Research has been published in over 220 articles by our trainees and their mentors partially in thanks to funding from T32 GM070421.



2019  |  2018  |  2017  |  2016  |  2015  |  2014  |  2013  |  2012  |  2011  |  2010  |  2009  |  2008  |  2007  |  2006


The challenge of converting Gram-positive-only compounds into broad-spectrum antibiotics

Ritcher, M. F.; Hergenrother, P. J.

Ann N Y Acad Sci. 2019, 1435, 18-38.



Tunable Stability of Imidazotetrazines Leads to a Potent Compound for Glioblastoma

Svec, R. L.; Furiassi, L.; Skibinski, C. G.; Fan, T. F.; Riggins, G. J.; Hergenrother, P. J.

ACS Chem Biol., 2018, 13, 11, 3206-3216

Alternative splicing rewires Hippo signaling pathway in hepatocytes to promote liver regeneration

Bangru, S.; Arif, W.; Seimetz, J.; Bhate, A.; Rashan, E. H.; Carstens, R. P.; Anakk, S.; Kalsotra, A.

Nat Struct Mol Biol, 2018, 25, 928-939

Elucidation of the roles of conserved residues in the biosynthesis of the lasso peptide paeninodin

Hegemann, J. D.; Schwalen, C. J.; Mitchell, D. A.van der Donk, W. A.

Chem Comm2018, 54, 65, 9007-9010

Overcoming Resistance to Targeted Anticancer Therapies through Small-Molecule-Mediated MEK Degradation

Peh, J.; Boudreau, M. W.; Smith, H. M.; Hergenrother, P.J.

Cell Chemical Biology, 2018, 25, 8, 927-928

Bioinformatic Expansion and Discovery of Thiopeptide Antibiotics

Schwalen, C. J.; Hudson, G. A.; Kille, B.; Mitchell, D. A.

J. Am. Chem. Soc., 2018, 140, 30, 9494-9501

New Class of Selective Estrogen Receptor Degraders (SERDs): Expanding the Toolbox of PROTAC Degrons

Wang, L.; Guillen, V. S.; Sharma, N.; Min, J.; Carlson, K. E.; Toy, W.; Bragi, S.; Katzenellenbogen, B. S.; Chandarlapaty, S.; Sharma, A.

ACS Med. Chem. Lett., 2018, 9, 8, 803-808

A high spatiotemporal study of somatic exocytosis with scanning electrochemical microscopy and nanoITIES electrodes

Welle, T. M.; Alanis, K.; Colombo, M.L.; Sweedler, J. V.; Shen, M.

Chem. Sci., 2018, 9, 4937-4941

Spatial Organization of Superparamagnetic Iron Oxide Nanoparticles in/on Nano/Microsized Carriers Modulates the Magnetic Resonance Signal

Lee, M. K.; Clay, N. E.; Ko, E.; Smith, C. E.; Chen, L.; Cho, N.; Sung, H.; DiPietro, L.; Lee, J.; Kong, H.

Langmuir, 2018, 34, 50, 15276-15282

Solid-State NMR of highly 13C-enriched cholesterol in lipid bilayers

Della Ripa, L. A.; Petros, Z. A.; Cioffi, A. G.; Piehl, D. W.; Courtney, J. M.; Burke, M. D.; Rienstra, C. M

Methods. 2018138-139, 47-53

Development of Photoacoustic Probes for in Vivo Molecular Imaging

Reinhardt, C.J.; Chan, J.

Biochemistry, 2018,  57, 194−199.

Cytosolic delivery of multi-domain cargos by the N-terminus of Pasteurella multocida toxin 

Clemons, N.C.; Bannai, Y.; Haywood, E.E.; Xu, Y.; Buschbach, J.D.; Ho, M.; Wilson, B.A.

Infect. Immun. 2018, 86 (8)

Modular domain swapping among the bacterial cytotoxic necrotizing factor (CNF) family for efficient cargo delivery into mammalian cells

Haywood, E.E.; Ho, H.; Wilson, B.A.

J Biol Chem, 2018293(10), 3860-3870.


Force-extension behavior of DNA in the presence of DNA-bending nucleoid associated proteins

Dahlke, K.; Sing, C. E.

J Chem Phys2018148, 84902.


Comparison of T Cell Activities Mediated by Human TCRs and CARs That Use the Same Recognition Domains

Harris, D. T.; Hager, M. V.; Smith, S. N.; Cai, Q.; Stone, J. D.; Kruger, P.; Lever, M.; Dushek, O.; Schmitt, T. M.; Greenberg, P. D.; Kranz, D. M.

J Immunol, 2018200(3), 1088-1100


Optically Guided Single Cell Mass Spectrometry of Rat Dorsal Root Ganglia to Profile Lipids, Peptides and Proteins

Do, T. D.; Ellis, J. F.; Neumann, E. K.; Comi, T. J.; Tillmaand, E. G.; Lenhart, A. E.; Rubakhin, S. S.; Sweedler, J. V.

Chemphyschem, 201819(10), 1180-1191


A Ratiometric Acoustogenic Probe for in Vivo Imaging of Endogenous Nitric Oxide

Reinhardt, C. J.; Zhou, E. Y.; Jorgensen, M. D.; Partipilo, G.; Chan, J.

J Am Chem Soc, 2018, 140(3), 1011-1018


Mdm2 mediates FMRP- and Gp1 mGluR-dependent protein translation and neural network activity

Liu D.C.; Seimetz J.; Lee K.Y.; Kalsotra A.; Chung H.J.; Lu H.; Tsai N.P. 

Hum. Mol. Genet. 2017, 26 (20), 3895-3908


Mov10 suppresses retroelements and regulates neuronal development and function in the developing brain

Skariah G., Seimetz J., Norsworthy M., Lannom M.C., Kenny P.J., Elrakhawy M., Forsthoefel C., Drnevich J.,Kalsotra A., Ceman S.

BMC Biol. 2017, 15:54

NitroxylFlour: A Thiol-Based Fluorescent Probe for Live-Cell Imaging of Nitroxyl

Pino, N.W.; Davis III, J.; Yu, Z.; Chan, J.

J. Am. Chem. Soc., 2017, 139, 18476-18479

Manganese and Cobalt in the Nonheme-Metal-Binding Site of a Biosynthetic Model of Heme-Copper Oxidase Superfamily Confer Oxidase Activity through Redox-Inactive Mechanism

Reed, J.H.; Shi, Y.; Zhu, Q, Chakraborty, S.; Mirts, E.N.; Petrik, I.D.; Bhagi-Damodaran, A.; Ross, M.; Moenne-Loccoz, P.; Zhang, Y.; Lu; Y.

J. Am. Chem. Soc., 2017139 (35), 12209–12218.

Synergistic and targeted therapy with a procaspase-3 activator and temozolomide extends survival in glioma rodent models and is feasible for the treatment of canine malignant glioma patients

Joshi, A.D.; Botham, R.C.; Schlein, L.J.; Roth, H.S.; Mangraviti, A.; Borodovsky, A.; Tyler, B.; Joselyn, S.; Podell, M.; Fan, T.M., Hergenrother, P.J.;Riggins, G.J.

Oncotarget. 2017, 8(46), 80124-80138.


Structure-Activity Relationships of the S-Linked Glycocin Sublancin

Biswas, S.; Garcia De Gonzalo, C. V.; Repka, L. M.; van der Donk, W. A.

ACS Chem. Biol., 201712(12), 2965–2969. 


Poly(A) tail length regulates PABPC1 expression to tune translation in the heart

Chorghade, S.; Seimetz, J.; Emmons, R.; Yang, J.; Bresson, S. M.; Lisio, M. D.; Parise, G.; Conrad, N. K.; Kalsotra, A.

eLife., 2017, 6, 24139.


A new genome-mining tool redefines the lasso peptide biosynthetic landscape

Tietz, J. I.; Schwalen, C. J.; Patel, Parth S.; Maxson, T.; Blair, P. M.; Tai, H.; Zakai, U. I.; Mitchell, D. A.

Nat Chem Biol. 201713(5), 470-478. 


