John Cavanagh

Milton, M. E., Draughn, G. L., Bobay, B. G., Stowe, S. D., Olson, A. L., Feldmann, E. A., … Cavanagh, J. (2020). The Solution Structures and Interaction of SinR and SinI: Elucidating the Mechanism of Action of the Master Regulator Switch for Biofilm Formation in Bacillus subtilis. JOURNAL OF MOLECULAR BIOLOGY, 432(2), 343–357. https://doi.org/10.1016/j.jmb.2019.08.019

Milton, M. E., Minrovic, B. M., Harris, D. L., Kang, B., Jung, D., Lewis, C. P., … Cavanagh, J. (2018). Re-sensitizing Multidrug Resistant Bacteria to Antibiotics by Targeting Bacterial Response Regulators: Characterization and Comparison of Interactions between 2-Aminoimidazoles and the Response Regulators BfmR from Acinetobacter baumannii and QseB from Francisella spp. FRONTIERS IN MOLECULAR BIOSCIENCES, 5. https://doi.org/10.3389/fmolb.2018.00015

Draughn, G. L., Milton, M. E., Feldmann, E. A., Bobay, B. G., Roth, B. M., Olson, A. L., … Cavanagh, J. (2018). The Structure of the Biofilm-controlling Response Regulator BfmR from Acinetobacter baumannii Reveals Details of Its DNA-binding Mechanism. Journal of Molecular Biology, 430(6), 806–821. https://doi.org/10.1016/J.JMB.2018.02.002

Draughn, G. L., Allen, C. L., Routh, P. A., Stone, M. R., Kirker, K. R., Boegli, A., … Cavanagh, J. (2017). Evaluation of a 2-aminoimidazole variant as adjuvant treatment for dermal bacterial infections. Drug Design Development and Therapy, 11, 153–162.

Stephens, M. D., Hubble, V. B., Ernst, R. K., Hoek, M. L., Melander, R. J., Cavanagh, J., & Melander, C. (2016). Potentiation of Francisella resistance to conventional antibiotics through small molecule adjuvants. MEDCHEMCOMM, 7(1), 128–131. https://doi.org/10.1039/c5md00353a

Wahome, P. G., Beauchesne, K. R., Pedone, A. C., Cavanagh, J., Melander, C., Zimba, P., & Moeller, P. D. R. (2015). Augmenting anti-cancer natural products with a small molecule adjuvant. Marine Drugs, 13(1), 65–75.

Stowe, S. D., Thompson, R. J., Peng, L., Su, Z., Blackledge, M. S., Draughn, G. L., … Cavanagh, J. (2015). Membrane-Permeabilizing Activity of Reverse-Amide 2-Aminoimidazole Antibiofilm Agents Against Acinetobacter baumannii. CURRENT DRUG DELIVERY, 12(2), 223–230. https://doi.org/10.2174/1567201811666140924125740

Feldmann, E. A., & Cavanagh, J. (2015, July 4). Teaching old drugs new tricks: Addressing resistance in Francisella. VIRULENCE, Vol. 6, pp. 414–416. https://doi.org/10.1080/21505594.2015.1053689

Tucker, A. T., Bobay, B. G., Banse, A. V., Olson, A. L., Soderblom, E. J., Moseley, M. A., … Cavanagh, J. (2014). A DNA Mimic: The Structure and Mechanism of Action for the Anti-Repressor Protein AbbA. JOURNAL OF MOLECULAR BIOLOGY, 426(9), 1911–1924. https://doi.org/10.1016/j.jmb.2014.02.010

Olson, A. L., Thompson, R. J., Melander, C., & Cavanagh, J. (2014). Chemical shift assignments and secondary structure prediction of the C-terminal domain of the response regulator BfmR from Acinetobacter baumannii. BIOMOLECULAR NMR ASSIGNMENTS, 8(1), 67–70. https://doi.org/10.1007/s12104-012-9454-2

