2YNB

Crystal structure of the main protease of coronavirus HKU4 in complex with a Michael acceptor SG85


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.96 Å
  • R-Value Free: 0.198 
  • R-Value Work: 0.171 
  • R-Value Observed: 0.173 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.2 of the entry. See complete history


Literature

Inhibitor for the Main Protease of Coronavirus Hku4

Ma, Q.Xiao, Y.Hilgenfeld, R.

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
3C-LIKE PROTEINASEA, B306Tylonycteris bat coronavirus HKU4Mutation(s): 0 
Gene Names: 1a
EC: 3.4.22.69 (PDB Primary Data), 3.4.19.12 (UniProt), 3.4.22 (UniProt)
UniProt
Find proteins for P0C6T4 (Bat coronavirus HKU4)
Explore P0C6T4 
Go to UniProtKB:  P0C6T4
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
G85 (Subject of Investigation/LOI)
Query on G85

Download Ideal Coordinates CCD File 
E [auth B]N-[(benzyloxy)carbonyl]-O-tert-butyl-L-seryl-N-{(2R)-5-ethoxy-5-oxo-1-[(3S)-2-oxopyrrolidin-3-yl]pentan-2-yl}-L-phenylalaninamide
C35 H48 N4 O8
JRBUWNJDFCUWEM-CRNKYVSFSA-N
 Ligand Interaction
NI
Query on NI

Download Ideal Coordinates CCD File 
C [auth A], D [auth A]NICKEL (II) ION
Ni
VEQPNABPJHWNSG-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.96 Å
  • R-Value Free: 0.198 
  • R-Value Work: 0.171 
  • R-Value Observed: 0.173 
  • Space Group: P 31 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 79.35α = 90
b = 79.35β = 90
c = 178.67γ = 120
Software Package:
Software NamePurpose
BUSTERrefinement
AutoPROCdata reduction
XDSdata reduction
AutoPROCdata scaling
XDSdata scaling
SCALAdata scaling

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment  



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2013-10-23
    Type: Initial release
  • Version 1.1: 2019-03-06
    Changes: Data collection, Derived calculations, Experimental preparation, Other
  • Version 1.2: 2019-05-15
    Changes: Data collection, Experimental preparation