The GlcN6P cofactor serves multiple catalytic roles in the glmS ribozyme

Bingaman, J. L.; Zhang, S.; Stevens, D. R.; Yennawar, N. H.; Hammes-Schiffer, S.;Bevilacqua, P. C.

Nat Chem Biol. 201713(4),439-445.

Profiling of Microbial Colonies for High-Throughput Engineering of Multistep Enzymatic Reactions via Optically Guided Matrix-Assisted Laser Desorption/Ionization Mass Spectrometry

Si, T.; Li, B.; Comi, T.J.; Wu, Y.; Hu, P.; Wu, Y.; Min, Y.; Mitchell, D.A.Zhao, H.Sweedler, J.V.

J. Am. Chem. Soc. 2017, 139, 12466-12473.

Chimeric Leader Peptides for the Generation of Non-Natural Hybrid RiPP Products

Burkhart, B.J.; Kakkar, N.; Hudson, G.A.; van der Donk, W.A.Mitchell, D.A.

ACS Cent. Sci. 2017, 3, 629-638.

MALDI MS Guided Liquid Microjunction Extraction for Capillary Electrophoresis-Electrospray Ionization MS Analysis of Single Pancreatic Islet Cells

Comi, T.J.; Makurath, M.A.; Philip, M.C.; Rubakhin, S.S.; Sweedler, J.V.

Anal. Chem. 201789, 7765-7772.

microMS: A Python Platform for Image-Guided Mass Spectrometry Profiling

Comi, T.J.; Neumann, E.K.; Do, T.D.; Sweedler, J.V.

J. Am. Soc. Mass. Spectrom. 2017 [Epub ahead of print].

Deletion of the K1L Gene Results in a Vaccinia Virus That Is Less Pathogenic Due to Muted Innate Immune Responses, yet Still Elicits Protective Immunity

Bravo Cruz, A.G.; Han, A.; Roy, E.J.; Guzmán, A.B.; Miller, R.J.; Driskell, E.A.; O'Brien, W.D. Jr;. Shisler, J.L.

J. Virol. 2017, 91, pii: e00542-17.

Predictive compound accumulation rules yield a broad-spectrum antibiotic

Richter, M.F.; Drown, B.S.; Riley, A.P.; Garcia, A.; Shirai, T.; Svec, R.L.Hergenrother, P.J.

Nature 2017545, 299-304.

Head-to-Head Prenyl Synthases in Pathogenic Bacteria

Schwalen, C.J.; Feng, X.; Liu, W.; O-Dowd, B.; Ko, T.P.; Shin, C.J.; Guo, R.T.; Mitchell, D.A.; Oldfield, E.

Chembiochem 2017, 18, 985-991.

Deleting the DAG kinase Dgk1 augments yeast vacuole fusion through increased Ypt7 activity and altered membrane fluidity

Miner, G.E.; Starr, M.L.; Hurst, L.R.; Fratti, R.A.

Traffic 201718, 315-329.


YcaO-Dependent Posttranslational Amide Activation: Biosynthesis, Structure, and Function

Burkhart, B.J.Schwalen, C.J.; Mann, G.; Naismith, J.H.; Mitchell, D.A.

Chem. Rev. 2017117, 5389-5456


Cyclic tensile strain enhances human mesenchymal stem cell Smad 2/3 activation and tenogenic differentiation in anisotropic collagen-glycosaminoglycan scaffolds

Grier, W.G.; Moy, A.S.; Harley, B.A.

Eur. Cell Mater. 201733, 227-239.

Single Cell Profiling Using Ionic Liquid Matrix-Enhanced Secondary Ion Mass Spectrometry for Neuronal Cell Type Differentiation

Do T,D.; Comi, T.J.; Dunham, S.J.; Rubakhin, S.S.; Sweedler, J.V.

Anal. Chem. 201789, 3078-3086.


Categorizing Cells on the Basis of their Chemical Profiles: Progress in Single-Cell Mass Spectrometry

Comi, T.J.; Do, T.D.; Rubakhin, S.S.; Sweedler, J.V.

J. Am. Chem. Soc. 2017139, 3920-3929.

Two Flavoenzymes Catalyze the Post-Translational Generation of 5-Chlorotryptophan and 2-Aminovinyl-Cysteine during NAI-107 Biosynthesis

Ortega, M.A.; Cogan, D.P.; Mukherjee, S.; Garg, N.; Li, B.; Thibodeaux, G.N.; Maffioli, S.I.; Donadio, S.; Sosio, M.; Escano, J.; Smith, L.; Nair, S.K.van der Donk, W.A.

ACS Chem. Biol. 201712, 548-557.

Characterization of Two Late-Stage Enzymes Involved in Fosfomycin Biosynthesis in Pseudomonads

Olivares, P.; Ulrich, E.C.; Chekan, J.R.van der Donk, W.A.Nair, S.K.

ACS Chem. Biol. 201712, 456-463.

DNA-Catalyzed DNA Cleavage by a Radical Pathway with Well-Defined Products

Lee, Y.; Klauser, P.C.; Brandsen, B.M.; Zhou, C.; Li, X.; Silverman, S.K.

J. Am. Chem. Soc. 2017139, 255-261.

The influence of pore size and stiffness on tenocyte bioactivity and transcriptomic stability in collagen-GAG scaffolds

Grier, W.K.; Iyoha, E.M.; Harley, B.A.

J. Mech. Behav. Biomed. Mater. 201765, 295-305.



A one-step matrix application method for MALDI mass spectrometry imaging of bacterial colony biofilms

Li, B.; Comi, T.J.; Si, T.; Dunham, S.J.; Sweedler, J.V.

J. Mass. Spectrom. 2016, 51, 1030-1035.


Targeting Reactive Carbonyls for Identifying Natural Products and Their Biosynthetic Origins

Maxson, T.; Tietz, J.I.; Hudson, G.A.; Guo, X.R.; Tai, H.C.; Mitchell, D.A.

J. Am. Chem. Soc. 2016138, 15157-15166.

Biosynthetic timing and substrate specificity for the thiopeptide thiomuracin

Zhang, Z.; Hudson, G.A.; Mahanta, N.; Tietz, J.I.van der Donk, W.A.Mitchell, D.A.

J. Am. Chem. Soc. 2016, 138, 15511-15514.

Small-Molecule Procaspase-3 Activation Sensitizes Cancer to Treatment with Diverse Chemotherapeutics

Botham, R.C.; Roth, H.S.; Book, A.P.; Roady, P.J.; Fan, T.M.; Hergenrother, P.J.

ACS Cent. Sci. 20162, 545-559.

Inhibiting androgen receptor nuclear entry in castration-resistant prostate cancer

Pollock, J.A.; Wardell, S.E.; Parent, A.A.; Stagg, D.B.; Ellison, S.J.; Alley, H.M.; Chao, C.A.; Lawrence, S.A.; Stice, J.P.; Spasojevic, I.; Baker, J.G.; Kim, S.H.; McDonnell, D.P.; Katzenellenbogen, J.A.; Norris, J.D.

Nat. Chem. Biol. 201612, 795-801.

Sortilin facilitates VLDL-B100 secretion by insulin sensitive McArdle RH7777 cells

Sparks, R.P.; Guida, W.C.; Sowden, M.P.; Jenkins, J.L.; Starr, M.L.Fratti, R.A.; Sparks, C.E.; Sparks, J.D.

Biochem. Biophys. Res. Commun. 2016478, 546-552.

Single Cell Peptide Heterogeneity of Rat Islets of Langerhans

Jansson, E.T.; Comi, T.J.; Rubakhin, S.S.; Sweedler, J.V.

ACS Chem. Biol. 201611, 2588-2595.

The Central Polybasic Region of the Soluble SNARE (Soluble N-Ethylmaleimide-sensitive Factor Attachment Protein Receptor) Vam7 Affects Binding to Phosphatidylinositol 3-Phosphate by the PX (Phox Homology) Domain

Miner, G.E.; Starr, M.L.; Hurst, L.R.; Sparks, R.P.; Padolina M.; Fratti, R.A.

J. Biol. Chem. 2016291, 17651-17663.

Phosphatidic Acid Sequesters Sec18p from cis-SNARE Complexes to Inhibit Priming

Starr, M.L.; Hurst, L.R.; Fratti, R.A.

