8QCW image
Entry Detail
PDB ID:
8QCW
Keywords:
Title:
The crystal structure of the truncated form of Lotus japonicus kinase 1
Biological Source:
Source Organism:
PDB Version:
Deposition Date:
2023-08-28
Release Date:
2024-02-21
Method Details:
Experimental Method:
Resolution:
2.90 Å
R-Value Free:
0.31
R-Value Work:
0.24
R-Value Observed:
0.25
Space Group:
P 21 21 21
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:non-specific serine/threonine protein kinase
Chain IDs:A
Chain Length:466
Number of Molecules:1
Biological Source:Lotus japonicus
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
PTR A TYR modified residue
Primary Citation
Biochemical and Structural Studies of LjSK1, a Lotus japonicus GSK3 beta /SHAGGY-like Kinase, Reveal Its Functional Role.
J.Agric.Food Chem. 72 3763 3772 (2024)
PMID: 38330914 DOI: 10.1021/acs.jafc.3c07101

Abstact

The crystal structure of a truncated form of the Lotus japonicus glycogen synthase kinase 3β (GSK3β) like kinase (LjSK190-467) has been resolved at 2.9 Å resolution, providing, for the first time, structural data for a plant GKS3β like kinase. The 3D structure of LjSK190-467 revealed conservation at the structural level for this plant member of the GSK3β family. However, comparative structural analysis to the human homologue revealed significant differences at the N- and C-termini, supporting the notion for an additional regulatory mechanism in plant GSK3-like kinases. Structural similarities at the catalytic site and the ATP binding site explained the similarity in the function of the human and plant protein. LjSK1 and lupeol are strongly linked to symbiotic bacterial infection and nodulation initiation. An inhibitory capacity of lupeol (IC50 = 0.77 μM) for LjSK1 was discovered, providing a biochemical explanation for the involvement of these two molecules in nodule formation, and constituted LjSK1 as a molecular target for the discovery of small molecule modulators for crop protection and development. Studies on the inhibitory capacity of two phytogenic triterpenoids (betulinic acid and hederacoside C) to LjSK1 provided their structure-activity relationship and showed that hederacoside C can be the starting point for such endeavors.

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Primary Citation of related structures