- EC
- 3.2.1.169, 3.2.1.-
- UniProt
- O60502
- Pockets
- 6 · best druggability 0.81
Structure
x-ray diffraction · 4 distinct chains · 49% helix, 10% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | O-glcnacase tim-barrel domain (EC 3.2.1.169, 3.2.1.-) | protein | 304 | 42% helix, 13% strand | O60502 |
| B | O-glcnacase stalk domain (EC 3.2.1.169, 3.2.1.-) | protein | 120 | 68% helix, 2% strand | O60502 |
| C | O-glcnacase tim-barrel domain (EC 3.2.1.169, 3.2.1.-) | protein | 302 | 41% helix, 13% strand | O60502 |
| D | O-glcnacase stalk domain (EC 3.2.1.169, 3.2.1.-) | protein | 120 | 70% helix, 2% strand | O60502 |
Ligands and binding sites
- GOL · Glycerol · additive · 3 copies · chains A, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 556 | 0.81 | 0.87 | 79 | empty |
| 2 | 324 | 0.65 | 0.80 | 44 | GOL |
| 3 | 336 | 0.63 | 0.79 | 42 | GOL |
| 4 | 70 | 0.53 | 0.87 | 13 | empty |
| 5 | 220 | 0.51 | 0.76 | 22 | empty |
Interfaces
6 interfaces between chains.
- B–D · 1341 Ų buried · 6 hydrogen bonds · protein-protein
- C–D · 1340 Ų buried · 14 hydrogen bonds · protein-protein
- A–B · 1329 Ų buried · 17 hydrogen bonds · protein-protein
- B–C · 1055 Ų buried · 15 hydrogen bonds · protein-protein
- A–D · 1029 Ų buried · 21 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 O60502
- Elsewhere: RCSB PDB 5UHK · PDBe 5UHK · UniProt O60502
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.