3ECW

Crystal structure of the ALS-related pathological mutant T54R of human apo Cu,Zn Superoxide Dismutase (SOD1)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.15 Å
  • R-Value Free: 0.297 
  • R-Value Work: 0.200 
  • R-Value Observed: 0.209 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Structural and dynamic aspects related to oligomerization of apo SOD1 and its mutants.

Banci, L.Bertini, I.Boca, M.Calderone, V.Cantini, F.Girotto, S.Vieru, M.

(2009) Proc Natl Acad Sci U S A 106: 6980-6985

  • DOI: 10.1073/pnas.0809845106
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • The structural and dynamical properties of the metal-free form of WT human superoxide dismutase 1 (SOD1) and its familial amyotrophic lateral sclerosis (fALS)-related mutants, T54R and I113T, were characterized both in solution, through NMR, and in t ...

    The structural and dynamical properties of the metal-free form of WT human superoxide dismutase 1 (SOD1) and its familial amyotrophic lateral sclerosis (fALS)-related mutants, T54R and I113T, were characterized both in solution, through NMR, and in the crystal, through X-ray diffraction. We found that all 3 X-ray structures show significant structural disorder in 2 loop regions that are, at variance, well defined in the fully-metalated structures. Interestingly, the apo state crystallizes only at low temperatures, whereas all 3 proteins in the metalated form crystallize at any temperature, suggesting that crystallization selects one of the most stable conformations among the manifold adopted by the apo form in solution. Indeed, NMR experiments show that the protein in solution is highly disordered, sampling a large range of conformations. The large conformational variability of the apo state allows the free reduced cysteine Cys-6 to become highly solvent accessible in solution, whereas it is essentially buried in the metalated state and the crystal structures. Such solvent accessibility, together with that of Cys-111, accounts for the tendency to oligomerization of the metal-free state. The present results suggest that the investigation of the solution state coupled with that of the crystal state can provide major insights into SOD1 pathway toward oligomerization in relation to fALS.


    Related Citations: 
    • Metal-free superoxide dismutase forms soluble oligomers under physiological conditions: a possible general mechanism for familial ALS.
      Banci, L., Bertini, I., Durazo, A., Girotto, S., Gralla, E.B., Martinelli, M., Valentine, J.S., Vieru, M., Whitelegge, J.P.
      (2007) Proc Natl Acad Sci U S A 104: 11263
    • SOD1 and amyotrophic lateral sclerosis: mutations and oligomerization.
      Banci, L., Bertini, I., Boca, M., Girotto, S., Martinelli, M., Valentine, J.S., Vieru, M.
      (2008) PLoS One 3: 1677

    Organizational Affiliation

    Magnetic Resonance Center and Department of Chemistry, FiorGen Foundation, University of Florence, Via Luigi Sacconi 6, 50019 Sesto Fiorentino, Italy.



Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Superoxide dismutase [Cu-Zn]A, B, C, D153Homo sapiensMutation(s): 1 
Gene Names: SOD1
EC: 1.15.1.1
Find proteins for P00441 (Homo sapiens)
Explore P00441 
Go to UniProtKB:  P00441
NIH Common Fund Data Resources
PHAROS  P00441
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.15 Å
  • R-Value Free: 0.297 
  • R-Value Work: 0.200 
  • R-Value Observed: 0.209 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 156.94α = 90
b = 34.033β = 112.14
c = 114.585γ = 90
Software Package:
Software NamePurpose
MAR345dtbdata collection
MOLREPphasing
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

  • Deposited Date: 2008-09-02 
  • Released Date: 2009-05-19 
  • Deposition Author(s): Calderone, V.

Revision History 

  • Version 1.0: 2009-05-19
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance