5GWZ

The structure of Porcine epidemic diarrhea virus main protease in complex with an inhibitor


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.444 Å
  • R-Value Free: 0.219 
  • R-Value Work: 0.185 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Michael Acceptor-Based Peptidomimetic Inhibitor of Main Protease from Porcine Epidemic Diarrhea Virus

Wang, F.Chen, C.Yang, K.Xu, Y.Liu, X.Gao, F.Liu, H.Chen, X.Zhao, Q.Liu, X.Cai, Y.Yang, H.

(2017) J. Med. Chem. 60: 3212-3216

  • DOI: 10.1021/acs.jmedchem.7b00103

  • PubMed Abstract: 
  • Porcine epidemic diarrhea virus (PEDV) causes high mortality in pigs. PEDV main protease (Mpro) plays an essential role in viral replication. We solved the structure of PEDV Mpro complexed with peptidomimetic inhibitor N3 carrying a Michael acceptor ...

    Porcine epidemic diarrhea virus (PEDV) causes high mortality in pigs. PEDV main protease (Mpro) plays an essential role in viral replication. We solved the structure of PEDV Mpro complexed with peptidomimetic inhibitor N3 carrying a Michael acceptor warhead, revealing atomic level interactions. We further designed a series of 17 inhibitors with altered side groups. Inhibitors M2 and M17 demonstrated enhanced specificity against PEDV Mpro. These compounds have potential as future therapeutics to combat PEDV infection.


    Organizational Affiliation

    School of Life Sciences, Tianjin University , Tianjin 300072, China.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
PEDV main protease
B, A
307Porcine epidemic diarrhea virus (strain CV777)Mutation(s): 0 
Find proteins for P0C6V6 (Porcine epidemic diarrhea virus (strain CV777))
Go to UniProtKB:  P0C6V6
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
N-[(5-METHYLISOXAZOL-3-YL)CARBONYL]ALANYL-L-VALYL-N~1~-((1R,2Z)-4-(BENZYLOXY)-4-OXO-1-{[(3R)-2-OXOPYRROLIDIN-3-YL]METHYL}BUT-2-ENYL)-L-LEUCINAMIDE
D, E
6N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.444 Å
  • R-Value Free: 0.219 
  • R-Value Work: 0.185 
  • Space Group: H 3
Unit Cell:
Length (Å)Angle (°)
a = 175.263α = 90.00
b = 175.263β = 90.00
c = 58.678γ = 120.00
Software Package:
Software NamePurpose
HKL-2000data scaling
HKL-2000data reduction
PHASERphasing
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2017-03-29
    Type: Initial release
  • Version 1.1: 2017-04-26
    Type: Database references