3BGY | pdb_00003bgy

Triclinic structure of Mimivirus Capping Enzyme Triphosphatase at 1.65 A

• PDB DOI: https://doi.org/10.2210/pdb3BGY/pdb

• Classification: HYDROLASE, VIRAL PROTEIN
• Organism(s): Acanthamoeba polyphaga mimivirus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2007-11-27 Released: 2008-04-01 
• Deposition Author(s): Smith, P., Bennaroch, D., Shuman, S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.65 Å
• R-Value Free: 
  0.212 (Depositor), 0.210 (DCC) 
• R-Value Work: 
  0.184 (Depositor), 0.180 (DCC) 
• R-Value Observed: 
  0.184 (Depositor) 

Literature

Triclinic structure of Mimivirus Capping Enzyme Triphosphatase at 1.65 A

Benarroch, D., Smith, P., Shuman, S.

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)

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: 55.42 kDa 
• Atom Count: 4,514 
• Modeled Residue Count: 450 
• Deposited Residue Count: 474 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Polynucleotide 5'-triphosphatase	A, B	237	Acanthamoeba polyphaga mimivirus	Mutation(s): 0  Gene Names: YP_142736 EC: 3.1.3.33 (PDB Primary Data), 3.6.1.74 (UniProt), 2.7.7.50 (UniProt), 2.1.1.56 (UniProt)
UniProt
Find proteins for Q5UQX1 (Acanthamoeba polyphaga mimivirus) Explore Q5UQX1  Go to UniProtKB:  Q5UQX1

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ACT	C [auth A], D [auth A], E [auth A], F [auth B], G [auth B]	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.65 Å
• R-Value Free:  0.212 (Depositor), 0.210 (DCC) 
• R-Value Work:  0.184 (Depositor), 0.180 (DCC) 
• R-Value Observed: 0.184 (Depositor) 

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 39.64	α = 74.62
b = 48.46	β = 86.48
c = 69.7	γ = 76.36

Software Package:

Software Name	Purpose
CNS	refinement
HKL-2000	data collection
HKL-2000	data reduction
SCALEPACK	data scaling
AMoRE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-04-01 
Deposition Author(s): Smith, P., Bennaroch, D., Shuman, S.

Revision History  

• Version 1.0: 2008-04-01
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2024-02-21
  Changes: Data collection, Database references, Derived calculations