Publications (co-)authored by students in the Biophysics program

2018

[1] 

Grace L Cooper, Carol J Huseby, Claire N Chandler, Jean-Christophe Cocuron, Ana P Alonso, and Jeff Kuret
"A liquid chromatography tandem mass spectroscopy approach for quantification of protein methylation stoichiometry."
Anal. Biochem. 545, 72-77 (2018).

[2] 

Pearson T Maugeri, Julia J Griese, Rui M Branca, Effie K Miller, Zachary R Smith, Jürgen Eirich, Martin Högbom, and Hannah S Shafaat
"Driving Protein Conformational Changes with Light: Photoinduced Structural Rearrangement in a Heterobimetallic Oxidase."
J. Am. Chem. Soc. 140, 1471-1480 (2018).

 

2017

[1] 

Nathaniel A Wesley, Christine Wachnowsky, Insiya Fidai, and J A Cowan
"Understanding the molecular basis for multiple mitochondrial dysfunctions syndrome 1 MMDS1: impact of a disease-causing Gly189Arg substitution on NFU1."
FEBS J. 284, 3838-3848 (2017).

[2] 

Nathaniel A Wesley, Christine Wachnowsky, Insiya Fidai, and J A Cowan
"Analysis of NFU-1 metallocofactor binding-site substitutions-impacts on iron-sulfur cluster coordination and protein structure and function."
FEBS J. 284, 3817-3837 (2017).

[3] 

Meng Zhang, Lijuan Wang, and Dongping Zhong
"Photolyase: Dynamics and electron-transfer mechanisms of DNA repair."
Arch. Biochem. Biophys. 632, 158-174 (2017).

[4] 

Martin James Ross, Insiya Fidai, and James A Cowan
"Analysis of Structure-Activity Relationships Based on the Hepatitis C Virus SLIIb Internal Ribosomal Entry Sequence RNA-Targeting GGHYRFK⋅Cu Complex."
Chembiochem 18, 1743-1754 (2017).

[5] 

Maximillian S Westphal, Sara N Lim, Sultana N Nahar, Enam Chowdhury, and Anil K Pradhan
"Broadband, monochromatic and quasi-monochromatic x-ray propagation in multi-Z media for imaging and diagnostics."
Phys Med Biol 62, 6361-6378 (2017).

[6] 

Bobo Shi, Yun Kyung Shin, Ali A Hassanali, and Sherwin J Singer
"Biomolecules at the amorphous silica/water interface: Binding and fluorescence anisotropy of peptides."
Colloids Surf B Biointerfaces 157, 83-92 (2017).

[7] 

Elihu C Ihms, Ian R Kleckner, Paul Gollnick, and Mark P Foster
"Mechanistic Models Fit to Variable Temperature Calorimetric Data Provide Insights into Cooperativity."
Biophys. J. 112, 1328-1338 (2017).

[8] 

Jeffrey W Slater, Sean C Marguet, Sabrina L Cirino, Pearson T Maugeri, and Hannah S Shafaat
"Experimental and DFT Investigations Reveal the Influence of the Outer Coordination Sphere on the Vibrational Spectra of Nickel-Substituted Rubredoxin, a Model Hydrogenase Enzyme."
Inorg Chem 56, 3926-3938 (2017).

[9] 

Christine Wachnowsky, Nathaniel A Wesley, Insiya Fidai, and J A Cowan
"Understanding the Molecular Basis of Multiple Mitochondrial Dysfunctions Syndrome 1 MMDS1-Impact of a Disease-Causing Gly208Cys Substitution on Structure and Activity of NFU1 in the Fe/S Cluster Biosynthetic Pathway."
J. Mol. Biol. 429, 790-807 (2017).

[10] 

E John Tokarsky, Petra C Wallenmeyer, Kenneth K Phi, and Zucai Suo
"Significant impact of divalent metal ions on the fidelity, sugar selectivity, and drug incorporation efficiency of human PrimPol."
DNA Repair Amst. 49, 51-59 (2017).

[11] 

Meng Zhang, Lijuan Wang, and Dongping Zhong
"Photolyase: Dynamics and Mechanisms of Repair of Sun-Induced DNA Damage."
Photochem. Photobiol. 93, 78-92 (2017).

[12] 

Shane D Walton, Harshini Chakravarthy, Vikram Shettigar, Andrew J ONeil, Jalal K Siddiqui, Benjamin R Jones, Svetlana B Tikunova, and Jonathan P Davis
"Divergent Soybean Calmodulins Respond Similarly to Calcium Transients: Insight into Differential Target Regulation."
Front Plant Sci 8, 208 (2017).

 

2016

[1] 

Insiya Fidai, Christine Wachnowsky, and J A Cowan
"Mapping cellular Fe-S cluster uptake and exchange reactions - divergent pathways for iron-sulfur cluster delivery to human ferredoxins."
Metallomics 8, 1283-1293 (2016).

[2] 

Christine Wachnowsky, Insiya Fidai, and James A Cowan
"Cytosolic iron-sulfur cluster transfer-a proposed kinetic pathway for reconstitution of glutaredoxin 3."
FEBS Lett. 590, 4531-4540 (2016).

[3] 

Amritraj Patra, Dustin A Politica, Arindom Chatterjee, E John Tokarsky, Zucai Suo, Ashis K Basu, Michael P Stone, and Martin Egli
"Mechanism of Error-Free Bypass of the Environmental Carcinogen N-2-Deoxyguanosin-8-yl-3-aminobenzanthrone Adduct by Human DNA Polymerase η."
Chembiochem 17, 2033-2037 (2016).

