MolNFT v1 · #100634 · protein
Crystal structure of human O-glcnac transferase bound to a peptide from hcf-1 pro-REPEAT2(1-26) and udp-glcnac
4N3C · Udp-N-acetylglucosamine--peptide N…: “Crystal structure of human O-glcnac transferase bound to a peptide from hcf-1 pro-REPEAT2(1-26) and udp-glcnac”. X-ray diffraction, 1 ligand (UD1), 6 pockets (best druggability 0.82). MolNFT v1…
- PDB
- 4N3C
- Type
- protein
- Length
- 717 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Udp-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kda subunit; Host…
- EC
- 2.4.1.255
- UniProt
- O15294, P51610
- Ligands
- UD1
- Pockets
- 6 · best druggability 0.82
Structure
x-ray diffraction · 2 distinct chains · 51% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Udp-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kda subunit (EC 2.4.1.255) | protein | 697 | 53% helix, 13% strand | O15294 |
| B | Host cell factor 1 | protein | 20 | 0% helix, 0% strand | P51610 |
Ligands and binding sites
- UD1 · Uridine-diphosphate-N-acetylglucosamine · ligand · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1057 | 0.82 | 0.83 | 85 | empty |
| 2 | 284 | 0.80 | 0.91 | 57 | UD1 |
| 3 | 64 | 0.74 | 0.99 | 17 | empty |
| 4 | 193 | 0.60 | 0.82 | 31 | empty |
| 5 | 113 | 0.37 | 0.74 | 21 | empty |
Interfaces
1 interface between chains.
- A–B · 1334 Ų buried · 28 hydrogen bonds · protein-protein
Compared structures
- 4N3C · Crystal Structure of human O-GlcNAc Transferase bound to a peptide from HCF-1… · 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 0.97
- P51610 · AlphaFold monomer V2.0 prediction for host cell factor 1 (P51610) · a predicted model of the same protein · chain B against A, TM-score 0.24
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
- Every structure of UniProt P51610
- Elsewhere: RCSB PDB 4N3C · PDBe 4N3C · UniProt O15294 · UniProt P51610
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