Research workbench
Fragment-based screening identifies a new area for inhibitor binding to checkpoint kinase 2 (CHK2)
Analyse Fragment-based screening identifies a new area for inhibitor binding to… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4BDH
- Type
- protein
- Length
- 282 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- SERINE/THREONINE-protein kinase CHK2
- EC
- 2.7.11.1
- UniProt
- O96017
- Ligands
- WVI, NO3, CL
- Pockets
- 3 · best druggability 0.56
Structure
x-ray diffraction · 1 distinct chain · 41% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | SERINE/THREONINE-protein kinase CHK2 (EC 2.7.11.1) | protein | 282 | 41% helix, 16% strand | O96017 |
Ligands and binding sites
- WVI · 3-methyl-4-(thiophen-2-yl)-1H-pyrazol-5-amine · ligand · chains A
- NO3 · Nitrate ion · ion · chains A
- CL · Chloride ion · ion · chains A
- EDO · 1,2-ethanediol · additive · 3 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 190 | 0.56 | 0.79 | 28 | WVI, EDO |
| 2 | 76 | 0.33 | 0.74 | 17 | empty |
| 3 | 59 | 0.27 | 0.73 | 15 | empty |
Compared structures
- 4BDH · Fragment-based screening identifies a new area for inhibitor binding to checkpoint kinase… · the same entry in another collection · chain A against A, TM-score 1.00
- O96017 · AlphaFold monomer V2.0 prediction for SERINE/THREONINE-protein kinase CHK2 (O96017) · a predicted model of the same protein · chain A against A, TM-score 0.85
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 O96017
- Elsewhere: RCSB PDB 4BDH · PDBe 4BDH · UniProt O96017
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