MolNFT v1 · #137670 · protein
Structural investigations of the substrate specificity of human O- glcnacase
5VVO · Protein O-glcnacase: “Structural investigations of the substrate specificity of human O- glcnacase”. X-ray diffraction, 6 pockets (best druggability 0.81). MolNFT v1 #137670 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 5VVO
- Type
- protein
- Length
- 866 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein O-glcnacase
- EC
- 3.2.1.169, 3.2.1.-
- UniProt
- O60502
- Pockets
- 6 · best druggability 0.81
Structure
x-ray diffraction · 2 distinct chains · 50% helix, 9% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protein O-glcnacase (EC 3.2.1.169, 3.2.1.-) | protein | 437 | 49% helix, 9% strand | O60502 |
| B | Protein O-glcnacase (EC 3.2.1.169, 3.2.1.-) | protein | 429 | 51% helix, 10% strand | O60502 |
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 | 1002 | 0.81 | 0.83 | 73 | empty |
| 2 | 423 | 0.64 | 0.77 | 46 | empty |
| 3 | 81 | 0.62 | 0.90 | 21 | empty |
| 4 | 298 | 0.59 | 0.77 | 31 | empty |
| 5 | 71 | 0.53 | 0.87 | 24 | empty |
Interfaces
1 interface between chains.
- A–B · 3760 Ų buried · 31 hydrogen bonds · protein-protein
Compared structures
- 5VVO · Structural Investigations of the Substrate Specificity of Human O-GlcNAcase · the same entry in another collection · chain A against A, TM-score 1.00
- O60502 · AlphaFold monomer V2.0 prediction for protein O-glcnacase (O60502) · a predicted model of the same protein · chain B against A, TM-score 0.95
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 5VVO · PDBe 5VVO · UniProt O60502
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