Research workbench
Crystal structure of PDE10A in complex with a triazolopyrimidine inhibitor
Analyse Crystal structure of PDE10A in complex with a triazolopyrimidine inhibitor in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6KE0
- Type
- protein
- Length
- 648 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2.95
- Source
- Homo sapiens
- Molecule
- cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A
- EC
- 3.1.4.17, 3.1.4.35
- UniProt
- Q9Y233
- Ligands
- D7C, ZN, MG
- Pockets
- 9 · best druggability 0.75
Structure
x-ray diffraction · resolution 2.95 · 1 distinct chain · 70% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A (EC 3.1.4.17, 3.1.4.35) | protein | 324 | 70% helix, 0% strand | Q9Y233 |
Ligands and binding sites
- D7C · 2-(5,7-dimethyl-[1,2,4]triazolo[1,5-a]pyrimidin-2-yl)-1-[(2S)-2-methyl-1,2-dihydroimidazo[1,2-a]benzimidazol-3-yl]ethanone · ligand · chains A
- ZN · Zinc ion · metal · 2 copies · chains A, B
- MG · Magnesium ion · metal · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 663 | 0.75 | 0.80 | 67 | MG, D7C |
| 2 | 428 | 0.71 | 0.82 | 43 | MG |
| 3 | 684 | 0.69 | 0.77 | 49 | empty |
| 4 | 51 | 0.62 | 0.94 | 19 | empty |
| 5 | 53 | 0.53 | 0.89 | 17 | empty |
Interfaces
1 interface between chains.
- A–B · 889 Ų buried · 9 hydrogen bonds · protein-protein
Compared structures
- 6KE0 · Crystal structure of PDE10A in complex with a triazolopyrimidine inhibitor · 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 Q9Y233
- Elsewhere: RCSB PDB 6KE0 · PDBe 6KE0 · UniProt Q9Y233
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