Traffic 201617, 1091-1109.


DNA-catalyzed glycosylation using aryl glycoside donors

Hesser, A.R.; Brandsen, B.M.; Walsh, S.M.; Wang, P.; Silverman, S.K.

Chem. Commun. 201652, 9259-9262.

Anticipatory UPR Activation: A Protective Pathway and Target in Cancer

Shapiro, D.J.Livezey, M.Yu, L.; Zheng, X.; Andruska, N.

Trends Endocrinol. Metal. 201627, 731-741.

CRISPR/Cas9 mediated targeted mutagenesis of the fast growing cyanobacterium Synechococcus elongatus UTEX 2973

Wendt, K.E.; Ungerer, J.; Cobb, R.E.Zhao, H.; Parkrasi, H.B.

Microb. Cell Fact. 201615, 115.

In Vitro Biosynthesis and Substrate Tolerance of the Plantazolicin Family of Natural Products

Deane, C.D.Burkhart, B.J.; Blair, P.M.; Tietz, J.I.; Lin, A.; Mitchell, D.A.

ACS Chem. Biol. 201611, 2232-2243.

On-Tissue Derivatization via Electrospray Deposition for Matrix-Assisted Laser Desorption/Ionization Mass Spectrometry Imaging of Endogenous Fatty Acids in Rat Brain Tissues

Wu, Q.; Comi, T.J.; Li, B.; Rubakhin, S.S.; Sweedler, J.V.

Anal. Chem. 201688, 5988-5995.

Interplay between steroid hormone activation of the unfolded protein response and nuclear receptor action

Zheng, X.; Andruska, N.; Yu, L.; Mao, C.; Kim, J.E.; Livezey, M.; Helferich, W.G.; Shapiro, D.J.

Steroids 2016114, 2-6.

Metal-assisted polyatomic SIMS and laser desorption/ionization for enhanced small molecule imaging of bacterial biofilms

Dunham, S.J.; Comi, T.J.; Ko, K.; Li, B.; Baig, N.F.; Morales-Soto, N.; Shrout, J.D.; Bohn, P.W.; Sweedler, J.V.

Biointerphases 201611, 02A325.

Structure and tRNA Specificity of MibB, a Lantibiotic Dehydratase from Actinobacteria Involved in NAI-107 Biosynthesis

Ortega, M.A.; Hao, Y.; Walker, M.C.; Donadio, S.; Sosio, M.; Nair, S.K.; van der Donk, W.A.

Cell Chem. Biol. 201623, 370-380.

DNA-Catalyzed Amide Hydrolysis

Zhou, C.; Avins, J.L.; Klauser, P.C.; Brandsen, B.M.; Lee, Y.; Silverman, S.K.

J. Am. Chem. Soc. 2016, 138, 2106-2109.

Molecular Basis for Resistance Against Phosphonate Antibiotics and Herbicides

Chekan, J.R.; Cogan, D.P.; Nair, S.K.

Med. Chem. Commun. 20167, 28-36.

Photopolymerization of Dienoyl Lipids Creates Planar Supported Poly(lipid) Membranes with Retained Fluidity

Orosz, K.S.; Jones, I.W.; Keogh, J.P.; Smith, C.M.; Griffin, K.R.; Xu, J.; Comi, T.J.; Hall, H.K. Jr., Saavedra, S.S.

Langmuir 201632, 1577-1584.

New Insights into the Biosynthetic Logic of Ribosomally Synthesized and Post-translationally Modified Peptide Natural Products

Ortega, M.A.van der Donk, W.A.

Cell Chem. Biol. 201623, 31-44.

Synchronized Desorption Electrospray Ionization Mass Spectrometry Imaging

Comi, T.J.; Ryu, S.W.; Perry, R.H.

Anal. Chem. 201688, 1169-1175.

Accelerated genome engineering through multiplexing

Bao, Z.; Cobb, R.E.Zhao, H.

Wiley Interdiscip. Rev. Syst. Biol. Med. 2016, 8, 5-21.


A Small Molecule that Induces Intrinsic Pathway Apoptosis with Unparalleled Speed

Palchaudhuri, R.; Lambrecht, M.J.Botham, R.C.; Partlow, K.C.; van Ham, T.J.; Putt, K.S.; Nguyen, L.T.; Kim, S.H.; Peterson, R.T.; Fan, T.M.; Hergenrother, P.J.

Cell Rep. 201513, 2027-2036.

Crystal structure and absolute configuration of (3S,4aS,8aS)-N-tert-butyl-2-[(S)-3-(2-chloro-4-nitro-benzamido)-2-hy-droxy-prop-yl]deca-hydro-isoquinoline-3-carboxamide and (3S,4aS,8aS)-N-tert-butyl-2-{(S)-2-[(S)-1-(2-chloro-4-nitro-benzoyl)pyrrolidin-2-yl]-2-hy-droxy-eth-yl}deca-hydro-iso-quinoline-3-carboxamide

Maxson, T.; Bertke, J.A.; Gray, D.L.; Mitchell, D.A.

Acta Crystallogr. E Crystallogr. Commun. 2015, 71, 1401-1407.

C3-OH of Amphotericin B Plays an Important Role in Ion Conductance.

Davis S.A.; Della Ripa, L.A.; Hu, L.; Cioffi, A.G.; Pogorelov, T.V.; Rienstra, C.M.Burke, M.D.

J. Am. Chem. Soc. 2015, 137, 15102-15104.

Bactericidal Antibiotics Induce Toxic Metabolic Perturbations that Lead to Cellular Damage

Belenky, P.; Ye, J.D.; Porter, C.B.; Cohen, N.R.; Lobritz, M.A.; Ferrante, T.; Jain, S.; Korry, B.J.; Schwarz, E.G.; Walker, G.C.; Collins, J.J.

Cell Rep. 2015, 13, 968-980.

Biosynthesis of a Novel Glutamate Racemase Containing a Site-Specific 7-Hydroxycoumarin Amino Acid: Enzyme-Ligand Promiscuity Revealed at the Atomistic Level

Dean, S.F.; Whalen, K.L.Spies, M.A.

ACS Cent. Sci. 20151, 364-373.


CXCR4/CXCL12 signaling impacts enamel progenitor cell proliferation and motility in the dental stem cell niche

Yokohama-Tamaki, T.; Otsu, K.; Harada, H.; Shibata, S.; Obara, N.; Irie, K.; Taniguchi, A.; Nagasawa, T.; Aoki, K.; Caliari, S.R.; Weisgerber, D.W.; Harley, B.A.

Cell Tissue Res. 2015362, 633-642.

Identifying States along the Hematopoietic Stem Cell Differentiation Hierarchy with Single Cell Specificity via Raman Spectroscopy

Ilin, Y.; Choi, J.S.; Harley, B.A.Kraft, M.L.

Anal. Chem. 201587, 11317-11324.

The phosphoenolpyruvate:sugar phosphotransferase system is involved in sensitivity to the glucosylated bacteriocin sublancin

Garcia De Gonzalo, C.V.; Denham, E.L.; Mars, R.A.; Stulke, J.; van der Donk, W.A.; van Dijl, J.M.

Antimicrob. Agents Chemother. 2015, 59, 6844-6854.

Hydrophilic packaging of iron oxide nanoclusters for highly sensitive imaging

Smith, C.E.; Ernenwein, D.; Shkumatov, A.; Clay, N.E.; Lee, J.; Melhem, M.; Misra, S.; Zimmerman, S.C.Kong, H.

Biomaterials 201569, 184-190.

Genetic, Genomic, and Transcriptomic Studies of Pyruvate Metabolism in Methanosarcina barkeri Fusaro

Lopez Munoz, M.M.; Schoneit, P.; Metcalf, W.W.

J. Bacteriol. 2015, 197, 3592-3600.

Binuclear Cu(A) Formation in Biosynthetic Models of Cu(A) in Azurin Proceeds via a Novel Cu(Cys)2His Mononuclear Copper Intermediate

Chakraborty, S.; Polen, M.J.; Chacon, K.N.; Wilson, T.D.; Yu, Y.; Reed, J.; Nilges, M.J.; Blackburn, N.J.; Lu, Y.