Stowe, S. D., Olson, A. L., Losick, R., & Cavanagh, J. (2014). Chemical shift assignments and secondary structure prediction of the master biofilm regulator, SinR, from Bacillus subtilis. BIOMOLECULAR NMR ASSIGNMENTS, 8(1), 155–158. https://doi.org/10.1007/s12104-013-9473-7

Bobay, B. G., Thompson, R. J., Milton, D. L., & Cavanagh, J. (2014). Chemical shift assignments and secondary structure prediction of the phosphorelay protein VanU from Vibrio anguillarum. BIOMOLECULAR NMR ASSIGNMENTS, 8(1), 177–179. https://doi.org/10.1007/s12104-013-9478-2

Brackett, C. M., Melander, R. J., An, I. H., Krishnamurthy, A., Thompson, R. J., Cavanagh, J., & Melander, C. (2014). Small-Molecule Suppression of beta-Lactam Resistance in Multidrug-Resistant Gram-Negative Pathogens. JOURNAL OF MEDICINAL CHEMISTRY, 57(17), 7450–7458. https://doi.org/10.1021/jm501050e

Olson, A. L., Tucker, A. T., Bobay, B. G., Soderblom, E. J., Moseley, M. A., Thompson, R. J., & Cavanagh, J. (2014). Structure and DNA-Binding Traits of the Transition State Regulator AbrB. STRUCTURE, 22(11), 1650–1656. https://doi.org/10.1016/j.str.2014.08.018

Olson, A. L., Liu, F., Tucker, A. T., Goshe, M. B., & Cavanagh, J. (2013). Chemical crosslinking and LC/MS analysis to determine protein domain orientation: Application to AbrB. BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS, 431(2), 253–257. https://doi.org/10.1016/j.bbrc.2012.12.124

Stowe, S. D., Tucker, A. T., Thompson, R., Piper, A., Richards, J. J., Rogers, S. A., … Cavanagh, J. (2012). Evaluation of the toxicity of 2-aminoimidazole antibiofilm agents using both cellular and model organism systems. DRUG AND CHEMICAL TOXICOLOGY, 35(3), 310–315. https://doi.org/10.3109/01480545.2011.614620

Olson, A. L., Bobay, B. G., Melander, C., & Cavanagh, J. (2012). H-1, C-13, and N-15 resonance assignments and secondary structure prediction of the full-length transition state regulator AbrB from Bacillus anthracis. BIOMOLECULAR NMR ASSIGNMENTS, 6(1), 95–98. https://doi.org/10.1007/s12104-011-9333-2

Thompson, R. J., Bobay, B. G., Stowe, S. D., Olson, A. L., Peng, L., Su, Z., … Cavanagh, J. (2012). Identification of BfmR, a Response Regulator Involved in Biofilm Development, as a Target for a 2-Aminoimidazole-Based Antibiofilm Agent. BIOCHEMISTRY, 51(49), 9776–9778. https://doi.org/10.1021/bi3015289

Bobay, B. G., Stewart, A. L., Tucker, A. T., Thompson, R. J., Varney, K. M., & Cavanagh, J. (2012). Structural insights into the calcium-dependent interaction between calbindin-D28K and caspase-3. FEBS LETTERS, 586(20), 3582–3589. https://doi.org/10.1016/j.febslet.2012.08.032

Stowe, S. D., Richards, J. J., Tucker, A. T., Thompson, R., Melander, C., & Cavanagh, J. (2011). [Review of Anti-biofilm compounds derived from marine sponges]. Marine Drugs, 9(10), 2010–2035.

Bunders, C., Cavanagh, J., & Melander, C. (2011). Flustramine inspired synthesis and biological evaluation of pyrroloindoline triazole amides as novel inhibitors of bacterial biofilms. ORGANIC & BIOMOLECULAR CHEMISTRY, 9(15), 5476–5481. https://doi.org/10.1039/c1ob05605k

Bunders, C. A., Minvielle, M. J., Worthington, R. J., Ortiz, M., Cavanagh, J., & Melander, C. (2011). Intercepting Bacterial Indole Signaling with Flustramine Derivatives. JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 133(50), 20160–20163. https://doi.org/10.1021/ja209836z

