5C0Z

The structure of oxidized rat cytochrome c at 1.13 angstroms resolution


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.12 Å
  • R-Value Free: 0.159 
  • R-Value Work: 0.132 
  • R-Value Observed: 0.133 

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This is version 1.3 of the entry. See complete history


Literature

Serine-47 phosphorylation of cytochromecin the mammalian brain regulates cytochromecoxidase and caspase-3 activity.

Kalpage, H.A.Vaishnav, A.Liu, J.Varughese, A.Wan, J.Turner, A.A.Ji, Q.Zurek, M.P.Kapralov, A.A.Kagan, V.E.Brunzelle, J.S.Recanati, M.A.Grossman, L.I.Sanderson, T.H.Lee, I.Salomon, A.R.Edwards, B.F.P.Huttemann, M.

(2019) FASEB J : fj201901120R-fj201901120R

  • DOI: 10.1096/fj.201901120R
  • Primary Citation of Related Structures:  
    5C0Z, 6N1O

  • PubMed Abstract: 
  • Cytochrome c (Cyt c ) is a multifunctional protein that operates as an electron carrier in the mitochondrial electron transport chain and plays a key role in apoptosis. We have previously shown that tissue-specific phosphorylations of Cyt c in the heart, liver, and kidney play an important role in the regulation of cellular respiration and cell death ...

    Cytochrome c (Cyt c ) is a multifunctional protein that operates as an electron carrier in the mitochondrial electron transport chain and plays a key role in apoptosis. We have previously shown that tissue-specific phosphorylations of Cyt c in the heart, liver, and kidney play an important role in the regulation of cellular respiration and cell death. Here, we report that Cyt c purified from mammalian brain is phosphorylated on S47 and that this phosphorylation is lost during ischemia. We have characterized the functional effects in vitro using phosphorylated Cyt c purified from pig brain tissue and a recombinant phosphomimetic mutant (S47E). We crystallized S47E phosphomimetic Cyt c at 1.55 Å and suggest that it spatially matches S47-phosphorylated Cyt c , making it a good model system. Both S47-phosphorylated and phosphomimetic Cyt c showed a lower oxygen consumption rate in reaction with isolated Cyt c oxidase, which we propose maintains intermediate mitochondrial membrane potentials under physiologic conditions, thus minimizing production of reactive oxygen species. S47-phosphorylated and phosphomimetic Cyt c showed lower caspase-3 activity. Furthermore, phosphomimetic Cyt c had decreased cardiolipin peroxidase activity and is more stable in the presence of H 2 O 2 . Our data suggest that S47 phosphorylation of Cyt c is tissue protective and promotes cell survival in the brain.-Kalpage, H. A., Vaishnav, A., Liu, J., Varughese, A., Wan, J., Turner, A. A., Ji, Q., Zurek, M. P., Kapralov, A. A., Kagan, V. E., Brunzelle, J. S., Recanati, M.-A., Grossman, L. I., Sanderson, T. H., Lee, I., Salomon, A. R., Edwards, B. F. P, Hüttemann, M. Serine-47 phosphorylation of cytochrome c in the mammalian brain regulates cytochrome c oxidase and caspase-3 activity.


    Related Citations: 
    • Phosphomimetic substitution of cytochrome C tyrosine 48 decreases respiration and binding to cardiolipin and abolishes ability to trigger downstream caspase activation.
      Pecina, P., Borisenko, G.G., Belikova, N.A., Tyurina, Y.Y., Pecinova, A., Lee, I., Samhan-Arias, A.K., Przyklenk, K., Kagan, V.E., Huttemann, M.
      (2010) Biochemistry 49: 6705

    Organizational Affiliation

    Cardiovascular Research Institute, Wayne State University School of Medicine, Detroit, Michigan, USA.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Cytochrome c, somaticA, B, C, D105Rattus norvegicusMutation(s): 0 
Gene Names: Cycs
UniProt
Find proteins for P62898 (Rattus norvegicus)
Explore P62898 
Go to UniProtKB:  P62898
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.12 Å
  • R-Value Free: 0.159 
  • R-Value Work: 0.132 
  • R-Value Observed: 0.133 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 34.401α = 110.04
b = 52.471β = 92.77
c = 61.647γ = 92.02
Software Package:
Software NamePurpose
REFMACrefinement
PHENIXrefinement
Aimlessdata scaling
PHENIXphasing

Structure Validation

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Ligand Structure Quality Assessment  



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesNIGMS RO1 089900

Revision History  (Full details and data files)

  • Version 1.0: 2016-09-21
    Type: Initial release
  • Version 1.1: 2017-09-06
    Changes: Author supporting evidence, Derived calculations
  • Version 1.2: 2019-10-23
    Changes: Data collection, Database references, Derived calculations
  • Version 1.3: 2019-12-25
    Changes: Author supporting evidence