8XKT | pdb_00008xkt

The structure of Spodoptera litura chemosensory protein


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 
    0.246 (Depositor), 0.249 (DCC) 
  • R-Value Work: 
    0.235 (Depositor), 0.234 (DCC) 
  • R-Value Observed: 
    0.235 (Depositor) 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Structural plasticity underlies the binding capacities and specificities of chemosensory proteins towards various pesticides.

Zhang, J.Jia, Q.Xie, W.

(2025) Pestic Biochem Physiol 215: 106647-106647

  • DOI: https://doi.org/10.1016/j.pestbp.2025.106647
  • Primary Citation of Related Structures:  
    8XKT

  • PubMed Abstract: 

    Chemosensory proteins (CSPs) are small proteins that play important roles in insect physiology. Spodoptera litura, a notorious pest, causes considerable losses to the agricultural industry. Recent studies have linked the pesticide resistance of S. litura to CSPs, but the resistance mechanism remains poorly understood due to a dearth of biochemical studies and structural information on the CSP-ligand complexes. In this study, we report the crystal structure of Spodoptera litura CSP3 (SlCSP3). A comparative structural analysis of apo-SlCSP3 with its ligand-bound counterparts or AlphaFold2-predicted CSPs reveals a previously overlooked conformational state with an expanded pocket size. Furthermore, molecular dynamics (MD) simulations highlight the inherent structural plasticity of CSPs. Through virtual screening of potential CSP ligands, numerous agrochemical candidates were identified, with pyrethroids emerging as the primary category. Following docking studies demonstrated that the structurally diverse C-termini of CSPs dictate their binding specificities and affinities. This study offers insights into the structural underpinnings of differential binding propensities and specificities of CSPs, thereby shedding light on their pertinent mechanisms of drug resistance.


  • Organizational Affiliation
    • MOE Key Laboratory of Gene Function and Regulation, State Key Laboratory for Biocontrol, School of Life Sciences, Sun Yat-Sen University, Guangzhou, Guangdong 510006, PR China.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
chemosensory protein123Spodoptera lituraMutation(s): 0 
Gene Names: CSP3KT261674
UniProt
Find proteins for A0A9J7EMB9 (Spodoptera litura)
Explore A0A9J7EMB9 
Go to UniProtKB:  A0A9J7EMB9
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A9J7EMB9
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free:  0.246 (Depositor), 0.249 (DCC) 
  • R-Value Work:  0.235 (Depositor), 0.234 (DCC) 
  • R-Value Observed: 0.235 (Depositor) 
Space Group: P 43 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 40.196α = 90
b = 40.196β = 90
c = 133.821γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-3000data reduction
HKL-3000data scaling
HKL-3000phasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China31870782

Revision History  (Full details and data files)

  • Version 1.0: 2025-01-01
    Type: Initial release
  • Version 1.1: 2026-02-04
    Changes: Database references