Research workbench
Crystal structure of the P2X4 receptor from zebrafish in the presence of CTP at 2.8 ångströms
Analyse Crystal structure of the P2X4 receptor from zebrafish in the presence of CTP at… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5WZY
- Type
- protein
- Length
- 324 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- P2X purinoceptor
- UniProt
- Q6NYR1
- Ligands
- CTP, NAG, MAN, BMA
- Pockets
- 2 · best druggability 0.39
Structure
x-ray diffraction · 1 distinct chain · 23% helix, 40% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | P2X purinoceptor | protein | 324 | 23% helix, 40% strand | Q6NYR1 |
Ligands and binding sites
- CTP · Cytidine-5'-triphosphate · ligand · chains A
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 3 copies · chains A
- MAN · alpha-D-mannopyranose · sugar · 3 copies · chains A
- BMA · beta-D-mannopyranose · sugar
- GOL · Glycerol · additive · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 91 | 0.39 | 0.76 | 22 | empty |
| 2 | 89 | 0.31 | 0.73 | 18 | GOL |
Modifications
Observed in the structure: 5 disulfide, 2 glycan (disulfide, N-glycosylation).
Compared structures
- 5WZY · Crystal structure of the P2X4 receptor from zebrafish in the presence of CTP at 2.8… · 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 Q6NYR1
- Elsewhere: RCSB PDB 5WZY · PDBe 5WZY · UniProt Q6NYR1
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