Biochemistry 2015, 54, 6071-6081.

Recent advances in biosynthetic modeling of nitric oxide reductases and insights gained from nuclear resonance vibrational and other spectroscopic studies

Chakraborty, S.; Reed, J.; Sage, J.T.; Branagan, N.C.; Petrick, I.D.; Miner, K.D.; Hu, M.Y.; Zhao, J.; Alp, E.E.; Lu, Y.

Inorg. Chem. 2015, 54, 9317-9329.

Functionalized ultrathin palladium nanosheets as patches for HepG2 cancer cells

Pan, Y.T.; Smith, C.E.; Kwok, K.S.; Chen, J.; Kong, H.; Yang, H.

Chem. Commun. 201551, 14171-14174.

Electrochemical nanoprobes for the chemical detection of neurotransmitters

Shen, M.; Colombo, M.L.

Anal. Methods 20157, 7095-7105.

A Reaction-Based Fluorescent Probe for Imaging of Formaldehyde in Living Cells

Roth, A.; Li, H.; Anorma, C.Chan, J.

J. Am. Chem. Soc. 2015137, 10890-10893.

Multistage Reactive Transmission-Mode Desorption Electrospray Ionization Mass Spectrometry

Peters, K.C.; Comi, T.J.; Perry, R.H.

J. Am. Soc. Mass. Spectrom. 201526, 1494-1501.

A prevalent peptide-binding domain guides ribosomal natural product biosynthesis

Burkhart, B.J.; Hudson, G.A.; Dunbar, K.L.Mitchell, D.A.

Nat. Chem. Biol. 201511, 564-570.

Antibiotic efficacy is linked to bacterial cellular respiration

Lobritz, M.A.; Belenky, P.; Porter, C.B.; Gutierrez, A.; Yang, J.H.; Schwarz, E.G.; Dwyer, D.J.; Khalil, A.S.; Collins, J.J.

Proc. Natl. Acad. Sci. USA 2015112, 8173-8180.

Identification of the minimal cytolytic unit for streptolysin S and an expansion of the toxin family

Molloy, E.M.; Casjens, S.R.; Cox, C.L.; Maxson, T.; Ethridge, N.A.; Margos, G.; Fingerle, V.; Mitchell, D.A.

BMC Microbiol. 201515, 141.

Classification of Large Cellular Populations and Discovery of Rare Cells Using Single Cell Matrix-Assisted Laser Desorption/Ionization Time-of-Flight Mass Spectrometry

Ong, T.H.; Kissick, D.J.; Jansson, E.T.; Comi, T.J.; Romanova, E.V.; Rubakhin, S.S.; Sweedler, J.V.

Anal. Chem. 201587, 7036-7042.

Identification of an Auxiliary Leader Peptide-Binding Protein Required for Azoline Formation in Ribosomal Natural Products

Dunbar, K.L.Tietz, J.I.; Cox, C.L.; Burkhart, B.J.; Mitchell, D.A.

J. Am. Chem. Soc. 2015, 137, 7672-7677.

HIV protease inhibitors block streptolysin S production

Maxson, T.Deane, C.D.; Molloy, E.M.; Cox, C.L.; Markley, A.L.; Lee, S.W.; Mitchell, D.A.

ACS Chem. Biol. 201510, 1217-1226.

Removal of Metabolic Liabilities Enables Development of Derivatives of Procaspase-Activating Compound 1 (PAC-1) with Improved Pharmacokinetics

Roth, H.S.; Botham, R.C.; Schmid, S.C.; Fan, T.M.; Dirikolu, L.; Hergenrother, P.J.

J. Med. Chem. 201558, 4046-4065.

Deoxynybomycins inhibit mutant DNA gyrase and rescue mice infected with fluoroquinolone-resistant bacteria

Parkinson, E.I.; Bair, J.S.; Nakamura, B.A.; Lee, H.Y.; Kuttab, H.I.; Southgate, E.H.; Lezmi, S.; Lau, G.W.; Hergenrother, P.J.

Nat. Commun. 2015, 6, 6947.

Collagen Scaffolds Incorporating Coincident Gradations of Instructive Structural and Biochemical Cues for Osteotendinous Junction Engineering

Caliari, S.R.; Weisgerber, D.W.; Grier, W.K.; Mahmassani, Z.; Boppart, M.D.; Harley, B.A.

Adv. Healthc. Mater. 20154, 831-837. 

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Wilson, R.L.; Frisz, J.F.; Klitzing, H.A.; Zimmerberg, J.; Weber, P.K.; Kraft, M.L.

Biophys. J. 2015, 108, 1652-1659.

Removal of Metabolic Liabilities Enables Development of Derivatives of Procaspase-Activating Compound 1 (PAC-1) with Improved Pharmacokinetics

Roth, H.S.; Botham, R.C.; Schmid, S.C.; Fan, T.M.; Dirikolu, L.; Hergenrother, P.J.

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Synthesis of dimeric ADP-ribose and its structure with human poly(ADP-ribose) glycohydrolase

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J. Am. Chem. Soc. 2015137, 3558-3564.

A common late-stage intermediate in catalysis by 2-hydroxyethyl-phosphonate dioxygenase and methylphosphonate synthase

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J. Am. Chem. Soc. 2015137, 3217-3220. 

Drosophila muller f elements maintain a distinct set of genomic properties over 40 million years of evolution

Leung, W.; Shaffer, C.D.; Reed, L.K.; Smith, S.T.; et al.

G3 (Bethesda) 20155, 719-740. 

Mineralized collagen scaffolds induce hMSC osteogenesis and matrix remodeling

Weisgerber, D.W.; Caliari, S.R.Harley, B.A.

Biomater. Sci. 20153, 533-542.

The Escherichia coli small protein MntS and exporter MntP optimize the intracellular concentration of manganese

Martin, J.E.; Waters, L.S.; Storz, G.; Imlay, J.A.

PLoS Genet. 201511, e1004977.  

Structure, bioactivity, and resistance mechanism of streptomonomicin, an unusual lasso Peptide from an understudied halophilic actinomycete

Metelev, M.; Tietz, J.I.; Melby, J.O.; Blair, P.M.; Zhu, L.; Livnat, I.; Severinov, K.; Mitchell, D.A.

Chem. Biol. 201522, 241-250. 

Structure-guided design and biosynthesis of a novel FR-900098 analogue as a potent Plasmodium falciparum 1-deoxy-D-xylulose-5-phosphate reductoisomerase (Dxr) inhibitor

Cobb, R.E.; Bae, B.; Li, Z.; DeSieno, M.A.Nair, S.K.Zhao, H.

Chem. Commun. 201551, 2526-2528. 

Secondary ion mass spectrometry and Raman spectroscopy for tissue engineering applications

Ilin, Y.Kraft, M.L.

Curr. Opin. Biotechnol. 201531, 108-116. 

Structure and mechanism of the tRNA-dependent lantibiotic dehydratase NisB

Ortega, M.A.; Hao, Y.; Zhang, Q.; Walker, M.C.; van der Donk, W.A.Nair, S.K.

Nature 2015517. 509-512. 

Collagen scaffold arrays for combinatorial screening of biophysical and biochemical regulators of cell behavior

Caliari, S.R.; Gonnerman, E.A.; Grier, W.K.; Weisgerber, D.W.; Banks, J.M.; Alsop, A.J.; Lee, J.S.; Bailey, R.C.Harley, B.A.

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Nanopipet-Based Liquid-Liquid Interface Probes for the Electrochemical Detection of Acetylcholine, Tryptamine, and Serotonin via Ionic Transfer

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Anal. Chem. 201587, 5095-5100.

T Cell Receptor Engineering and Analysis Using the Yeast Display Platform

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Methods Mol. Biol. 20151319, 95-141.


Structural and biochemical basis for mannan utilization by Caldanaerobius polysaccharolyticus strain ATCC BAA-17

Chekan, J.R.; Kwon, I.H.; Agarwal, V.; Dodd, D.; Revindran, V.; Mackie, R.I.; Cann, I.Nair, S.K.

