Research workbench
Crystal structure analysis of PIP4K2A
Analyse Crystal structure analysis of PIP4K2A in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6OSP
- Type
- protein
- Length
- 630 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Phosphatidylinositol 5-phosphate 4-kinase type-2 alpha
- EC
- 2.7.1.149
- UniProt
- P48426
- Ligands
- N51
- Pockets
- 6 · best druggability 0.68
Structure
x-ray diffraction · 2 distinct chains · 37% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Phosphatidylinositol 5-phosphate 4-kinase type-2 alpha (EC 2.7.1.149) | protein | 320 | 38% helix, 23% strand | P48426 |
| B | Phosphatidylinositol 5-phosphate 4-kinase type-2 alpha (EC 2.7.1.149) | protein | 310 | 36% helix, 23% strand | P48426 |
Ligands and binding sites
- N51 · 4-{[(2E)-4-(dimethylamino)but-2-enoyl]amino}-N-(3-{[6-(1H-indol-3-yl)pyrimidin-4-yl]amino}phenyl)benzamide · ligand · 2 copies · chains A, B
- GOL · Glycerol · additive · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 470 | 0.68 | 0.79 | 41 | N51 |
| 2 | 414 | 0.67 | 0.79 | 47 | N51 |
| 3 | 103 | 0.41 | 0.77 | 19 | GOL |
| 4 | 98 | 0.38 | 0.76 | 23 | GOL |
| 5 | 76 | 0.33 | 0.75 | 25 | empty |
Interfaces
1 interface between chains.
- A–B · 1489 Ų buried · 24 hydrogen bonds · protein-protein
Compared structures
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 P48426
- Elsewhere: RCSB PDB 6OSP · PDBe 6OSP · UniProt P48426
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.