7VRG image
Deposition Date 2021-10-22
Release Date 2022-03-02
Last Version Date 2024-10-30
Entry Detail
PDB ID:
7VRG
Keywords:
Title:
Crystal structure of chitinase-h from O. furnacalis in complex with Lynamicin B
Biological Source:
Source Organism:
Method Details:
Experimental Method:
Resolution:
2.40 Å
R-Value Free:
0.24
R-Value Work:
0.23
R-Value Observed:
0.23
Space Group:
P 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Chitinase
Gene (Uniprot):OfChi-h
Chain IDs:A, B
Chain Length:540
Number of Molecules:2
Biological Source:Ostrinia furnacalis
Primary Citation
Lynamicin B is a Potential Pesticide by Acting as a Lepidoptera-Exclusive Chitinase Inhibitor.
J.Agric.Food Chem. 69 14086 14091 (2021)
PMID: 34797675 DOI: 10.1021/acs.jafc.1c05385

Abstact

Insect group h chitinase is a promising target for designing non-target safe pesticides in that it is exclusively distributed in lepidopteran insects, over 80% of which are agricultural pests. In this work, lynamicin B was discovered to be an inhibitor of OfChi-h, the group h chitinase from the lepidopteran pest Ostrinia furnacalis. Lynamicin B was revealed to competitively inhibit OfChi-h with a Ki value of 8.76 μM and does not significantly inhibit other chitinases. The co-crystal structure of lynamicin B and OfChi-h revealed that the dichloroindolyl group of lynamicin B occupies an unexplored pocket below subsites +1 and +2 of the substrate-binding cleft, which is vital for its selectivity. Feeding experiments demonstrated that lynamicin B exhibited high insecticidal activities against other lepidopteran pests Mythimna separata and Spodoptera frugiperda besides O. furnacalis. Moreover, lynamicin B did not affect Trichogramma ostriniae, a natural enemy of O. furnacalis. This study provides a natural-derived potent pesticide for the control of lepidopteran pests, leaving its natural enemy unaffected.

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