4YS9

Ataxin-3 Carboxy-Terminal Region - Crystal C1 (tetragonal)

  • Classification: TRANSCRIPTION
  • Organism(s): Escherichia coli, Homo sapiens
  • Expression System: Escherichia coli BL21(DE3)
  • Mutation(s): No 

  • Deposited: 2015-03-16 Released: 2016-03-09 
  • Deposition Author(s): Zhemkov, V.A., Kim, M.
  • Funding Organization(s): National Institutes of Health/National Institute of Neurological Disorders and Stroke (NIH/NINDS), Russian Ministry of Science, Russian Scientific Fund, Russian Ministry of Education and Science, National Ataxia Foundation

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.223 
  • R-Value Work: 0.207 
  • R-Value Observed: 0.208 

wwPDB Validation 3D Report Full Report



Literature

The 2.2-Angstrom resolution crystal structure of the carboxy-terminal region of ataxin-3.

Zhemkov, V.A.Kulminskaya, A.A.Bezprozvanny, I.B.Kim, M.

(2016) FEBS Open Bio 6: 168-178

  • DOI: 10.1002/2211-5463.12029
  • Primary Citation of Related Structures:  
    4YS9, 4WTH

  • PubMed Abstract: 
  • An expansion of polyglutamine (polyQ) sequence in ataxin-3 protein causes spinocerebellar ataxia type 3, an inherited neurodegenerative disorder. The crystal structure of the polyQ-containing carboxy-terminal fragment of human ataxin-3 was solved at ...

    An expansion of polyglutamine (polyQ) sequence in ataxin-3 protein causes spinocerebellar ataxia type 3, an inherited neurodegenerative disorder. The crystal structure of the polyQ-containing carboxy-terminal fragment of human ataxin-3 was solved at 2.2-Å resolution. The Atxn3 carboxy-terminal fragment including 14 glutamine residues adopts both random coil and α-helical conformations in the crystal structure. The polyQ sequence in α-helical structure is stabilized by intrahelical hydrogen bonds mediated by glutamine side chains. The intrahelical hydrogen-bond interactions between glutamine side chains along the axis of the polyQ α-helix stabilize the secondary structure. Analysis of this structure furthers our understanding of the polyQ-structural characteristics that likely underlie the pathogenesis of polyQ-expansion disorders.


    Organizational Affiliation

    Laboratory of Molecular Neurodegeneration St Petersburg State Polytechnical University Russia; Department of Physiology University of Texas Southwestern Medical Center Dallas TX USA.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Maltose-binding periplasmic protein, Ataxin-3 chimeraB441Escherichia coliHomo sapiensMutation(s): 0 
Gene Names: malEZ5632ECs5017
EC: 3.4.19.12
Find proteins for P54252 (Homo sapiens)
Explore P54252 
Go to UniProtKB:  P54252
NIH Common Fund Data Resources
PHAROS  P54252
Find proteins for P0AEY0 (Escherichia coli O157:H7)
Explore P0AEY0 
Go to UniProtKB:  P0AEY0
Protein Feature View
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  • Reference Sequence
Oligosaccharides

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Entity ID: 2
MoleculeChainsChain Length2D Diagram Glycosylation3D Interactions
alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose
A
2 N/A Oligosaccharides Interaction
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download CCD File 
B
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
Biologically Interesting Molecules (External Reference) 1 Unique
Entity ID: 2
IDChainsNameType/Class2D Diagram3D Interactions
PRD_900001
Query on PRD_900001
Aalpha-maltoseOligosaccharide /  Nutrient

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Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.223 
  • R-Value Work: 0.207 
  • R-Value Observed: 0.208 
  • Space Group: P 41
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 59.67α = 90
b = 59.67β = 90
c = 135.165γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
HKL-2000data collection
HKL-2000data scaling
Cootmodel building
PHASERphasing
HKL-2000data reduction
SCALEPACKdata scaling

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data

  • Deposited Date: 2015-03-16 
  • Released Date: 2016-03-09 
  • Deposition Author(s): Zhemkov, V.A., Kim, M.

Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of Neurological Disorders and Stroke (NIH/NINDS)United StatesR01NS074376
National Institutes of Health/National Institute of Neurological Disorders and Stroke (NIH/NINDS)United StatesR01NS056224
Russian Ministry of ScienceRussian Federation11.G34.31.0056
Russian Scientific FundRussian Federation14-25-00024
Russian Ministry of Education and ScienceRussian Federation17.1360.2014/K
National Ataxia FoundationUnited StatesTranslational Award

Revision History 

  • Version 1.0: 2016-03-09
    Type: Initial release
  • Version 1.1: 2016-03-16
    Changes: Database references
  • Version 1.2: 2017-09-06
    Changes: Author supporting evidence, Derived calculations
  • Version 1.3: 2017-11-22
    Changes: Refinement description
  • Version 1.4: 2018-04-18
    Changes: Data collection, Database references
  • Version 1.5: 2019-12-18
    Changes: Author supporting evidence
  • Version 2.0: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Atomic model, Data collection, Derived calculations, Non-polymer description, Structure summary