Refaei, M. A., Combs, A., Kojetin, D. J., Cavanagh, J., Caperelli, C., Rance, M., … Tsang, P. (2011). Observing selected domains in multi-domain proteins via sortase-mediated ligation and NMR spectroscopy. JOURNAL OF BIOMOLECULAR NMR, 49(1), 3–7. https://doi.org/10.1007/s10858-010-9464-2

Yang, H. O., Gurgel, P. V., Williams, D. K., Bobay, B. G., Cavanagh, J., Muddiman, D. C., & Carbonell, R. G. (2010). Binding site on human immunoglobulin G for the affinity ligand HWRGWV. Journal of Molecular Recognition, 23(3), 271–282.

Bobay, B. G., Thompson, R. J., Hoch, J. A., & Cavanagh, J. (2010). Long range dynamic effects of point-mutations trap a response regulator in an active conformation. FEBS LETTERS, 584(19), 4203–4207. https://doi.org/10.1016/j.febslet.2010.08.051

Hobbs, C. A., Bobay, B. G., Thompson, R. J., Perego, M., & Cavanagh, J. (2010). NMR Solution Structure and DNA-binding Model of the DNA-binding Domain of Competence Protein A. JOURNAL OF MOLECULAR BIOLOGY, 398(2), 248–263. https://doi.org/10.1016/j.jmb.2010.03.003

Rogers, S. A., Huigens, R. W., III, Cavanagh, J., & Melander, C. (2010). Synergistic Effects between Conventional Antibiotics and 2-Aminoimidazole-Derived Antibiofilm Agents. ANTIMICROBIAL AGENTS AND CHEMOTHERAPY, 54(5), 2112–2118. https://doi.org/10.1128/aac.01418-09

Richards, J. J., Reyes, S., Stowe, S. D., Tucker, A. T., Ballard, T. E., Mathies, L. D., … Melander, C. (2009). Amide Isosteres of Oroidin: Assessment of Antibiofilm Activity and C. elegans Toxicity. JOURNAL OF MEDICINAL CHEMISTRY, 52(15), 4582–4585. https://doi.org/10.1021/jm900378s

Yang, H., Gurgel, P. V., Williams, D. K., Jr, Bobay, B. G., Cavanagh, J., Muddiman, D. C., & Carbonell, R. G. (2009). Binding site on human immunoglobulin G for the affinity ligand HWRGWV. Journal of Molecular Recognition, n/a-n/a. https://doi.org/10.1002/jmr.967

Melander, C., Moeller, P. D. R., Ballard, T. E., Richards, J. J., Huigens, R. W., III, & Cavanagh, J. (2009). Evaluation of dihydrooroidin as an antifouling additive in marine paint. INTERNATIONAL BIODETERIORATION & BIODEGRADATION, 63(4), 529–532. https://doi.org/10.1016/j.ibiod.2008.08.009

Hobbs, C. A., Deterding, L. J., Perera, L., Bobay, B. G., Thompson, R. J., Darden, T. A., … Tomer, K. B. (2009). Structural Characterization of the Conformational Change in Calbindin-D-28k upon Calcium Binding Using Differential Surface Modification Analyzed by Mass Spectrometry. BIOCHEMISTRY, 48(36), 8603–8614. https://doi.org/10.1021/bi900350q

Kojetin, D. J., McLaughlin, P. D., Thompson, R. J., Dubnau, D., Prepiak, P., Rance, M., & Cavanagh, J. (2009). Structural and Motional Contributions of the Bacillus subtilis ClpC N-Domain to Adaptor Protein Interactions. JOURNAL OF MOLECULAR BIOLOGY, 387(3), 639–652. https://doi.org/10.1016/j.jmb.2009.01.046

Szurmant, H., Bobay, B. G., White, R. A., Sullivan, D. M., Thompson, R. J., Hwa, T., … Cavanagh, J. (2008). Co-Evolving Motions at Protein−Protein Interfaces of Two-Component Signaling Systems Identified by Covariance Analysis†. Biochemistry, 47(30), 7782–7784. https://doi.org/10.1021/bi8009604

