5G4B | pdb_00005g4b

Crystal structure of Aura virus capsid protein in complex with piperazine.

• PDB DOI: https://doi.org/10.2210/pdb5G4B/pdb

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


• Deposited: 2016-05-08 Released: 2016-07-20 
• Deposition Author(s): Aggarwal, M., Kumar, P., Tomar, S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.24 Å
• R-Value Free: 
  0.265 (Depositor), 0.270 (DCC) 
• R-Value Work: 
  0.199 (Depositor), 0.200 (DCC) 
• R-Value Observed: 
  0.201 (Depositor) 

Starting Model: experimental

Literature

Crystal Structure of Capsid Protein from Aura Virus in Complex with Piperazine

Aggarwal, M., Kumar, P., Tomar, 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)

Macromolecule Content 

• Total Structure Weight: 17.09 kDa 
• Atom Count: 1,226 
• Modeled Residue Count: 152 
• Deposited Residue Count: 158 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
CAPSID PROTEIN	A	158	Aura virus	Mutation(s): 0  EC: 3.4.21.90
UniProt
Find proteins for Q86925 (Aura virus) Explore Q86925  Go to UniProtKB:  Q86925

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PZE	B [auth A]	piperazine C4 H10 N2 GLUUGHFHXGJENI-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.24 Å
• R-Value Free:  0.265 (Depositor), 0.270 (DCC) 
• R-Value Work:  0.199 (Depositor), 0.200 (DCC) 
• R-Value Observed: 0.201 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 79.256	α = 90
b = 34.839	β = 101.94
c = 49.169	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
SCALEPACK	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2016-07-20 
Deposition Author(s): Aggarwal, M., Kumar, P., Tomar, S.

Revision History  

• Version 1.0: 2016-07-20
  Type: Initial release
  
• Version 1.1: 2017-03-29
  Changes: Other
• Version 1.2: 2017-07-05
  Changes: Data collection
• Version 1.3: 2024-01-10
  Changes: Data collection, Database references, Derived calculations, Other, Refinement description