Research workbench
The structure of the eukaryotic PURINE/H+ symporter, uapa, in complex with xanthine
Analyse The structure of the eukaryotic PURINE/H+ symporter, uapa, in complex with… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5I6C
- Type
- protein
- Length
- 948 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Uric acid-xanthine permease
- UniProt
- Q07307
- Ligands
- XAN
- Pockets
- 14 · best druggability 0.83
Structure
x-ray diffraction · 2 distinct chains · 64% helix, 2% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Uric acid-xanthine permease | protein | 480 | 63% helix, 2% strand | Q07307 |
| B | Uric acid-xanthine permease | protein | 468 | 65% helix, 2% strand | Q07307 |
Ligands and binding sites
- XAN · Xanthine · ligand · 2 copies · chains A, B
- LMT · Dodecyl-beta-D-maltoside · additive · 4 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
14 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 934 | 0.83 | 0.85 | 97 | empty |
| 2 | 879 | 0.80 | 0.82 | 65 | XAN, LMT |
| 3 | 898 | 0.80 | 0.82 | 69 | XAN, LMT |
| 4 | 631 | 0.77 | 0.83 | 66 | empty |
| 5 | 277 | 0.64 | 0.81 | 28 | empty |
Interfaces
1 interface between chains.
- A–B · 1835 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 5I6C · The structure of the eukaryotic purine/H+ symporter, UapA, in complex with Xanthine · the same entry in another collection · chain A against A, TM-score 1.00
- Q07307 · AlphaFold monomer V2.0 prediction for uric acid-xanthine permease (Q07307) · a predicted model of the same protein · chain B against A, TM-score 0.95
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 Q07307
- Elsewhere: RCSB PDB 5I6C · PDBe 5I6C · UniProt Q07307
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