J. Biol. Chem. 2014289, 34965-34977. 


Changing the peptide specificity of a human T-cell receptor by directed evolution

Smith, S.N.; Wang, Y.; Baylon, J.L.; Singh, N.K.; Baker, B.M.; Tajkhorshid, E.; Kranz, D.M.

Nat. Commun. 2014, 5, 5223. 

Structure and mechanism of the tRNA-dependent lantibiotic dehydratase NisB

Ortega, M.A.; Hao, Y.; Zhang, Q.; Walker, M.C.; van der Donk, W.A.Nair, S.K.

Nature 2015517, 509-512.

Backbone and side-chain assignments of an effector membrane localization domain from Vibrio vulnificus MARTX toxin

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Biomol. NMR Assign. 20148, 225-228. 


Discovery of a new ATP-binding motif involved in peptidic azoline biosynthesis

Dunbar, K.L.Chekan, J.R.; Cox, C.L.; Burkhart, B.J.Nair, S.K.Mitchell, D.A.

Nat. Chem. Biol. 201410, 823-829. 

Collagen-GAG scaffold biophysical properties bias MSC lineage choice in the presence of mixed soluble signals

Caliari, S.R.Harley, B.A.

Tissue Eng. Part. A. 2014, 20, 2463-2472.


A modular tyrosine kinase deoxyribozyme with discrete aptamer and catalyst domains

Dokukin, V.Silverman, S.K.

Chem. Commun. 2014, 50, 9317-9320.


Structural investigation of ribosomally synthesized natural products by hypothetical structure enumeration and evaluation using tandem MS

Zhang, Q.; Ortega, M.; Shi, Y.; Wang, H.; Melby, J.O.; Tang, W.; Mitchell, D.A.van der Donk, W.A.

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DNA-catalyzed lysine side chain modification

Brandsen, B.M.; Velez, T.E.; Sachdeva, A.; Ibrahim, N.A.; Silverman, S.K.

Angew. Chem. Int. Ed. 2014, 53, 9045-9050.


Substrate specificity of the lanthipeptide peptidase ElxP and the oxidoreductase ElxO

Ortega, M.A.; Velásquez, J.E.; Garg, N.; Zhang, Q.; Joyce, R.E.; Nair, S.K.van der Donk, W.A.

ACS Chem. Biol. 20149, 1718-1725. 

Structural and biochemical modification of a collagen scaffold to selectively enhance MSC tenogenic, chondrogenic, and osteogenic differentiation

Caliari, S.R.Harley, B.A.

Adv. Healthc. Mater. 2014, 3, 1086-1096. 


π-π interaction energies as determinants of the photodimerization of mono-, di-, and triazastilbenes

Parent, A.A.; Ess, D.H.; Katzenellenbogen, J.A.

J. Org. Chem. 20149, 5448-5462. 


Identifying the lineages of individual cells in cocultures by multivariate analysis of Raman spectra

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Ectromelia virus encodes a BTB/kelch protein, EVM150, that inhibits NF-κB signaling

Wang, Q.; Burles, K.; Couturier, B.; Randall, C.M.Shisler, J.; Barry, M.

J. Virol. 2014, 88, 4853-4865.

Cross-linkable liposomes stabilize a magnetic resonance contrast-enhancing polymeric fastener

Smith, C.E.Kong, H.

Langmuir. 2014, 30, 3697-3704.

Backbone and side-chain resonance assignments of the membrane localization domain from Pasteurella multocida toxin

Brothers, M.C.; Geissler, B.; Hisao, G.S.; Satchell, K.J.; Wilson, B.A.Rienstra, C.M.

Biomol. NMR Assign. 2014, 8, 221-224. 


Award Winner in the Young Investigator Category, 2014 Society for Biomaterials Annual Meeting and Exposition, Denver, Colorado, April 16-19, 2014: Periodically perforated core-shell collagen biomaterials balance cell infiltration, bioactivity, and mechanical properties

Caliari, S.R.; Mozdzen, L.C.; Armitage, O.; Oyen, M.L.; Harley, B.A.

J. Biomed. Mater. Res. A. 2014, 102, 917-927. 

NMR structure of the S-linked glycopeptide sublancin 168

Garcia De Gonzalo, C.V.; Zhu, L.; Oman, T.J.; van der Donk, W.A.

ACS Chem. Biol. 20149, 796-801.

Spectroscopic and computational study of a nonheme iron nitrosyl center in a biosynthetic model of nitric oxide reductase

Chakraborty, S.; Reed, J.; Ross, M.; Nilges, M.J.; Petrik, I.D.; Ghosh, S.; Hammes-Schiffer, S.; Sage, J.T.; Zhang, Y.; Schulz, C.E.; Lu, Y.

Angew. Chem. Int. Ed. 2014, 53, 2417-2421.

Dual small-molecule targeting of procaspase-3 dramatically enhances zymogen activation and anticancer activity

Botham, R.C.; Fan, T.M.; Im, I.; Borst, L.B.; Dirikolu, L.; Hergenrother, P.J.

J. Am. Chem. Soc. 2014136, 1312-1319.

Light activation of Staphylococcus aureus toxin YoeBSa1 reveals guanosine-specific endoribonuclease activity

Larson, A.S.Hergenrother, P.J.

Biochemistry 2014, 53, 188-201. 

The extracellular protein VlsE is destabilized inside cells

Guzman, I.; Gelman, H.; Tai, J.; Gruebele, M.

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The glycosyltransferase involved in thurandacin biosynthesis catalyzes both O- and S-glycosylation

Wang, H.; Oman, T.J.; Zhang, R.; Garcia De Gonzalo, C.V.; Zhang, Q.; van der Donk, W.A.

J. Am. Chem. Soc. 2014, 136, 84-87. 


Mode of action and structure-activity relationship studies of geobacillin I

Garg, N.; Oman, T.J.; Andrew Wang, T.S.; De Gonzalo, C.V.; Walker, S.; van der Donk, W.A.

J. Antibiot. 2014, 67, 133-136. 



The impact of discrete compartments of a multi-compartment collagen-GAG scaffold on overall construct biophysical properties

Weisgerber, D.W.; Kelkhoff, D.O.; Caliari, S.R.; Harley, B.A.

J. Mech. Behav. Biomed. Mater. 201328, 26-36. 

A polymeric fastener can easily functionalize liposome surfaces with gadolinium for enhanced magnetic resonance imaging

Smith, C.E.; Shkumatov, A.; Withers, S.G.; Yang, B.; Glockner, J.F.; Misra, S.; Roy, E.J.; Wong, C.H.; Zimmerman, S.C.Kong, H.

ACS Nano. 2013, 7, 9599-9610.

Characterization of GdFFD, a D-amino acid-containing neuropeptide that functions as an extrinsic modulator of the Aplysia feeding circuit

Bai, L.; Livnat, I.; Romanova, E.V.; Alexeeva, V.; Yau, P.M.; Vilim, F.S.; Weiss, K.R.; Jing, J.; Sweedler, J.V.

J. Biol. Chem. 2013, 288, 32837-32851.

Plasticity in the contribution of T cell receptor variable region residues to binding of peptide-HLA-A2 complexes

Smith, S.N.; Sommermeyer, D.; Piepenbrink, K.H.; Blevins, S.J.; Bernhard, H.; Uckert, W.; Baker, B.M.; Kranz, D.M.

J. Mol. Biol. 2013425, 4496-4507. 

DNA-catalyzed hydrolysis of esters and aromatic amides

Brandsen, B.M.; Hesser, A.R.; Castner, M.A.; Chandra, M.; Silverman, S.K.

J. Am. Chem. Soc. 2013135, 16014-16017. 


DNA catalysts with tyrosine kinase activity

Walsh, S.M.; Sachdeva, A.Silverman, S.K.

J. Am. Chem. Soc. 2013135, 14928-14931. 


A liposome-based ion release impedance sensor for biological detection

Damhorst, G.L.; Smith, C.E.; Salm, E.M.; Sobieraj, M.M.; Ni, H.; Kong, H.; Bashir, R.

Biomed. Microdevices 2013, 15, 895-905. 

