2XPJ | pdb_00002xpj

Crystal structure of Physalis Mottle Virus with intact ordered RNA

• PDB DOI: https://doi.org/10.2210/pdb2XPJ/pdb
• NAKB: 2XPJ

• Classification: VIRUS
• Organism(s): Physalis mottle virus
• Mutation(s): No 


• Deposited: 2010-08-26 Released: 2010-09-15 
• Deposition Author(s): Sagurthi, S.R., Rajaram, V., Savithri, H.S., Murthy, M.R.N.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.40 Å
• R-Value Free: 
  0.311 (Depositor), 0.580 (DCC) 
• R-Value Work: 
  0.308 (Depositor), 0.580 (DCC) 
• R-Value Observed: 
  0.308 (Depositor) 

Starting Model: experimental

Literature

Crystal Structure of Natural Bottom Component of Phmv

Sagurthi, S.R., Rajaram, V., Savithri, H.S., Murthy, M.R.N.

To be published.

Biological Assembly 1  

Global Symmetry: Icosahedral - I  (Explore in 3D)
Global Stoichiometry: Homo 180-mer - A180 

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

Macromolecule Content 

• Total Structure Weight: 60.84 kDa 
• Atom Count: 4,001 
• Modeled Residue Count: 533 
• Deposited Residue Count: 567 
• Unique protein chains: 1
• Unique nucleic acid chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
COAT PROTEIN	A, B, C	188	Physalis mottle virus	Mutation(s): 0
UniProt
Find proteins for P36351 (Physalis mottle virus) Explore P36351  Go to UniProtKB:  P36351

Entity ID: 2
Molecule	Chains	Length	Organism	Image
5'-R(CP*CP*CP)-3'	D	3	N/A

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.40 Å
• R-Value Free:  0.311 (Depositor), 0.580 (DCC) 
• R-Value Work:  0.308 (Depositor), 0.580 (DCC) 
• R-Value Observed: 0.308 (Depositor) 

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 285.4	α = 62.92
b = 288.36	β = 65.3
c = 290.61	γ = 60.85

Software Package:

Software Name	Purpose
CNS	refinement
AUTOMAR	data reduction
SCALEPACK	data scaling
AMoRE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-09-15 
Deposition Author(s): Sagurthi, S.R., Rajaram, V., Savithri, H.S., Murthy, M.R.N.

Revision History  

• Version 1.0: 2010-09-15
  Type: Initial release
  
• Version 1.1: 2012-02-08
  Changes: Other, Version format compliance
• Version 1.2: 2023-12-20
  Changes: Data collection, Database references, Derived calculations, Other, Refinement description