MolNFT v1 · #124790 · protein
Glycogen synthase kinase 3 beta complexed with BRD0705
5KPL · Glycogen synthase kinase-3 beta: “Glycogen synthase kinase 3 beta complexed with BRD0705”. X-ray diffraction, 1 ligand (6VL), 5 pockets (best druggability 0.75). MolNFT v1 #124790 on GenesisL1: 3D structure, binding sites and…
- PDB
- 5KPL
- Type
- protein
- Length
- 680 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Glycogen synthase kinase-3 beta
- EC
- 2.7.11.26, 2.7.11.1
- UniProt
- P49841
- Ligands
- 6VL
- Pockets
- 5 · best druggability 0.75
Structure
x-ray diffraction · 2 distinct chains · 35% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Glycogen synthase kinase-3 beta (EC 2.7.11.26, 2.7.11.1) | protein | 340 | 35% helix, 18% strand | P49841 |
| B | Glycogen synthase kinase-3 beta (EC 2.7.11.26, 2.7.11.1) | protein | 340 | 35% helix, 18% strand | P49841 |
Ligands and binding sites
- 6VL · (4~{S})-4-ethyl-7,7-dimethyl-4-phenyl-2,6,8,9-tetrahydropyrazolo[3,4-b]quinolin-5-one · 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 | 928 | 0.75 | 0.79 | 80 | empty |
| 2 | 247 | 0.65 | 0.82 | 28 | 6VL |
| 3 | 262 | 0.59 | 0.78 | 28 | 6VL |
| 4 | 50 | 0.39 | 0.81 | 21 | empty |
| 5 | 60 | 0.26 | 0.73 | 18 | empty |
Interfaces
1 interface between chains.
- A–B · 518 Ų buried · 10 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 modified (phosphorylation).
Compared structures
- 5KPL · Glycogen Synthase Kinase 3 beta Complexed with BRD0705 · 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 P49841
- Elsewhere: RCSB PDB 5KPL · PDBe 5KPL · UniProt P49841
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