Huigens, R. W., III, Ma, L., Gambino, C., Moeller, P. D. R., Basso, A., Cavanagh, J., … Melander, C. (2008). Control of bacterial biofilms with marine alkaloid derivatives. MOLECULAR BIOSYSTEMS, 4(6), 614–621. https://doi.org/10.1039/b719989a

Richards, J. J., Huigens III, R. W., Ballard, T. E., Basso, A., Cavanagh, J., & Melander, C. (2008). Inhibition and dispersion of proteobacterial biofilms. Chemical Communications, (14), 1698. https://doi.org/10.1039/b719802g

Sullivan, D. M., Bobay, B. G., Kojetin, D. J., Thompson, R. J., Rance, M., Strauch, M. A., & Cavanagh, J. (2008). Insights into the Nature of DNA Binding of AbrB-like Transcription Factors. STRUCTURE, 16(11), 1702–1713. https://doi.org/10.1016/j.str.2008.08.014

Burns, V. A., Bobay, B. G., Basso, A., Cavanagh, J., & Melander, C. (2008). Targeting RNA with cysteine-constrained peptides. BIOORGANIC & MEDICINAL CHEMISTRY LETTERS, 18(2), 565–567. https://doi.org/10.1016/j.bmcl.2007.11.096

Strauch, M. A., Bobay, B. G., Cavanagh, J., Yao, F., Wilson, A., & Le Breton, Y. (2007). Abh and AbrB control of Bacillus subtilis antimicrobial gene expression. JOURNAL OF BACTERIOLOGY, 189(21), 7720–7732. https://doi.org/10.1128/JB.01081-07

Kojetin, D. J., McLaughlin, P. D., Thompson, R. J., Venters, R. A., Rance, M., & Cavanagh, J. (2007). NMR assignment of the N-terminal repeat domain of Bacillus subtilis ClpC. BIOMOLECULAR NMR ASSIGNMENTS, 1(2), 163–165. https://doi.org/10.1007/s12104-007-9046-8

Kordys, D. R., Bobay, B. G., Thompson, R. J., Venters, R. A., & Cavanagh, J. (2007). Peptide binding proclivities of calcium loaded calbindin-D28k. FEBS LETTERS, 581(24), 4778–4782. https://doi.org/10.1016/j.febslet.2007.09.004

McLaughlin, P. D., Bobaya, B. G., Regel, E. J., Thompson, R. J., Hoch, J. A., & Cavanagh, J. (2007). Predominantly buried residues in the response regulator Spo0F influence specific sensor kinase recognition. FEBS LETTERS, 581(7), 1425–1429. https://doi.org/10.1016/j.febslet.2007.02.061

Soderblom, E. J., Bobay, B. G., Cavanagh, J., & Goshe, M. B. (2007). Tandem mass spectrometry acquisition approaches to enhance identification of protein-protein interactions using low-energy collision-induced dissociative chemical crosslinking reagents. RAPID COMMUNICATIONS IN MASS SPECTROMETRY, 21(21), 3395–3408. https://doi.org/10.1002/rcm.3213

Sharp, J. S., Sullivan, D. M., Cavanagh, J., & Tomer, K. B. (2006). Measurement of multisite oxidation kinetics reveals an active site conformational change in Spo0F as a result of protein oxidation. BIOCHEMISTRY, 45(20), 6260–6266. https://doi.org/10.1021/bi060470r

Bobay, B. G., Mueller, G. A., Thompson, R. J., Murzin, A. G., Venters, R. A., Strauch, M. A., & Cavanagh, J. (2006). NMR structure of AbhN and comparison with AbrBN - First insights into the DNA binding promiscuity and specificity of AbrB-like transition state regulator proteins. JOURNAL OF BIOLOGICAL CHEMISTRY, 281(30), 21399–21409. https://doi.org/10.1074/jbc.M601963200

Kojetin, D. J., Venters, R. A., Kordys, D. R., Thompson, R. J., Kumar, R., & Cavanagh, J. (2006). Structure, binding interface and hydrophobic transitions of Ca2+-loaded calbindin-D-28K. Nature Structural & Molecular Biology, 13(7), 641–647. https://doi.org/10.1038/nsmb1112d

