MolNFT v1 · #154841 · protein
The crystal structue of PDE10A complexed with 2D
6KO1 · Camp and camp-inhibited cgmp 3',5'-cyclic phosphodiesterase…: “The crystal structue of PDE10A complexed with 2D”. X-ray diffraction, 3 ligands (DL0, ZN, MG), 5 pockets (best druggability 0.74). MolNFT v1 #154841 on GenesisL1: 3D…
- PDB
- 6KO1
- Type
- protein
- Length
- 632 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
- DL0, ZN, MG
- Pockets
- 5 · best druggability 0.74
Structure
x-ray diffraction · 2 distinct chains · 70% 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 | 310 | 72% 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 | 322 | 68% helix, 0% strand | Q9Y233 |
Ligands and binding sites
- DL0 · 6-chloranyl-3-[2-(5-methyl-1-phenyl-benzimidazol-2-yl) ethyl]chromen-4-one · ligand · 2 copies · chains A, B
- 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
5 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 627 | 0.74 | 0.80 | 59 | MG, DL0 |
| 2 | 764 | 0.73 | 0.78 | 62 | empty |
| 3 | 442 | 0.72 | 0.82 | 50 | MG, DL0 |
| 4 | 117 | 0.44 | 0.77 | 23 | empty |
| 5 | 104 | 0.37 | 0.75 | 17 | empty |
Interfaces
1 interface between chains.
- A–B · 752 Ų buried · 5 hydrogen bonds · protein-protein
Compared structures
- 6KO1 · The crystal structue of PDE10A complexed with 2d · 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 6KO1 · PDBe 6KO1 · UniProt Q9Y233
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