Research workbench
Co-crystal structure of lipid kinase PI3K alpha with a selective phosphatidylinositol-3 kinase alpha inhibitor
Analyse Co-crystal structure of lipid kinase PI3K alpha with a selective… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4ZOP
- Type
- protein
- Length
- 1,240 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit alpha isoform…
- EC
- 2.7.1.153, 2.7.11.1
- UniProt
- P42336, P27986
- Ligands
- 4Q2
- Pockets
- 18 · best druggability 0.87
Structure
x-ray diffraction · 2 distinct chains · 45% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit alpha isoform (EC 2.7.1.153, 2.7.11.1) | protein | 1000 | 40% helix, 19% strand | P42336 |
| B | Phosphatidylinositol 3-kinase regulatory subunit alpha | protein | 240 | 65% helix, 9% strand | P27986 |
Ligands and binding sites
- 4Q2 · (2S,3R)-N~1~-(8-tert-butyl-4,5-dihydro[1,3]thiazolo[4, 5-h]quinazolin-2-yl)-3-methylpyrrolidine-1,2-dicarboxamide · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
18 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 764 | 0.87 | 0.90 | 103 | empty |
| 2 | 1119 | 0.83 | 0.84 | 82 | empty |
| 3 | 323 | 0.82 | 0.92 | 51 | empty |
| 4 | 239 | 0.68 | 0.84 | 36 | empty |
| 5 | 122 | 0.66 | 0.89 | 22 | empty |
Interfaces
1 interface between chains.
- A–B · 3317 Ų buried · 42 hydrogen bonds · protein-protein
Compared structures
- P42336 · AlphaFold monomer V2.0 prediction for phosphatidylinositol 4,5-bisphosphate 3-kinase… · a predicted model of the same protein · chain A against A, TM-score 0.99
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 P42336
- Every structure of UniProt P27986
- Elsewhere: RCSB PDB 4ZOP · PDBe 4ZOP · UniProt P42336 · UniProt P27986
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