MolNFT v1 · #135021 · protein
Crystal structure of OS79 from O. sativa in complex with U2F and trichothecene.
5TMD · Glycosyltransferase, OS79: “Crystal structure of OS79 from O. sativa in complex with U2F and trichothecene.”. X-ray diffraction, 2 ligands (U2F, 7E0), 4 pockets (best druggability 0.79). MolNFT v1 #135021 on GenesisL1: 3D structure…
- PDB
- 5TMD
- Type
- protein
- Length
- 440 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Glycosyltransferase, OS79
- EC
- 2.4.1.-
- UniProt
- Q7XT97
- Ligands
- U2F, 7E0
- Pockets
- 4 · best druggability 0.79
Structure
x-ray diffraction · 1 distinct chain · 50% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Glycosyltransferase, OS79 (EC 2.4.1.-) | protein | 440 | 50% helix, 13% strand | Q7XT97 |
Ligands and binding sites
- U2F · Uridine-5'-diphosphate-2-deoxy-2-fluoro-alpha-D-glucose · ligand · chains A
- 7E0 · trichothecene · ligand · 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 | 840 | 0.79 | 0.82 | 84 | U2F, 7E0 |
| 2 | 72 | 0.45 | 0.82 | 14 | empty |
| 3 | 122 | 0.43 | 0.76 | 29 | empty |
| 4 | 93 | 0.34 | 0.74 | 24 | empty |
Compared structures
- 5TMD · Crystal structure of Os79 from O. sativa in complex with U2F and trichothecene. · the same entry in another collection · chain A against A, TM-score 1.00
- Q7XT97 · AlphaFold monomer V2.0 prediction for udp-glycosyltransferase 79 (Q7XT97) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 Q7XT97
- Elsewhere: RCSB PDB 5TMD · PDBe 5TMD · UniProt Q7XT97
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