5HXF

Crystal structure of 3C protease from a mild Human enterovirus 71 in complex with rupintrivir

• PDB DOI: https://doi.org/10.2210/pdb5HXF/pdb

• Classification: HYDROLASE
• Organism(s): Enterovirus A71
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2016-01-30 Released: 2017-02-15 
• Deposition Author(s): Li, B., Yuan, Z., Qin, L., Gu, L.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.39 Å
• R-Value Free: 0.199 
• R-Value Work: 0.174 
• R-Value Observed: 0.176 

Starting Model: experimental

Literature

Crystal structure of 3C protease from a mild Human enterovirus 71 in complex with rupintrivir

Li, B., Yue, Y., Zhang, Y., Yuan, Z., Liu, Y., Li, P., Song, N., Li, Z., Gu, L., Qin, L.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 21.09 kDa 
• Atom Count: 1,761 
• Modelled Residue Count: 182 
• Deposited Residue Count: 184 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
3C protease	A	184	Enterovirus A71	Mutation(s): 0
UniProt
Find proteins for B8YLW0 (Human enterovirus 71) Explore B8YLW0  Go to UniProtKB:  B8YLW0

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
AG7	B [auth A]	4-{2-(4-FLUORO-BENZYL)-6-METHYL-5-[(5-METHYL-ISOXAZOLE-3-CARBONYL)-AMINO]-4-OXO-HEPTANOYLAMINO}-5-(2-OXO-PYRROLIDIN-3-YL)-PENTANOIC ACID ETHYL ESTER C31 H41 F N4 O7 LMIUALQNZXJHOG-IFILWLFVSA-N
SO4	C [auth A], D [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.39 Å
• R-Value Free: 0.199 
• R-Value Work: 0.174 
• R-Value Observed: 0.176 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 36.209	α = 90
b = 64.781	β = 113.06
c = 38.323	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
HKL-2000	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2017-02-15 
Deposition Author(s): Li, B., Yuan, Z., Qin, L., Gu, L.

Revision History  

• Version 1.0: 2017-02-15
  Type: Initial release
  
• Version 1.1: 2023-11-08
  Changes: Data collection, Database references, Refinement description