MolNFT v1 · #134386 · protein
MPI3KD in complex with 7M
5T2M · Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic…: “MPI3KD in complex with 7M”. X-ray diffraction, 1 ligand (74N), 9 pockets (best druggability 0.81). MolNFT v1 #134386 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 5T2M
- Type
- protein
- Length
- 820 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit delta isoform
- EC
- 2.7.1.153
- UniProt
- O35904
- Ligands
- 74N
- Pockets
- 9 · best druggability 0.81
Structure
x-ray diffraction · 1 distinct chain · 46% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit delta isoform (EC 2.7.1.153) | protein | 820 | 46% helix, 19% strand | O35904 |
Ligands and binding sites
- 74N · 4-[3-azanyl-6-[1-methyl-5-(1-phenylcyclopropyl)-1,2,4-triazol-3-yl]pyrazin-2-yl]benzamide · ligand · chains A
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 | 1182 | 0.81 | 0.82 | 80 | empty |
| 2 | 962 | 0.74 | 0.77 | 108 | empty |
| 3 | 294 | 0.67 | 0.82 | 38 | empty |
| 4 | 298 | 0.60 | 0.78 | 36 | 74N |
| 5 | 107 | 0.60 | 0.86 | 28 | empty |
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 O35904
- Elsewhere: RCSB PDB 5T2M · PDBe 5T2M · UniProt O35904
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