6L0T | pdb_00006l0t

Crystal structure of senecavirus A 3C protease

• PDB DOI: https://doi.org/10.2210/pdb6L0T/pdb

• Classification: VIRAL PROTEIN
• Organism(s): Senecavirus A
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2019-09-27 Released: 2020-09-30 
• Deposition Author(s): Meng, K.W., Zhang, L.J., Meng, G.
• Funding Organization(s): Other government

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 
  0.206 (Depositor), 0.210 (DCC) 
• R-Value Work: 
  0.174 (Depositor), 0.170 (DCC) 
• R-Value Observed: 
  0.176 (Depositor) 

Starting Model: experimental

Literature

Structure of Senecavirus A 3C Protease Revealed the Cleavage Pattern of 3C Protease in Picornaviruses

Meng, K.W., Zhang, L.J., Meng, G.

(2022) J Virol 

• DOI: https://doi.org/10.1128/jvi.00736-22

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 50.44 kDa 
• Atom Count: 3,686 
• Modeled Residue Count: 412 
• Deposited Residue Count: 464 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
3C PROTEASE	A, B	232	Senecavirus A	Mutation(s): 0
UniProt
Find proteins for Q155Z9 (Seneca Valley virus (isolate -/United States/SSV-001/2002)) Explore Q155Z9  Go to UniProtKB:  Q155Z9

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free:  0.206 (Depositor), 0.210 (DCC) 
• R-Value Work:  0.174 (Depositor), 0.170 (DCC) 
• R-Value Observed: 0.176 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 45.91	α = 90
b = 57.6	β = 100.26
c = 74.78	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling
PHASER	phasing
Coot	model building

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2020-09-30 
Deposition Author(s): Meng, K.W., Zhang, L.J., Meng, G.

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Funding Organization	Location	Grant Number
Other government	China	19226631D

Revision History  

• Version 1.0: 2020-09-30
  Type: Initial release
  
• Version 2.0: 2022-06-15
  Type: Coordinate replacement
  Reason: Real space R-factor
  Changes: Advisory, Atomic model, Author supporting evidence, Data collection, Database references, Derived calculations, Experimental preparation, Other, Polymer sequence, Refinement description, Source and taxonomy, Structure summary
• Version 2.1: 2023-11-22
  Changes: Data collection, Refinement description