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Crystal structure of udp-glucose phosphorylase from trypanosoma brucei, (TB10.389.0330)
Analyse Crystal structure of udp-glucose phosphorylase from trypanosoma brucei… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3GUE
- Type
- protein
- Length
- 925 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- UTP-glucose-1-phosphate uridylyltransferase 2
- EC
- 2.7.7.9
- UniProt
- Q388T4
- Ligands
- UPG, SO4
- Pockets
- 12 · best druggability 0.83
Structure
x-ray diffraction · 2 distinct chains · 34% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | UTP-glucose-1-phosphate uridylyltransferase 2 (EC 2.7.7.9) | protein | 468 | 34% helix, 26% strand | Q388T4 |
| B | UTP-glucose-1-phosphate uridylyltransferase 2 (EC 2.7.7.9) | protein | 457 | 34% helix, 26% strand | Q388T4 |
Ligands and binding sites
- UPG · Uridine-5'-diphosphate-glucose · ligand · 2 copies · chains A, B
- SO4 · Sulfate ion · ion · 7 copies · chains A, B
- GOL · Glycerol · additive · 5 copies · chains A, B
- DTU · (2R,3S)-1,4-dimercaptobutane-2,3-diol · additive · chains A
- PG4 · Tetraethylene glycol · additive · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
12 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 793 | 0.83 | 0.86 | 76 | UPG, GOL |
| 2 | 698 | 0.81 | 0.86 | 75 | SO4, GOL, UPG |
| 3 | 539 | 0.71 | 0.80 | 67 | GOL, PG4 |
| 4 | 55 | 0.69 | 0.97 | 19 | DTU |
| 5 | 60 | 0.69 | 0.96 | 21 | GOL |
Interfaces
1 interface between chains.
- A–B · 490 Ų buried · 9 hydrogen bonds · protein-protein
Compared structures
- 3GUE · Crystal Structure of UDP-glucose phosphorylase from Trypanosoma Brucei, (Tb10.389.0330) · the same entry in another collection · chain A against A, TM-score 1.00
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 Q388T4
- Elsewhere: RCSB PDB 3GUE · PDBe 3GUE · UniProt Q388T4
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