Faculty & Research
A lecture on the Evolution of Cancer and problems in
Chemotherapy: “Down in the Trenches - Gene Families and their Effects on
A lecture on Intelligent Design for “The Scientific Method –
Critical and Creative Thinking” at the Department of Physics at SMU
Multiple Drug Resistance Proteins
Rotary Motors from Biology and ATP Synthase Research
Combinatorial Biology and the Evolution of DNA Binding Proteins
Toxins and Toxic Genes for Selection Systems and Therapies
In silico Simulation and Modeling of Protein and Small Molecule Structures
Modern computational methods give novel insight into the structure and function of proteins and enzymes. Two examples of visual output from these computational methods are given below.
Left Panel: A short model peptide modified at a cysteine residue with a stable free radical nitroxide probe. Protein modifications such as this one allow the determination of the details of a protein's structure and function.
Right Panel: Another modeled free radical spin probe. The peptide backbone is shown as a purple line. The residue is shown in colors coded for each atom type (Dark Blue= nitrogen, Light Blue= carbon, Red= oxygen, White= Hydrogen, Yellow= sulfur).
Left Panel: Model of a transcriptional control protein bound to its specific DNA binding sequence. Protein DNA interactions like this are the common starting point for the control of gene expression. This structure of the 434 Cro protein complexed with a 20 base pair piece of DNA containing its Operator OR1 was determined by A.Mondragon & S.C.Harrison (protein data bank accession code 3cro). The secondary structure of the protein is shown schematically in gray; the DNA double strands are shown in colors coded for each atom type (see left panel - Orange= phosphorous).
Right Panel: Model of a multidrug resistance pump from humans showing a steric conflict between a substrate and a drug. These proteins are important in cancer and viral chemotherapies. The purple rods and yellow ribbons show the enzyme and the drug and substrate molecules are shown with van der Waal's spheres.
Hornung, T., Volkov, O., Zaida, T.M.A., Delannoy, S., Wise, J., and Vogel, P.D. “Structure of the Cytosolic Part of the Subunit b-Dimer of Escherichia coli FoF1-ATP Synthase” (2008) Biophys. J. 94, 5053-5064
Wise, J.G. and Vogel, P.D. “Subunit b dimer of the Escherichia coli ATP synthase can form left-handed coiled coils” (2008) Biophysical J. 94, 5040-5052
Hossann, M., Li, Z., Shi, Y., Kreilinger, U., Blattner, J., Vogel, P.D., Yuan, J.M., Wise, J.G., Trommer, W.E. (2006) “Novel Immunotoxin: A Fusion Protein Consisting of Gelonin and an Acetylcholine Receptor Fragment as a Potential Immunotherapeutic Agent for the Treatment of Myasthenia Gravis”, Protein Expression and Purification 46, 73-84.
Motz C, Hornung T, Kersten M, McLachlin DT, Dunn SD, Wise JG, Vogel PD (2004) “The subunit b dimer of the FoF1-ATP synthase: Interaction with F1-ATPase as deduced by site-specific spin-labeling”, J. Biol. Chem. 279, 49074-81.
Guo, C., Li, Z., Shi, Y., Xu, M., Wise, J.G., Trommer, W.E., Yuan, J. (2004) “Intein-mediated fusion expression, high efficiency refolding and one-step purification of gelonin toxin”, Protein Expression and Purification 37, 361-367.
Fromknecht, K., Vogel, P. and Wise, J.G. (2003) “Combinatorial Redesign of the DNA Binding Specificity of a Procaryotic Helix-Turn-Helix Repressor”, J. Bacteriology 185, 475-81
Guhr, P., Neuhofen, S., Coan, C., Wise, J.G., and Vogel, P.D., (2002) “New Aspects on the Mechanism of GroEL-Assisted Protein Folding”, Biochim. Biophys. Acta 1596, 326-335
Chelius, D., Loeb-Hennard, C., Fleischer, S., McIntyre, J.O., Marks, A.R., De, S., Hahn, S., Jehl, M.M., Moeller, J., Philipp, R., Wise, J.G. & Trommer, W.E. (2000) “Phosphatidylcholine activation of human heart (R)-3-hydroxybutyrate dehydrogenase mutants lacking active center sulfhydryls: Site-directed mutagenesis of a new recombinant fusion protein”, Biochemistry 39, 9687-9697.
Kersten, M.V., Dunn, S.D., Wise, J.G., and Vogel, P.D. “Site-Directed Spin-Labeling of the Catalytic Sites Yields Insight into the Structure of the Fo F1-ATP Synthase of Escherichia coli”, (2000) Biochemistry 39, 3856-3860.
Vogel, P.D. and Wise J.G. “Studienbrief Technik in der Medizin: Gentechnische Arbeitsmethoden”, (1999) Zentrum für Fernstudien & Universitäre Weiterbildung, Universität Kaiserslautern
Loesel, R.M., Wise, J.G. and Vogel, P.D. (1997) “Asymmetry in Catalytic Sites but not in Noncatalytic Sites in the Escherichia coli F1-ATPase”, Biochemistry 36, 1188-1193
Schanding, T., Vogel, P.D., Trommer, W.E. and Wise, J.G. (1996) “Synthesis of a pH-Sensitive Spin-Labeled Cyclohexylcarbodiimide Derivative for Probing Protonation Reactions in Proton-Pumping Enzymes”, Tetrahedron 52, 5783-5792
Articles on Evolution and the Value of Science written or co-authored by me
From the Dallas MORNING NEWS:
"Speaking out against intelligent design" April 5, 2007
From the SMU DAILY CAMPUS newspaper:
"ID claims don't hold up" April 26, 2007
"Letter to the Editor - A Response to Levy and Smith" April 12, 2007
"Intelligent design isn't intelligent" February 11, 2005
Courses I Presently Teach at SMU