Research workbench
Fragment-based discovery of pyrazolopyridones as JAK1 inhibitors with excellent subtype selectivity
Analyse Fragment-based discovery of pyrazolopyridones as JAK1 inhibitors with excellent… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6TPE
- Type
- protein
- Length
- 566 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Tyrosine-protein kinase JAK1
- EC
- 2.7.10.2
- UniProt
- P23458
- Ligands
- NTW
- Pockets
- 5 · best druggability 0.65
Structure
x-ray diffraction · 2 distinct chains · 40% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Tyrosine-protein kinase JAK1 (EC 2.7.10.2) | protein | 283 | 40% helix, 20% strand | P23458 |
| B | Tyrosine-protein kinase JAK1 (EC 2.7.10.2) | protein | 283 | 40% helix, 20% strand | P23458 |
Ligands and binding sites
- NTW · 2-[4-(3-methyl-6-oxidanylidene-1,7-dihydropyrazolo[3,4-b]pyridin-4-yl)cyclohexyl]ethanenitrile · ligand · 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 | 271 | 0.65 | 0.82 | 43 | NTW |
| 2 | 275 | 0.64 | 0.81 | 43 | NTW |
| 3 | 110 | 0.52 | 0.82 | 21 | empty |
| 4 | 87 | 0.50 | 0.83 | 22 | empty |
| 5 | 52 | 0.23 | 0.71 | 13 | empty |
Interfaces
1 interface between chains.
- A–B · 1079 Ų buried · 12 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 modified (phosphorylation).
Compared structures
- 6TPE · Fragment-based discovery of pyrazolopyridones as JAK1 inhibitors with excellent subtype… · 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 P23458
- Elsewhere: RCSB PDB 6TPE · PDBe 6TPE · UniProt P23458
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