Katherine M. Hoffmann, Ph.D.

About

Dr. Hoffmann accepted a position as the John Stauffer Professor of Analytical Chemistry in 2015, moving to CLU from Gonzaga University in Washington State. She teaches General Chemistry, Quantitative Analysis and Instrumental Analysis, sometimes Capstone and the occasional upper division course such as Chemical Investigations of Art or Drugs & Poisons. Dr. Hoffmann has an undergraduate degree in Chemistry from Mount Holyoke College in Massachusetts, and got her doctorate in Biochemistry from Oregon Health and Sciences University in Oregon. The Hoffmann Lab's research reflects the biochemistry training and is focused on the structural and functional characteristics of a family of bacterial proteins that could be an excellent antibiotic drug target. 

Dr. Hoffmann is a water person in her spare time; she enjoys surfing, outrigger canoeing, stand-up paddleboarding, and boating whenever she isn't grading or chasing her young daughter. 

Education

Mount Holyoke College, South Hadley, MA

B.A. in Chemistry with a minor in Environmental Studies in 1999

research: organometallic synthesis with Janice G. Smith

Oregon Health and Sciences University, Portland, OR

Ph.D. in Biochemistry and Molecular Biology in 2007

research: Structure and Function of Transcriptional Regulators of Multidrug Resistance in Bacteria

mentor: Richard G. Brennan

Expertise

The medical need: 

Drug resistance in virulent bacteria has grown so remarkably over the past several decades that the need for new antibiotic targets is now reaching a critical point. To asses the potential of one such target, the Hoffmann lab has identified a unique protein critical to bacterial virulence and is attempting to characterize fully the atomic structure, functional binding requirements, and relative speed of action. In the long term, the lab will design, create and test inhibitors for the proteins, which may eventually serve as starting points for a new family of antibiotics, expressly targeting pathogenic bacteria.

This is the protein target: 

Most bacteria acquire the critical resource of iron through the synthesis of small metal chelators called siderophores. Siderophores are exported from the cells, bind some iron, and import the iron-containing molecule back into the cell. Pathogenic bacteria in particular often synthesize siderophores using proteins called NIS synthetases, which may be one of several proteins in the sythetic pathway, but are always represented at least once. NIS synthetases are excellent antibiotic targets because no protein has ever been found with the same three dimensional fold, so the side effects of a drug designed for this rare shape would be minimal. The chemistry of NIS synthetases are also particularly interesting: the proteins create an amide bond between an amine and carboxylate, just like the peptide bond created by ribosomes, but no ribosome is involved. 

Our current work: 

In order to design a drug for these proteins, we must first know the intricacies of the shape, then design a chemical inhibitor (AKA drug) to fit that shape. The Hoffmann lab is currently pursuing x-ray crystallographic structures of our two NIS synthetase proteins both unbound to any substrates (apo), and bound to various permutations of substrates, analogs, and inhibitors. We are additionally collecting thermodynamic data on binding using isothermal titration calorimetry, and looking at using the changes in heat to also measure kinetic turnover. We have made good progress solving our first structures, and preliminary data with ITC has been very useful determining which substrates to add to the crystallization mix. Researchers in the Hoffmann lab have the opportunity to work on these projects using a combination of virtual model building, analytical thermodynamics and kinetics functional assays, biophysical techniques of X-ray crystallography, and biological techniques like site-directed mutagenesis. Researchers learn on-the-job, and grow in expertise in individual techniques as well as ability to independently direct their projects as they spend semesters and summers becoming experts. 

Publications

Katherine M. Hoffmann, Jocelyn D. Hernandez*, Eliana G. Goncuian*, Nathan L. March*, Chapter 4 – ITC-based Kinetics Assay for NIS Synthetases. Methods in Enzymology.  Edited by Timothy Wencewicz. Academic Press (2024) pp 75-87, DOI: 10.1016/bs.mie.2024.06.017

Hoffmann, K.M., Kingsbury, J.S., March, N.L.*, Jang, Y.*, Nguyen, J.H.*, Hutt, M.M.* (2022) Chemoenzymatic Synthesis of Select Intermediates and Natural Products of the Desferrioxamine E Siderophore Pathway. Molecules, 27, 6144. DOI:10.3390/molecules27196144

Katherine M. Hoffmann, Eliana S. Goncuian*, Kimya L. Karimi*, Caroline R. Amendola*, Yasi Mojab*, Kaitlin M. Wood*, Gregory A. Prussia*, Jay Nix, Margaret Yamamoto*, Kiera Lathan*, Iris W. Orion* (2020) Cofactor Complexes of DesD, a Model Enzyme in the Virulence-related NIS Synthetase Family. Biochemistry Sep 22;59(37):3427-3437. DOI: 10.1021/acs.biochem.9b00899

Katherine M. Hoffmann, H. Rachael Million-Perez*, Richard Merkhofer*, Hillary Nicholson* and Roger S. Rowlett (2015) The Allosteric Reversion of Haemophilus influenzae b-Carbonic Anhydrase via a Proline Shift. Biochemistry 54, 598-611. DOI: 10.1021/bi501116e

Katherine M. Hoffmann, Kaitlin M. Wood*, Alysha D. Labrum*, Dave K. Lee*, Ingmar M. Bolinger*, Mary E. Konis*, Adam G. Blount*, Jeffrey M. Watson, Monica M. Schroll*, and Gregory A. Prussia* (2014) Surface Histidine Mutations for the Metal Affinity Purification of a b-Carbonic Anhydrase. Analytical Biochemistry, 458, 66-68. DOI. 10.1016/j.ab.2014.04.020

Katherine M. Hoffmann, Dejan Samardzic*, Kate van den Heever*, and Roger S. Rowlett (2011) Co(II)-substituted Haemophilus influenzae b-Carbonic Anhydrase: Spectral Evidence for Allosteric Regulation by pH and Bicarbonate Ion. Archives of Biochemistry and Biophysics, 511, (1-2) 80-7. DOI: 10.1016/j.abb.2011.04.013

Roger S. Rowlett, Katherine M. Hoffmann, Hannah Failing,* Margaret Mysliwiec,* Dejan Samardzic*, (2010) Evidence for a Bicarbonate “Escort Site” in Haemophilus influenzae b-Carbonic Anhydrase. Biochemistry, 49, 17 3640-7. DOI: 10.1021/bi100328j

Thomas Christian, Georges Lahoud, Cuiping Liu, Katherine M. Hoffmann, John J. Perona and Ya-Ming Hou (2010) Mechanism of N-methylation by the tRNA m1G37 methyltransferase Trm5. RNA. 16, 12 2484-92. DOI: 10.1128/rna.2376210

Katherine M. Hoffmann, Daniel Williams, William M. Shafer, and Richard G. Brennan. (2005) Characterization of the Multiple Transferable Resistance Repressor, MtrR, from Neisseria gonorrhoeae. J. Bacteriology, 187, 14 5008-5012. DOI: 10.1128

(*denotes undergraduate research authors on the publication)

Grant Funding

NATIONAL AWARDS

Grant:      NSF-RUI

Role:        Principal Investigator

Amount:  $230,841

Years:   2017-2022

Title:       RUI: Structural and Functional Substrate Binding in Iterative Non-ribosomal peptide synthesis Independent Synthesis (NIS) Enzyme DesD

INSTRUMENATION AWARDS

Hamilton Company Cation Exchange Column (2023) - $800

ACADEMIC AWARDS

FRCW fellowship (2016) - $5,000

Hewlett Award for Travel to Academic Conferences (2016, 2023, 2024) - $1,000