MolNFT v1 · #75028 · protein
Structure of human O-glcnac transferase and its complex with a peptide substrate
3PE3 · Udp-N-acetylglucosamine--peptide N…: “Structure of human O-glcnac transferase and its complex with a peptide substrate”. X-ray diffraction, 1 ligand (UDP), 20 pockets (best druggability 0.76). MolNFT v1 #75028 on GenesisL1: 3D…
- PDB
- 3PE3
- Type
- protein
- Length
- 2,804 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Udp-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kda subunit
- EC
- 2.4.1.-
- UniProt
- O15294
- Ligands
- UDP
- Pockets
- 20 · best druggability 0.76
Structure
x-ray diffraction · 1 distinct chain · 51% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D | Udp-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kda subunit (EC 2.4.1.-) | protein | 701 | 51% helix, 14% strand | O15294 |
Ligands and binding sites
- UDP · Uridine-5'-diphosphate · ligand · 4 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 18 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1104 | 0.76 | 0.78 | 94 | UDP |
| 2 | 1169 | 0.75 | 0.78 | 105 | UDP |
| 3 | 67 | 0.73 | 0.98 | 17 | empty |
| 4 | 374 | 0.72 | 0.83 | 52 | UDP |
| 5 | 843 | 0.71 | 0.77 | 64 | empty |
Interfaces
5 interfaces between chains.
- B–C · 716 Ų buried · 5 hydrogen bonds · protein-protein
- A–C · 682 Ų buried · 3 hydrogen bonds · protein-protein
- A–B · 672 Ų buried · 4 hydrogen bonds · protein-protein
- A–D · 598 Ų buried · 3 hydrogen bonds · protein-protein
- C–D · 11 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 3PE3 · Structure of human O-GlcNAc transferase and its complex with a peptide substrate · the same entry in another collection · chain A against A, TM-score 1.00
- O15294 · AlphaFold monomer V2.0 prediction for udp-N-acetylglucosamine-- peptide… · a predicted model of the same protein · chain A against A, TM-score 0.96
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 O15294
- Elsewhere: RCSB PDB 3PE3 · PDBe 3PE3 · UniProt O15294
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.