Directed Evolution: Past, Present and Future

Cobb, R.E.; Chao, R.; Zhao, H.

AIChE J. 2013, 59, 1432-1440.


Sphingolipid domains in the plasma membranes of fibroblasts are not enriched with cholesterol

Frisz, J.F.; Klitzing, H.A.; Lou, K.; Hutcheon, I.D.; Weber, P.K.; Zimmerberg, J.; Kraft, M.L.

J. Biol. Chem. 2013288, 16855-16861. 

Composite growth factor supplementation strategies to enhance tenocyte bioactivity in aligned collagen-GAG scaffolds

Caliari, S.R.Harley, B.A.

Tissue Eng. Part A. 2013, 19, 1100-1112. 

Directed evolution as a powerful synthetic biology tool

Cobb, R.E.; Sun, N.; Zhao, H.

Methods 201360, 81-90.


A ring-distortion strategy to construct stereochemically complex and structurally diverse compounds from natural products

Huigens, R.W. 3rd; Morrison, K.C.; Hicklin, R.W.; Flood, T.A. Jr.; Richter, M.F.Hergenrother, P.J.

Nat. Chem. 20135, 195-202. 


Direct chemical evidence for sphingolipid domains in the plasma membranes of fibroblasts

Frisz, J.F.; Lou, K.; Klitzing, H.A.; Hanafin, W.P.; Lizunov, V.; Wilson, R.L.; Carpenter, K.J.; Kim, R.; Hutcheon, I.D.; Zimmerberg, J.; Weber, P.K.; Kraft, M.L.

Proc. Natl. Acad. Sci. USA 2013110, E613-E622. 



Lanthanide ions as required cofactors for DNA catalysts

Dokukin, V.; Silverman, S.K.

Chem. Sci. 20123, 1707-1714.


Evolution of lanthipeptide synthetases

Zhang, Q.; Yu, Y.; Vélasquez, J.E.van der Donk, W.A.

Proc. Natl. Acad. Sci. USA 2012109, 18361-18366. 

Stereochemistry of Hydride Transfer by Group III Alcohol Dehydrogenases Involved in Phosphonate Biosynthesis

Peck, S.C.; Kim, S.Y.; Evans, B.S.; van der Donk, W.A.

Medchemcomm. 20123, 967-970.


The influence of collagen-glycosaminoglycan scaffold relative density and microstructural anisotropy on tenocyte bioactivity and transcriptomic stability

Caliari, S.R.; Weisgerber, D.W.; Ramirez, M.A.; Kelkhoff, D.O.; Harley, B.A.

J. Mech. Behav. Biomed. Mater. 201211, 27-40. 


Identifying differentiation stage of individual primary hematopoietic cells from mouse bone marrow by multivariate analysis of TOF-secondary ion mass spectrometry data

Frisz, J.F.; Choi, J.S.; Wilson, R.L.; Harley, B.A.Kraft, M.L.

Anal. Chem. 201284, 4307-4313. 

Differential effects of procaspase-3 activating compounds in the induction of cancer cell death

West, D.C.; Qin, Y.; Peterson, Q.P.; Thomas, D.L.; Palchaudhuri, R.; Morrison, K.C.; Lucas, P.W.; Palmer, A.E.; Fan, T.M.; Hergenrother, PJ.

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YcaO domains use ATP to activate amide backbones during peptide cyclodehydrations

Dunbar, K.L.; Melby, J.O.; Mitchell, D.A.

Nat. Chem. Biol. 20128, 569-575. 


Fluorinated colloidal gold immunolabels for imaging select proteins in parallel with lipids using high-resolution secondary ion mass spectrometry

Wilson, R.L.; Frisz, J.F.; Hanafin, W.P.; Carpenter, K.J.; Hutcheon, I.D.; Weber, P.K.; Kraft, M.L.

Bioconjug. Chem. 2012, 23, 450-460.

Selectivity, directionality, and promiscuity in peptide processing from a Bacillus sp. Al Hakam cyclodehydratase

Melby, J.O.; Dunbar, K.L.; Trinh, N.Q.; Mitchell, D.A.

J. Am. Chem. Soc. 2012, 134, 5309-5316.

Covalent tagging of phosphorylated peptides by phosphate-specific deoxyribozymes

Sachdeva. A.; Chandra, M.; Chandrasekar, J.; Silverman, S.K.

Chembiochem 201213, 654-657. 


Selective small molecule inhibition of poly(ADP-ribose) glycohydrolase (PARG)

Finch, K.E.; Knezevic, C.E.; Nottbohm, A.C.; Partlow, K.C.; Hergenrother, P.J.

ACS Chem. Biol. 20127, 563-570. 

The MC159 protein from the molluscum contagiosum poxvirus inhibits NF-κB activation by interacting with the IκB kinase complex

Randall, C.M.; Jokela, J.A.; Shisler, J.L.

J. Immunol. 2012, 188, 2371-2379.

Parallel synthesis and biological evaluation of 837 analogues of procaspase-activating compound 1 (PAC-1)

Hsu, C.D.; Roth, H.S.; West, D.C.; Botham, R.C.; Novotny, C.J.; Schmid, S.C.; Hergenrother, P.J.

ACS Comb. Sci. 201214, 44-50.

DNA-catalyzed reactivity of a phosphoramidate functional group and formation of an unusual pyrophosphoramidate linkage

Sachdeva, A.Silverman, S.K.

Org. Biomol. Chem. 2012, 10, 122-125.

VITAL NMR: using chemical shift derived secondary structure information for a limited set of amino acids to assess homology model accuracy

Brothers, M.C.; Nesbitt, A.E.; Hallock, M.J.; Rupasinghe, S.G.; Tang, M.; Harris, J.; Baudry, J.; Schuler, M.A.; Rienstra, C.M.

J. Biomol. NMR 2012, 52, 41-56.

Discovery and biosynthesis of phosphonate and phosphinate natural products

Peck. S.C.; Gao, J.; van der Donk, W.A.

Methods Enzymol. 2012516, 101-123.



Structure determination and interception of biosynthetic intermediates for the plantazolicin class of highly discriminating antibiotics

Molohon, K.J.; Melby, J.O.; Lee, J.; Evans, B.S.; Dunbar, K.L.; Bumpus, S.B.; Kelleher, N.L.Mitchell, D.A.

ACS Chem. Biol. 20116, 1307-1313. 


The development of collagen-GAG scaffold-membrane composites for tendon tissue engineering

Caliari, S.R.; Ramirez, M.A.; Harley, B.A.

Biomaterials 201132, 8990-8998. 

New N-acetyltransferase fold in the structure and mechanism of the phosphonate biosynthetic enzyme FrbF

Bae, B.; Cobb, R.E.DeSieno, M.A.Zhao, H.Nair, S.K.

J. Biol. Chem. 2011286, 36132-36141.

Pharmacokinetics and derivation of an anticancer dosing regimen for PAC-1, a preferential small molecule activator of procaspase-3, in healthy dogs

Lucas, P.W.; Schmidt, J.M.; Peterson, Q.P.; West, D.C.; Hsu, D.C.; Novotny, C.J.; Dirikolu, L.; Churchwell, M.I.; Doerge, D.R.; Garrett, L.D.; Hergenrother, P.J.; Fan, T.M.

Invest New Drugs 201129, 901-911.

Characterization and application of the Fe(II) and α-ketoglutarate dependent hydroxylase FrbJ

DeSieno, M.A.; van der Donk, W.A.; Zhao, H.

Chem. Commun. 201147, 10025-10027.

A complex lipoate utilization pathway in Listeria monocytogenes

Christensen, Q.H.; Hagar, J.A.; O'Riordan, M.X.; Cronan, J.E.

J. Biol. Chem. 2011286, 31447-31456.

Quantitative photochemical immobilization of biomolecules on planar and corrugated substrates: a versatile strategy for creating functional biointerfaces

Martin, T.A.; Herman, C.T.; Limpoco, F.T.; Michael, M.C.; Potts, G.K.; Bailey, R.C.

ACS Appl. Mater. Interfaces 20113, 3762-3771. 

Nine post-translational modifications during the biosynthesis of cinnamycin

Ökesli, A.; Cooper, L.E.; Fogle, E.J.; van der Donk, W.A.

