1EZJ | pdb_00001ezj

CRYSTAL STRUCTURE OF THE MULTIMERIZATION DOMAIN OF THE PHOSPHOPROTEIN FROM SENDAI VIRUS

• PDB DOI: https://doi.org/10.2210/pdb1EZJ/pdb

• Classification: Viral protein, transferase
• Organism(s): Sendai virus (strain Harris)
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2000-05-11 Released: 2000-09-20 
• Deposition Author(s): Tarbouriech, N., Curran, J., Ruigrok, R.W.H., Burmeister, W.P.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 
  0.293 (Depositor), 0.298 (DCC) 
• R-Value Work: 
  0.249 (Depositor), 0.253 (DCC) 
• R-Value Observed: 
  0.255 (Depositor) 

Literature

Tetrameric coiled coil domain of Sendai virus phosphoprotein.

Tarbouriech, N., Curran, J., Ruigrok, R.W., Burmeister, W.P.

(2000) Nat Struct Biol 7: 777-781

• PubMed: 10966649 
• DOI: https://doi.org/10.1038/79013
• Primary Citation Related Structures: 
  1EZJ


• PubMed Abstract: 
  

  The high resolution X-ray structure of the Sendai virus oligomerization domain reveals a homotetrameric coiled coil structure with many details that are different from classic coiled coils with canonical hydrophobic heptad repeats. Alternatives to the classic knobs-into-holes packing lead to differences in supercoil pitch and diameter that allow water molecules inside the core. This open and more hydrophilic structure does not seem to be destabilized by mutations that would be expected to disrupt classic coiled coils.

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Organizational Affiliation: 
• European Synchrotron Radiation Facility, Grenoble cedex, France.

Biological Assembly 1  

Global Symmetry: Cyclic - C4  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

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

Macromolecule Content 

• Total Structure Weight: 13.39 kDa 
• Atom Count: 1,064 
• Modeled Residue Count: 114 
• Deposited Residue Count: 115 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
NUCLEOCAPSID PHOSPHOPROTEIN	A	115	Sendai virus (strain Harris)	Mutation(s): 0  EC: 2.7.7.48
UniProt
Find proteins for P04859 (Sendai virus (strain Harris)) Explore P04859  Go to UniProtKB:  P04859

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EMC	B [auth A]	ETHYL MERCURY ION C2 H5 Hg MJOUBOKSWBMNGQ-UHFFFAOYSA-N
CA	C [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free:  0.293 (Depositor), 0.298 (DCC) 
• R-Value Work:  0.249 (Depositor), 0.253 (DCC) 
• R-Value Observed: 0.255 (Depositor) 

Space Group: P 4 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 48.584	α = 90
b = 48.584	β = 90
c = 100.847	γ = 90

Software Package:

Software Name	Purpose
SHARP	phasing
CNS	refinement
DENZO	data reduction
CCP4	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2000-09-20 
Deposition Author(s): Tarbouriech, N., Curran, J., Ruigrok, R.W.H., Burmeister, W.P.

Revision History  

• Version 1.0: 2000-09-20
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Derived calculations, Version format compliance
• Version 1.3: 2011-11-16
  Changes: Atomic model
• Version 1.4: 2024-02-07
  Changes: Data collection, Database references, Derived calculations