Kojetin, D. J., Venters, R. A., Kordys, D. R., Thompson, R. J., Kumar, R., & Cavanagh, J. (2006). Structure, binding interface and hydrophobic transitions of Ca2+-loaded calbindin-D28K. Nature Structural & Molecular Biology, 13(7), 641–647. https://doi.org/10.1038/nsmb1112

Venters, R. A., Coggins, B. E., Kojetin, D., Cavanagh, J., & Zhou, P. (2005). (4,2)D projection-reconstruction experiments for protein backbone assignment: Application to human carbonic anhydrase II and calbindin D-28K. JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 127(24), 8785–8795. https://doi.org/10.1021/ja0509580

Bobay, B. G., Andreeva, A., Mueller, G. A., Cavanagh, J., & Murzin, A. G. (2005). Revised structure of the AbrB N-terminal domain unifies a diverse superfamily of putative DNA-binding proteins. FEBS LETTERS, 579(25), 5669–5674. https://doi.org/10.1016/j.febslet.2005.09.045

Ulrich, D. L., Kojetin, D., Bassler, B. L., Cavanagh, J., & Loria, J. P. (2005). Solution structure and dynamics of LuxU from Vibrio harveyi, a phosphotransferase protein involved in bacterial quorum sensing. JOURNAL OF MOLECULAR BIOLOGY, 347(2), 297–307. https://doi.org/10.1016/j.jmb.2005.01.039

Kojetin, D. J., Thompson, R. J., Benson, L. M., Naylor, S., Waterman, J., Davies, K. G., … Cavanagh, J. (2005). Structural analysis of divalent metals binding to the Bacillus subtilis response regulator Spo0F: the possibility for In vitro metalloregulation in the initiation of sporulation. BIOMETALS, 18(5), 449–466. https://doi.org/10.1007/s10534-005-4303-8

Bobay, B. G., Benson, L., Naylor, S., Feeney, B., Clark, A. C., Goshe, M. B., … Cavanagh, J. (2004). Evaluation of the DNA Binding Tendencies of the Transition State Regulator AbrB†. Biochemistry, 43(51), 16106–16118. https://doi.org/10.1021/bi048399h

Ulrich, D. L., Thompson, R., Bassler, B., Cavanagh, J., & Loria, J. P. (2004). H-1, N-15, and C-13 chemical shift assignments of the Vibrio harveyi histidine phosphotransferase protein LuxU. JOURNAL OF BIOMOLECULAR NMR, 29(4), 551–552. https://doi.org/10.1023/B:JNMR.0000034349.22942.e1

Naylor, S., & Cavanagh, J. (2004). Status of systems biology - does it have a future? Drug Discovery Today: BIOSILICO, 2(5), 171–174. https://doi.org/10.1016/S1741-8364(04)02421-7

Kojetin, D. J., Thompson, R. J., & Cavanagh, J. (2004, February 27). Sub-classification of response regulators using the surface characteristics of their receiver domains (FEBS 27785) (vol 554, pg 231, 2003). FEBS LETTERS, Vol. 560, pp. 227–228. https://doi.org/10.1016/s0014-5793(04)00063-8

Lutz, W., Frank, E. M., Craig, T. A., Thompson, R., Venters, R. A., Kojetin, D., … Kumar, R. (2003). Calbindin D-28K interacts with Ran-binding protein M: identification of interacting domains by NMR spectroscopy. BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS, 303(4), 1186–1192. https://doi.org/10.1016/S0006-291X(03)00499-6

Cavanagh, J., Benson, L. M., Thompson, R., & Naylor, S. (2003). In-line desalting mass spectrometry for the study of noncovalent biological complexes. ANALYTICAL CHEMISTRY, 75(14), 3281–3286. https://doi.org/10.1021/ac030182q

Benson, L. M., Kumar, R., Cavanagh, J., & Naylor, S. (2003). Protein-metal ion interactions, stoichiometries and relative affinities determined by on-line size exclusion gel filtration mass spectrometry. RAPID COMMUNICATIONS IN MASS SPECTROMETRY, 17(4), 267–271. https://doi.org/10.1002/rcm.903