J. Am. Chem. Soc. 2011133, 13753-13760.

Mechanism and substrate recognition of 2-hydroxyethylphosphonate dioxygenase

Peck, S.C.; Cooke, H.A.; Cicchillo, R.M.; Malova, P.; Hammerschmidt, F.; Nair, S.K.van der Donk, W.A.

Biochemistry 2011, 50, 6598-6605. 

The effect of anisotropic collagen-GAG scaffolds and growth factor supplementation on tendon cell recruitment, alignment, and metabolic activity

Caliari, S.R.Harley, B.A.

Biomaterials 201132, 5330-5340. 


Biosynthesis of the antimicrobial peptide epilancin 15X and its N-terminal lactate

Velásquez, J.E.; Zhang, X.; van der Donk, W.A.

Chem. Biol. 201118, 857-867. 

Synthesis and activity of thioether-containing analogues of the complement inhibitor compstatin

Knerr, P.J.; Tzekou, A.; Ricklin, D.; Qu, H.; Chen, H.; van der Donk, W.A.; Lambris, J.D.

ACS Chem. Biol. 20116, 753-760. 

Mechanism of inhibition of Bacillus anthracis spore outgrowth by the lantibiotic nisin

Gut, I.M.Blanke, S.R.van der Donk, W.A.

ACS Chem. Biol. 2011, 6, 744-752.

The antibiotic dehydrophos is converted to a toxic pyruvate analog by peptide bond cleavage in Salmonella enterica

Circello, B.T.; Miller, C.G.; Lee, J.H.; van der Donk, W.A.Metcalf, W.W.

Antimicrob. Agents Chemother. 201155, 3357-3362.

Probing dynamic cell-substrate interactions using photochemically generated surface-immobilized gradients: application to selectin-mediated leukocyte rolling

Herman, C.T.; Potts, G.K.; Michael, M.C.; Tolan, N.V.; Bailey, R.C.

Integr. Biol. 20113, 779-791. 


The generation of biomolecular patterns in highly porous collagen-GAG scaffolds using direct photolithography

Martin, T.A.; Caliari, S.R.; Williford, P.D.; Harley, B.A.Bailey, R.C.

Biomaterials 201132, 3949-3957. 

Selective and potent agonists for estrogen receptor beta derived from molecular refinements of salicylaldoximes

Bertini, S.; De Cupertinis, A.; Granchi, C.; Bargagli, B.; Tuccinardi, T.; Martinelli, A.; Macchia, M.; Gunther, J.R.; Carlson, K.E.; Katzenellenbogen, J.A.; Minutolo, F.

Eur. J. Med. Chem. 201146, 2453-2462. 

Exploration of dimensions of estrogen potency: parsing ligand binding and coactivator binding affinities

Jeyakumar, M.; Carlson, K.E.; Gunther, J.R.Katzenellenbogen, J.A.

J. Biol. Chem. 2011, 286, 12971-12982. 

A novel amidotransferase required for lipoic acid cofactor assembly in Bacillus subtilis

Christensen, Q.H.; Martin, N.; Mansilla, M.C.; de Mendoza, D.; Cronan, J.E.

Mol. Microbiol. 2011, 80, 350-363.

A novel two-gene requirement for the octanoyltransfer reaction of Bacillus subtilis lipoic acid biosynthesis

Martin, N.; Christensen, Q.H.; Mansilla, M.C.; Cronan, J.E.; de Mendoaza, D.

Mol. Microbiol. 2011, 80, 335-349.

The alternative aerobic ribonucleotide reductase of Escherichia coli, NrdEF, is a manganese-dependent enzyme that enables cell replication during periods of iron starvation

Martin, J.E.Imlay, J.A.

Mol. Microbiol. 2011, 80, 319-334.

On the stereochemistry of 2-hydroxyethylphosphonate dioxygenase

Whitteck, J.T.; Malova, P.; Peck, S.C.; Cicchillo, R.M.; Hammerschmidt, F.; van der Donk, W.A.

J. Am. Chem. Soc. 2011133, 4236-4239. 

Bacillus anthracis spore interactions with mammalian cells: relationship between germination state and the outcome of in vitro

Gut, I.M.; Tamilselvam, B.; Prouty, A.M.; Stojkovic, B.; Czeschin, S.; van der Donk, W.A.Blanke, S.R.

BMC Microbiol. 2011, 11, 46.


Genome mining for ribosomally synthesized natural products

Velásquez, J.E.van der Donk, W.A.

Curr. Opin. Chem. Biol. 2011, 15, 11-21. 

Methanosarcina acetivorans C2A topoisomerase IIIalpha, an archaeal enzyme with promiscuity in divalent cation dependence

Morales, R.; Sriratana, P.; Zhang, J.; Cann, I.K.

PLoS One 2011, 6, e26903.



Lipoic acid synthesis: a new family of octanoyltransferases generally annotated as lipoate protein ligases

Christensen, Q.H.; Cronan, J.E.

Biochemistry 2010, 49, 10024-10036.

Probing the topological tolerance of multimeric protein interactions: evaluation of an estrogen/synthetic ligand for FK506 binding protein conjugate

Moore, T.W.; Gunther, J.R.; Katzenellenbogen, J.A.

Bioconjug. Chem. 2010, 21, 1880-1889.

Characterization and structure of DhpI, a phosphonate O-methyltransferase involved in dehydrophos biosynthesis

Lee, J.H.; Bae, B.; Kuemin, M.; Circello, B.T.Metcalf, W.W.Nair, S.K.van der Donk, W.A.

Proc. Natl. Acad. Sci. USA 2010, 107, 17557-17562.

Direct, Electrocatalytic Oxygen Reduction by Laccase on Anthracene-2-methanethiol Modified Gold

Thorum, M.S.; Anderson, C.A.; Hatch, J.J.; Campbell, A.S.; Marshall, N.M.Zimmerman, S.C.Lu, Y.; Gewirth, A.A.

J. Phys. Chem. Lett. 2010, 1, :2251-2254.

Discovery and canine preclinical assessment of a nontoxic procaspase-3-activating compound

Peterson, Q.P.; Hsu, D.C.; Novotny, C.J.; West, D.C.; Kim, D.; Schmit, J.M.; Dirikolu, L.; Hergenrother, P.J.; Fan, T.M.

Cancer Res. 2010, 70, 7232-7241.

General method for synthesis of 2-heterocyclic N-methyliminodiacetic acid boronates

Dick, G.R.; Knapp, D. M.; Gillis, E.P.; Burke, M.D.

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Molecular cloning and heterologous expression of the dehydrophos biosynthetic gene cluster

Circello, B.T.; Eliot, A.C.; Lee, J.H.; van der Donk, W.A.Metcalf, W.W.

Chem. Biol. 2010, 17, 402-411.

Exit strategies for charged tRNA from GluRS

Black Pyrkosz, A.; Eargle, J.; Sethi, A.; Luthey-Schulten, Z.

J. Mol. Biol. 2010, 397, 1350-1371.

DNA-catalyzed serine side chain reactivity and selectivity

Sachdeva, A.Silverman, S.K.

Chem. Commun. 201046, 2215-2217. 

Monitoring a coordinated exchange process in a four-component biological interaction system: development of a time-resolved terbium-based one-donor/three-acceptor multicolor FRET system

Kim, S.H.; Gunther, J.R.Katzenellenbogen, J.A.

J. Am. Chem. Soc. 2010, 132, 4685-4692.

Preparation of the caspase-3/7 substrate Ac-DEVD-pNA by solution-phase peptide synthesis

Peterson, Q.P.; Goode, D.R.; West, D.C.; Botham, R.C.Hergenrother, P.J.

Nat. Protoc. 20105, 294-302.

Deciphering the late biosynthetic steps of antimalarial compound FR-900098

Johannes, T.W.; DeSieno, M.A.; Griffin, B.M.; Thomas, P.M.Kelleher, N.L.Metcalf, W.W.Zhao, H.

Chem. Biol. 2010, 17, 57-64.



