Research workbench
Crystal structure of OS79 from O. sativa in complex with U2F and trichothecene.
Analyse Crystal structure of OS79 from O. sativa in complex with U2F and trichothecene. in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 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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