7XT0 | pdb_00007xt0

Crystal structure of RNA helicase from Saint Louis encephalitis virus and discovery of its inhibitors

• PDB DOI: https://doi.org/10.2210/pdb7XT0/pdb

• Classification: HYDROLASE
• Organism(s): St. Louis encephalitis virus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2022-05-15 Released: 2023-11-01 
• Deposition Author(s): Wang, D.P., Jiang, F.Y., Zeng, X.Y., Zhao, R., Chen, C., Zhu, Y., Cao, J.M.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.48 Å
• R-Value Free: 
  0.274 (Depositor), 0.280 (DCC) 
• R-Value Work: 
  0.203 (Depositor), 0.210 (DCC) 
• R-Value Observed: 
  0.206 (Depositor) 

Literature

Crystal structure of RNA helicase from Saint Louis encephalitis virus and discovery of its inhibitors.

Wang, D.P., Jiang, F.Y., Zeng, X.Y., Liu, Y.J., Zhao, R., Wang, M.Y., Luo, J., Chen, C., Zhu, Y., Cao, J.M.

(2023) Genes Dis 10: 389-392

• PubMed: 37223502 
• DOI: https://doi.org/10.1016/j.gendis.2022.07.001
• Primary Citation of Related Structures:  
  7XT0

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Organizational Affiliation: 
• Key Laboratory of Cellular Physiology at Shanxi Medical University, Ministry of Education, And the Department of Physiology, Shanxi Medical University, Taiyuan, Shanxi 030001, China.
College of Life Sciences, Chongqing Medical University, Chongqing 400016, China.
Department of Biochemistry and Molecular Biology, School of Basic Medical Sciences, Tianjin Medical University, Tianjin 300070, China.
Department of Rheumatology, The Second Hospital of Shanxi Medical University, Taiyuan, Shanxi 030001, China.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 50.28 kDa 
• Atom Count: 3,509 
• Modeled Residue Count: 435 
• Deposited Residue Count: 444 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
RNA helicase	A	444	St. Louis encephalitis virus	Mutation(s): 0
UniProt
Find proteins for P09732 (St. louis encephalitis virus (strain MS1-7)) Explore P09732  Go to UniProtKB:  P09732

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EDO (Subject of Investigation/LOI)	B [auth A], C [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.48 Å
• R-Value Free:  0.274 (Depositor), 0.280 (DCC) 
• R-Value Work:  0.203 (Depositor), 0.210 (DCC) 
• R-Value Observed: 0.206 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 51.467	α = 90
b = 80.656	β = 90
c = 104.761	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
XDS	data reduction
XDS	data scaling
HKL-3000	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-11-01 
Deposition Author(s): Wang, D.P., Jiang, F.Y., Zeng, X.Y., Zhao, R., Chen, C., Zhu, Y., Cao, J.M.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	82170523

Revision History  

• Version 1.0: 2023-11-01
  Type: Initial release
  
• Version 1.1: 2025-05-14
  Changes: Database references, Structure summary