0000000001034352

AUTHOR

Yasar Akdogan

showing 2 related works from this author

Heme Binding Constricts the Conformational Dynamics of the Cytochrome b559′ Heme Binding Cavity

2012

Cytochrome b(559)' is a transmembrane protein formed by homodimerization of the 44-residue PsbF polypeptide and noncovalent binding of a heme cofactor. The PsbF polypeptide can dimerize in the absence and presence of heme. To monitor structural alterations associated with binding of heme to the apo-cytochrome, we analyzed the apo- and holo-cytochrome structure by electron paramagnetic resonance spectroscopy. Spin labeling of amino acids located close to the heme binding domain of the cytochrome revealed that the structure of the heme binding domain is unconstrained in the absence of heme. Heme binding restricts the conformational dynamics of the heme binding domain, resulting in the structu…

Models MolecularHemeproteinCytochromeHeme bindingMolecular Sequence DataHemePlasma protein bindingBiochemistryProtein Structure SecondaryCofactorchemistry.chemical_compoundApoenzymesAmino Acid SequenceGlycophorinsHemebiologyCytochrome bCell MembraneElectron Spin Resonance SpectroscopyTemperaturePhotosystem II Protein ComplexSite-directed spin labelingCytochrome b GroupProtein Structure Tertiarychemistrybiology.proteinBiophysicsSpin LabelsPeptidesProtein BindingBiochemistry
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Evidence for Water-Tuned Structural Differences in Proteins: An Approach Emphasizing Variations in Local Hydrophilicity

2012

We present experimental evidence for the significant effect that water can have on the functional structure of proteins in solution. Human (HSA) and Bovine Serum Albumin (BSA) have an amino acid sequence identity of 75.52% and are chosen as model proteins. We employ EPR-based nanoscale distance measurements using double electron-electron resonance (DEER) spectroscopy and both albumins loaded with long chain fatty acids (FAs) in solution to globally (yet indirectly) characterize the tertiary protein structures from the bound ligands' points of view. The complete primary structures and crystal structures of HSA and as of recently also BSA are available. We complement the picture as we have re…

Models MolecularProtein StructureMedical PhysicsNon-Clinical MedicineProtein ConformationMaterials ScienceBiophysicsMolecular Conformationlcsh:MedicineElectronsLigandsBiochemistryPhysical ChemistryAnalytical ChemistryMacromolecular Structure AnalysisAnimalsHumanslcsh:ScienceBiologySerum AlbuminQuantum MechanicsPhysicslcsh:RFatty AcidsElectron Spin Resonance SpectroscopyProteinsComputational BiologyWaterSerum Albumin BovineProtein Structure Tertiarybody regionsChemistrySpectrophotometryInterdisciplinary PhysicsMedicinelcsh:QMaterials CharacterizationCattleMedicinal ChemistryHydrophobic and Hydrophilic InteractionsResearch ArticleProtein BindingPLoS ONE
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