3QB8

Paramecium Chlorella Bursaria Virus1 Putative ORF A654L is a Polyamine Acetyltransferase

• PDB DOI: https://doi.org/10.2210/pdb3QB8/pdb

• Classification: TRANSFERASE
• Organism(s): Paramecium bursaria Chlorella virus 1
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2011-01-12 Released: 2012-01-25 
• Deposition Author(s): Charlop-Powers, Z., Zhou, M.-M., Jakoncic, J., Gurnon, J., Van Etten, J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free: 0.168 
• R-Value Work: 0.152 
• R-Value Observed: 0.153 

Literature

Paramecium bursaria chlorella virus 1 encodes a polyamine acetyltransferase.

Charlop-Powers, Z., Jakoncic, J., Gurnon, J.R., Van Etten, J.L., Zhou, M.M.

(2012) J Biol Chem 287: 9547-9551

• PubMed: 22277659 
• DOI: https://doi.org/10.1074/jbc.C111.337816
• Primary Citation of Related Structures:  
  3QB8


• PubMed Abstract: 
  

  Paramecium bursaria chlorella virus 1 (PBCV-1), a large DNA virus that infects green algae, encodes a histone H3 lysine 27-specific methyltransferase that functions in global transcriptional silencing of the host. PBCV-1 has another gene a654l that encodes a protein with sequence similarity to the GCN5 family histone acetyltransferases. In this study, we report a 1.5 Å crystal structure of PBCV-1 A654L in a complex with coenzyme A. The structure reveals a unique feature of A654L that precludes its acetylation of histone peptide substrates. We demonstrate that A654L, hence named viral polyamine acetyltransferase (vPAT), acetylates polyamines such as putrescine, spermidine, cadaverine, and homospermidine present in both PBCV-1 and its host through a reaction dependent upon a conserved glutamate 27. Our study suggests that as the first virally encoded polyamine acetyltransferase, vPAT plays a possible key role in the regulation of polyamine catabolism in the host during viral replication.

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Organizational Affiliation: 

Department of Structural and Chemical Biology, Mount Sinai School of Medicine, New York, New York 10029, USA.

Biological Assembly 1  

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

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

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 46.52 kDa 
• Atom Count: 3,769 
• Modelled Residue Count: 394 
• Deposited Residue Count: 394 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
A654L protein	A, B	197	Paramecium bursaria Chlorella virus 1	Mutation(s): 0  Gene Names: A654L
UniProt
Find proteins for O41136 (Paramecium bursaria Chlorella virus 1) Explore O41136  Go to UniProtKB:  O41136

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
COA	C [auth A], E [auth B]	COENZYME A C21 H36 N7 O16 P3 S RGJOEKWQDUBAIZ-IBOSZNHHSA-N
IMD	D [auth A], F [auth B]	IMIDAZOLE C3 H5 N2 RAXXELZNTBOGNW-UHFFFAOYSA-O

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free: 0.168 
• R-Value Work: 0.152 
• R-Value Observed: 0.153 
• Space Group: P 3₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 65.4	α = 90
b = 65.4	β = 90
c = 112.631	γ = 120

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-01-25 
Deposition Author(s): Charlop-Powers, Z., Zhou, M.-M., Jakoncic, J., Gurnon, J., Van Etten, J.

Revision History  

• Version 1.0: 2012-01-25
  Type: Initial release
  
• Version 1.1: 2017-09-27
  Changes: Database references
• Version 1.2: 2024-02-21
  Changes: Data collection, Database references, Derived calculations