[4] 

Meng Zhang, Lijuan Wang, Shi Shu, Aziz Sancar, and Dongping Zhong
"Bifurcating electron-transfer pathways in DNA photolyases determine the repair quantum yield."
Science 354, 209-213 (2016).

[5] 

Insiya Fidai, Christine Wachnowsky, and J A Cowan
"Glutathione-complexed 2Fe-2S clusters function in Fe-S cluster storage and trafficking."
J. Biol. Inorg. Chem. 21, 887-901 (2016).

[6] 

Christine Wachnowsky, Insiya Fidai, and J A Cowan
"Iron-sulfur cluster exchange reactions mediated by the human Nfu protein."
J. Biol. Inorg. Chem. 21, 825-36 (2016).

[7] 

E John Tokarsky, Varun V Gadkari, Walter J Zahurancik, Chanchal K Malik, Ashis K Basu, and Zucai Suo
"Pre-steady-state kinetic investigation of bypass of a bulky guanine lesion by human Y-family DNA polymerases."
DNA Repair Amst. 46, 20-28 (2016).

[8] 

Joshua P Ferguson, Nathan M Willy, Spencer P Heidotting, Scott D Huber, Matthew J Webber, and Comert Kural
"Deciphering dynamics of clathrin-mediated endocytosis in a living organism."
J. Cell Biol. 214, 347-58 (2016).

[9] 

Jenny V Le, Yi Luo, Michael A Darcy, Christopher R Lucas, Michelle F Goodwin, Michael G Poirier, and Carlos E Castro
"Probing Nucleosome Stability with a DNA Origami Nanocaliper."
ACS Nano 10, 7073-84 (2016).

[10] 

Jonathan P Davis, Vikram Shettigar, Svetlana B Tikunova, Sean C Little, Bin Liu, Jalal K Siddiqui, Paul M L Janssen, Mark T Ziolo, and Shane D Walton
"Designing proteins to combat disease: Cardiac troponin C as an example."
Arch. Biochem. Biophys. 601, 4-10 (2016).

[11] 

Jeffrey R Tonniges, Benjamin Albert, Edward P Calomeni, Shuvro Roy, Joan Lee, Xiaokui Mo, Susan E Cole, and Gunjan Agarwal
"Collagen Fibril Ultrastructure in Mice Lacking Discoidin Domain Receptor 1."
Microsc. Microanal. 22, 599-611 (2016).

[12] 

Michelle L Asp, Frances V Sjaastad, Jalal K Siddiqui, Jonathan P Davis, and Joseph M Metzger
"Effects of Modified Parvalbumin EF-Hand Motifs on Cardiac Myocyte Contractile Function."
Biophys. J. 110, 2094-105 (2016).

[13] 

Bobo Shi, Mithila V Agnihotri, Si-Han Chen, Richie Black, and Sherwin J Singer
"Polarization charge: Theory and applications to aqueous interfaces."
J Chem Phys 144, 164702 (2016).

[14] 

Carol J Huseby and Jeff Kuret
"Analyzing Tau Aggregation with Electron Microscopy."
Methods Mol. Biol. 1345, 101-12 (2016).

[15] 

Patrick D Halley, Christopher R Lucas, Emily M McWilliams, Matthew J Webber, Randy A Patton, Comert Kural, David M Lucas, John C Byrd, and Carlos E Castro
"DNA Origami: Daunorubicin-Loaded DNA Origami Nanostructures Circumvent Drug-Resistance Mechanisms in a Leukemia Model Small 3/2016."
Small 12, 307 (2016).

[16] 

Patrick D Halley, Christopher R Lucas, Emily M McWilliams, Matthew J Webber, Randy A Patton, Comert Kural, David M Lucas, John C Byrd, and Carlos E Castro
"Daunorubicin-Loaded DNA Origami Nanostructures Circumvent Drug-Resistance Mechanisms in a Leukemia Model."
Small 12, 308-20 (2016).

[17] 

Nathan D Jones, Miguel A Lopez, Jeungphill Hanne, Mitchell B Peake, Jong-Bong Lee, Richard Fishel, and Kristine E Yoder
"Retroviral intasomes search for a target DNA by 1D diffusion which rarely results in integration."
Nat Commun 7, 11409 (2016).

[18] 

Kruthika Sundaram, Mohd Akhlakur Rahman, Srabani Mitra, Daren L Knoell, Shireen A Woodiga, Samantha J King, and Mark D Wewers
"IκBζ Regulates Human Monocyte Pro-Inflammatory Responses Induced by Streptococcus pneumoniae."
PLoS ONE 11, e0161931 (2016).

[19] 

M D Gibson, M Brehove, Y Luo, J North, and M G Poirier
"Methods for Investigating DNA Accessibility with Single Nucleosomes."
Meth. Enzymol. 581, 379-415 (2016).

[20] 

Hussam E Salhi, Nathan C Hassel, Jalal K Siddiqui, Elizabeth A Brundage, Mark T Ziolo, Paul M L Janssen, Jonathan P Davis, and Brandon J Biesiadecki
"Myofilament Calcium Sensitivity: Mechanistic Insight into TnI Ser-23/24 and Ser-150 Phosphorylation Integration."
Front Physiol 7, 567 (2016).

[21] 

Jalal K Siddiqui, Svetlana B Tikunova, Shane D Walton, Bin Liu, Meredith Meyer, Pieter P de Tombe, Nathan Neilson, Peter M Kekenes-Huskey, Hussam E Salhi, Paul M L Janssen, Brandon J Biesiadecki, and Jonathan P Davis
"Myofilament Calcium Sensitivity: Consequences of the Effective Concentration of Troponin I."
Front Physiol 7, 632 (2016).

 

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