Synthesis of biphenyl proteomimetics as estrogen receptor-α coactivator binding inhibitors

Williams, A.B.; Weiser, P.T.; Hanson, R.N.; Gunther, J.R.Katzenellenbogen, J.A.

Org. Lett. 200911, 5370-5373.


Rationally tuning the reduction potential of a single cupredoxin beyond the natural range

Marshall, N.M.; Garner, D.K.; Wilson, T.D.; Gao, Y.G.; Robinson, H.; Nilges, M.J.; Lu, Y.

Nature 2009, 462, 113-116. 


DNA-catalyzed sequence-specific hydrolysis of DNA

Chandra, M.; Sachdeva, A.Silverman, S.K.

Nat. Chem. Biol. 20095, 718-720. 

Procaspase-3 activation as an anti-cancer strategy: structure-activity relationship of procaspase-activating compound 1 (PAC-1) and its cellular co-localization with caspase-3

Peterson, Q.P.; Hsu, D.C.; Goode, D.R.; Novotny, C.J.; Totten, R.K.; Hergenrother, P.J.

J. Med. Chem. 2009, 52, 5721-5731.


Direct biophotolithographic method for generating substrates with multiple overlapping biomolecular patterns and gradients

Toh, C.R.; Fraterman, T.A.; Walker, D.A.; Bailey, R.C.

Langmuir. 200925, 8894-8898.

The Thermoplasma acidophilum LplA-LplB complex defines a new class of bipartite lipoate-protein ligases

Christensen, Q.H.Cronan, J.E.

J. Biol. Chem. 2009, 284, 21317-21326.

Alternative inhibition of androgen receptor signaling: peptidomimetic pyrimidines as direct androgen receptor/coactivator disruptors

Gunther, J.R.Parent, A.A.Katzenellenbogen, J.A.

ACS Chem. Biol. 2009, 4, 435-440.

PAC-1 activates procaspase-3 in vitro through relief of zinc-mediated inhibition

Peterson, Q.P.; Goode, D.R.; West, D.C.; Ramsey, K.N.; Lee, J.J.; Hergenrother, P.J.

J. Mol. Biol. 2009388, 144-158.

A set of time-resolved fluorescence resonance energy transfer assays for the discovery of inhibitors of estrogen receptor-coactivator binding

Gunther, J.R.; Du, Y.; Rhoden, E.; Lewis, I.; Revennaugh, B.; Moore, T.W.; Kim, S.H.; Dingledine, R.; Fu, H.; Katzenellenbogen, J.A.

J. Biomol. Screen. 200914, 181-193.



Inhibition of Bacillus anthracis spore outgrowth by nisin

Gut, I.M.; Prouty, A.M.; Ballard, J.D.; van der Donk, W.A.Blanke, S.R.

Antimicrob. Agents Chemother. 2008, 52, 4281-4288.

Synthesis and biological evaluation of guanylhydrazone coactivator binding inhibitors for the estrogen receptor

LaFrate, A.L.; Gunther, J.R.; Carlson, K.E.; Katzenellenbogen, J.A.

Bioorg. Med. Chem. 2008, 16, 10075-10084.

Nonclassical SNAPFL analogue as a Cy5 resonance energy transfer partner

Kim, S.H,; Gunther, J.R.Katzenellenbogen, J.A.

Org. Lett. 2008, 10, 4931-4934.

Blocking estrogen signaling after the hormone: pyrimidine-core inhibitors of estrogen receptor-coactivator binding

Parent, A.A.Gunther, J.R.Katzenellenbogen, J.A.

J. Med. Chem. 200851, 6512-6530.


Structure-activity relationship studies of the two-component lantibiotic haloduracin

Cooper, L.E.; McClerren, A.L.; Chary, A.; van der Donk, W.A.

Chem. Biol. 200815, 1035-1045.

Evolution of enzymatic activities in the enolase superfamily: L-rhamnonate dehydratase

Rakus, J.F.; Fedorov, A.A.; Fedorov, E.V.; Glasner, M.E.; Hubbard, B.K.; Delli, J.D.; Babbitt, P.C.; Almo, S.C.; Gerlt, J.A.

Biochemistry 2008, 47, 9944-9954.

Gatekeeping versus promiscuity in the early stages of the andrimid biosynthetic assembly line

Magarvey, N.A.; Fortin, P.D.; Thomas, P.M.Kelleher, N.L.; Walsh, C.T.

ACS Chem. Biol. 2008, 3, 542-554.

Cloning, expression, and biochemical characterization of Streptomyces rubellomurinus genes required for biosynthesis of antimalarial compound FR900098

Eliot, A.C.; Griffin, B.M.; Thomas, P.M.; Johannes, T.W.; Kelleher, N.L.Zhao, H.Metcalf, W.W.

Chem. Biol. 2008, 15, 765-770.

Biosynthesis of 2-hydroxyethylphosphonate, an unexpected intermediate common to multiple phosphonate biosynthetic pathways

Shao, Z.; Blodgett, J.A.; Circello, B.T.; Eliot, A.C.; Woodyer, R.; Li, G.; van der Donk, W.A.Metcalf, W.W.Zhao, H.

J. Biol. Chem. 2008, 283, 23161-23168.


The importance of the leader sequence for directing lanthionine formation in lacticin 481

Patton, G.C.; Paul, M.; Cooper, L.E.; Chatterjee, C.; van der Donk, W.A.

Biochemistry 200847, 7342-7351. 

Amphipathic benzenes are designed inhibitors of the estrogen receptor alpha/steroid receptor coactivator interaction

Gunther, J.R.; Moore, T.W.; Collins, M.L.; Katzenellenbogen, J.A.

ACS Chem. Biol. 2008, 3, 282-286.

Dynamics of Recognition between tRNA and elongation factor Tu

Eargle, J.; Black, A.A.; Sethi, A.; Trabuco, L.G.; Luthey-Schulten, Z.

J. Mol. Biol. 2008, 377, 1382-1405.

Deconstruction of iterative multidomain polyketide synthase function

Crawford, J.M.; Thomas, P.M.; Scheerer, J.R.; Vagstad, A.L.; Kelleher, N.L.; Townsend, C.A.

Science 2008320, 243-246.



Evolution of enzymatic activities in the enolase superfamily: D-Mannonate dehydratase from Novosphingobium aromaticivorans

Rakus, J.F.; Fedorov, A.A.; Fedorov, E.V.; Glasner, M.E.; Vick, J.E.; Babbitt, P.C.; Almo, S.C.; Gerlt, J.A.

Biochemistry 2007, 46, 12896-12908.

Top-down proteomics on a chromatographic time scale using linear ion trap fourier transform hybrid mass spectrometers

Parks, B.A.; Jiang, L.; Thomas, P.M.; Wenger, C.D.; Roth, M.J.; Boyne, M.T. 2nd; Burke, P.V.; Kwast, K.E.; Kelleher, N.L.

Anal. Chem. 2007, 79, 7984-7991.

Unusual transformations in the biosynthesis of the antibiotic phosphinothricin tripeptide

Blodgett, J.A.; Thomas, P.M.; Li, G.; Velasquez, J.E.van der Donk, W.A.Kelleher, N.L.Metcalf, W.W.

Nat. Chem. Biol. 20073, 480-485.

Reassignment of the structure of the antibiotic A53868 reveals an unusual amino dehydrophosphonic acid

Whitteck, J.T.; Ni, W.; Griffin, B.M.; Eliot, A.C.; Thomas, P.M.Kelleher, N.L.Metcalf, W.W.van der Donk, W.A.

Angew. Chem. Int. Ed. 2007, 46, 9089-9092.



Heterologous production of fosfomycin and identification of the minimal biosynthetic gene cluster

Woodyer, R.D.; Shao, Z.; Thomas, P.M.Kelleher, N.L.; Blodgett, J.A.; Metcalf, W.W.van der Donk, W.A.Zhao, H.

Chem. Biol. 200613, 1171-1182.



The production of this website was supported by Grant No. T32 GM070421 from the Ruth L. Kirschstein Institutional National Research Service Award. Its contents are solely the responsibility of the Chemistry-Biology Interface Training Program at UIUC and do not necessarily represent the official views of the NIH Research Training and Career Development.