8X3V

Crystal structure of 2C from encephalomyocarditis virus bound with ATP

• PDB DOI: https://doi.org/10.2210/pdb8X3V/pdb

• Classification: HYDROLASE
• Organism(s): Encephalomyocarditis virus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2023-11-14 Released: 2024-09-04 
• Deposition Author(s): Zhang, H., Zhao, H., Dong, Y.H.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free: 0.273 
• R-Value Work: 0.224 
• R-Value Observed: 0.229 

Starting Model: in silico

Literature

Crystal structure of 2C from encephalomyocarditis virus bound with ATP

Zhang, H., Zhao, H., Dong, Y.H.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 4-mer - A4 

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

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 48.69 kDa 
• Atom Count: 3,266 
• Modelled Residue Count: 417 
• Deposited Residue Count: 436 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Protein 2C	A, B	218	Encephalomyocarditis virus	Mutation(s): 0  EC: 3.6.4.13
UniProt
Find proteins for P03304 (Encephalomyocarditis virus) Explore P03304  Go to UniProtKB:  P03304

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ATP (Subject of Investigation/LOI)	C [auth A]	ADENOSINE-5'-TRIPHOSPHATE C10 H16 N5 O13 P3 ZKHQWZAMYRWXGA-KQYNXXCUSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free: 0.273 
• R-Value Work: 0.224 
• R-Value Observed: 0.229 
• Space Group: P 6₅ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 171	α = 90
b = 171	β = 90
c = 77.01	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
autoPROC	data reduction
autoPROC	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-09-04 
Deposition Author(s): Zhang, H., Zhao, H., Dong, Y.H.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	31970152

Revision History  

• Version 1.0: 2024-09-04
  Type: Initial release