Kojetin, D. J., Thompson, R. J., & Cavanagh, J. (2003). Sub-classification of response regulators using the surface characteristics of their receiver domains. FEBS LETTERS, 554(3), 231–236. https://doi.org/10.1016/S0014-5793(03)01167-0

Venters, R. A., Benson, L. M., Craig, T. A., Paul, K. H., Kordys, D. R., Thompson, R., … Cavanagh, J. (2003). The effects of Ca2+ binding on the conformation of calbindin D-28K: A nuclear magnetic resonance and microelectrospray mass spectrometry study. ANALYTICAL BIOCHEMISTRY, 317(1), 59–66. https://doi.org/10.1016/S0003-2697(03)00084-8

Helton, T. D., Kojetin, D. J., Cavanagh, J., & Horne, W. A. (2002). Alternative splicing of a beta(4) subunit proline-rich motif regulates voltage-dependent gating and toxin block of Ca(v)2.1 Ca2+ channels. Journal of Neuroscience, 22(21), 9331–9339. https://doi.org/10.1523/jneurosci.22-21-09331.2002

Venters, R. A., Thompson, R., & Cavanagh, J. (2002). Current approaches for the study of large proteins by NMR. JOURNAL OF MOLECULAR STRUCTURE, 602, 275–292. https://doi.org/10.1016/s0022-2860(01)00690-1

Benson, L. M., Vaughn, J. L., Strauch, M. A., Bobay, B. G., Thompson, R., Naylor, S., & Cavanagh, J. (2002). Macromolecular assembly of the transition state regulator AbrB in its unbound and complexed states probed by microelectrospray ionization mass spectrometry. ANALYTICAL BIOCHEMISTRY, 306(2), 222–227. https://doi.org/10.1006/abio.2002.5704

Cavanagh, J., Thompson, R., Bobay, B., Benson, L. M., & Naylor, S. (2002). Stoichiometries of protein - Protein/DNA binding and conformational changes for the transition-state regulator AbrB measured by pseudo cell-size exclusion chromatography-mass spectrometry. BIOCHEMISTRY, 41(25), 7859–7865. https://doi.org/10.1021/bi0202225

Sehgal, A. C., Tompson, R., Cavanagh, J., & Kelly, R. M. (2002). Structural and catalytic response to temperature and cosolvents of carboxylesterase EST1 from the extremely thermoacidophilic archaeon Sulfolobus solfataricus P1. BIOTECHNOLOGY AND BIOENGINEERING, 80(7), 784–793. https://doi.org/10.1002/bit.10433

Cavanagh, J., & Venters, R. A. (2001, November). Protein dynamic studies move to a new time slot. NATURE STRUCTURAL BIOLOGY, Vol. 8, pp. 912–914. https://doi.org/10.1038/nsb1101-912

Vaughn, J. L., Feher, V. A., Bracken, C., & Cavanagh, J. (2001). The DNA-binding domain in the Bacillus subtilis transition-state regulator AbrB employs significant motion for promiscuous DNA recognition. JOURNAL OF MOLECULAR BIOLOGY, 305(3), 429–439. https://doi.org/10.1006/jmbi.2000.4305

Vaughn, J. L., Feher, V., Naylor, S., Strauch, M. A., & Cavanagh, J. (2000). Novel DNA binding domain and genetic regulation model of Bacillus subtilis transition state regulator AbrB. Nature Structural Biology, 7(12), 1139–1146.

Feher, V. A., Zapf, J., Hoch, J. A., Whiteley, J. M., Cavanagh, J., & W., D. F. (1995). Functional implications of the structure of the bacterial response regulator Spo0F. Journal of Cellular Biochemistry, Suppl. 21B, 25.

Solution structure of the Bacillus subtilis glucose permease Iia domain and its interaction with another phosphocarrier protein Hpr. J. (1993). Journal of Cellular Biochemistry, Suppl. 17C, 271.