MolNFT v1 · #89044 · protein
PDE10A crystal structure complexed with novel inhibitor
4DDL · Camp and camp-inhibited cgmp 3',5'-cyclic phosphodiesterase…: “PDE10A crystal structure complexed with novel inhibitor”. X-ray diffraction, 3 ligands (0JQ, ZN, SO4), 7 pockets (best druggability 0.72). MolNFT v1 #89044 on GenesisL1…
- PDB
- 4DDL
- Type
- protein
- Length
- 626 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Camp and camp-inhibited cgmp 3',5'-cyclic phosphodiesterase 10A
- EC
- 3.1.4.17, 3.1.4.35
- UniProt
- Q9Y233
- Ligands
- 0JQ, ZN, SO4
- Pockets
- 7 · best druggability 0.72
Structure
x-ray diffraction · 2 distinct chains · 72% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Camp and camp-inhibited cgmp 3',5'-cyclic phosphodiesterase 10A (EC 3.1.4.17, 3.1.4.35) | protein | 318 | 71% helix, 0% strand | Q9Y233 |
| B | Camp and camp-inhibited cgmp 3',5'-cyclic phosphodiesterase 10A (EC 3.1.4.17, 3.1.4.35) | protein | 308 | 73% helix, 0% strand | Q9Y233 |
Ligands and binding sites
- 0JQ · 2-{1-[5-(6,7-dimethoxycinnolin-4-yl)-3-methylpyridin-2-yl]piperidin-4-yl}propan-2-ol · ligand · 2 copies · chains A, B
- ZN · Zinc ion · metal · 4 copies · chains A, B
- SO4 · Sulfate ion · ion · 15 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 414 | 0.72 | 0.83 | 42 | ZN, 0JQ |
| 2 | 370 | 0.71 | 0.83 | 35 | ZN, 0JQ |
| 3 | 260 | 0.61 | 0.80 | 39 | empty |
| 4 | 93 | 0.57 | 0.86 | 19 | empty |
| 5 | 133 | 0.53 | 0.81 | 28 | empty |
Interfaces
1 interface between chains.
- A–B · 581 Ų buried · 15 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 4DDL · PDE10a Crystal Structure Complexed with Novel 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 4DDL · PDBe 4DDL · UniProt Q9Y233
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