Publications
(^ = co-corresponding author)

Leonard, S. E.; Register, A. C.; Krishnamurty, R.; Brighty, G. J.; Maly, D. J. "Divergent Modulation of Src-Family Kinase Regulatory Interactions with ATP-Competitive Inhibitors" ACS Chem. Biol. 2014, 9, 1894-1905. (DOI: 10.1021/cb500371g)


Keyloun, K. R.; Reid, M. C.; Choi, R.; Song, Y.; Fox, A. M.; Hillesland, H. K.; Zhang, Z.; Vidadala, R.; Merritt, E. A.; Lau, A. O.; Maly, D. J.; Fan, E.; Barrett, L. K.; Van Voorhis, W. C.; Ojo, K. K. "The gatekeeper residue and beyond: homologous calcium-dependent protein kinases as drug development targets for veterinarian Apicomplexa parasites" Parasitology 2014, 141, 1499-1509. (DOI: 10.1017/S0031182014000857)

Hari, S. B.; Merritt, E. A.; Maly, D. J. "Conformation-Selective ATP-Competitive Inhibitors Control Regulatory Interactions and Noncatalytic Functions of Mitogen-Activated Protein Kinases" Chem. Biol. 2014, 20, 628-635. (DOI: 10.1016/j.chembiol.2014.02.016)


Ojo, K. K.; Reid, M. C.; Kallur Siddaramaiah, L.; Müller, J.; Winzer, P.; Zhang, Z.; Keyloun, K. R.; Vidadala, R. S. R.; Merritt, E. A.; Hol, W. G. J.; Maly, D. J.; Fan, E.; Van Voorhis, W. C.; Hemphill, A. "Neospora caninum Calcium-Dependent Protein Kinase 1 Is an Effective Drug Target for Neosporosis Therapy" PLoS ONE 2014, 9, e92929. (DOI: 10.1371/journal.pone.0092929)

Doggett, J. S.; Ojo, K. K.; Fan, E.; Maly, D. J.; Van Voorhis, W. C. "Bumped Kinase Inhibitor 1294 Treats Established Toxoplasma gondii Infection" Antimicrob. Agents Ch. 2014, 58, 3547-3549. (DOI: 10.1128/AAC.01823-13)

Gower, C. M.; Chang, M. E.; Maly, D. J. "Bivalent inhibitors of protein kinases" Crit. Rev. Biochem. Mol. Biol. 2014. (DOI: 10.3109/10409238.2013.875513)

Vidadala, R. S.; Ojo, K. K.; Johnson, S. M.; Zhang, Z.; Leonard, S. E.; Mitra, A.; Choi, R.; Reid, M. C.; Keyloun, K. R.; Fox, A. M.; Kennedy, M.; Silver-Brace, T.; Hume, J. C.; Kappe, S.; Verlinde, C. L.; Fan, E.; Merritt, E. A.; Van Voorhis, W. C.; Maly, D. J. "Development of potent and selective Plasmodium falciparum calcium-dependent protein kinase 4 (PfCDPK4) inhibitors that block the transmission of malaria to mosquitoes" Eur. J. Med. Chem. 2014, 74, 562-573. (DOI: 10.1016/j.ejmech.2013.12.048)


Zhang, Z.; Ojo, K. K.; Vidadala, R.; Huang, W.; Geiger, J. A.; Scheele, S.; Choi, R.; Reid, M. C.; Keyloun, K. R.; Rivas, K.; Siddaramaiah, L. K.; Comess, K. M.; Robinson, K. P.; Merta, P. J.; Kifle, L.; Hol, W. G.; Parsons, M.; Merritt, E. A.; Maly, D. J.; Verlinde, C. L.; Van Voorhis, W. C.; Fan, E. "Potent and Selective Inhibitors of CDPK1 from T. gondii and C. parvum Based on a 5-Aminopyrazole-4-carboxamide Scaffold" ACS Med. Chem. Lett. 2014, 5, 40-44. (DOI: 10.1021/ml400315s)


Ojo, K. K.; Eastman, R. T.; Vidadala, R.; Zhang, Z.; Rivas, K. L.; Choi, R.; Lutz, J. D.; Reid, M. C.; Fox, A. M. W.; Hulverson, M. A.; Kennedy, M.; Isoherranen, N.; Kim, L. M.; Comess, K. M.; Kempf, D. J.; Verlinde, C. L. M. J.; Su, X.-z.; Kappe, S. H. I.; Maly, D. J.; Fan, E.; Van Voorhis, W. C. "A Specific Inhibitor of PfCDPK4 Blocks Malaria Transmission: Chemical-genetic Validation" J. Infect. Dis. 2014, 209, 275-284. (DOI: 10.1093/infdis/jit522)

Golkowski, M.; Brigham, J. L.; Perera, B. G. K.; Romano, G. S.; ^Maly, D. J.; ^Ong, S. E. "Rapid profiling of protein kinase inhibitors by quantitative proteomics" MedChemComm. 2014, 5, 363-369. (DOI: 10.1039/C3MD00315A)


Hari, S. B.; Perera, B. G. K.; Ranjitkar, P.; Seeliger, M. A.; Maly, D. J. "Conformation-Selective Inhibitors Reveal Differences in the Activation and Phosphate-Binding Loops of the Tyrosine Kinases Abl and Src" ACS Chem. Biol. 2013, 8, 2734-2743. (DOI: 10.1021/cb400663k)


Castellanos-Gonzalez, A.; White, A. C.; Ojo, K. K.; Vidadala, R. S. R.; Zhang, Z.; Reid, M. C.; Fox, A. M. W.; Keyloun, K. R.; Rivas, K.; Irani, A.; Dann, S. M.; Fan, E.; Maly, D. J.; Van Voorhis, W. C. "A Novel Calcium-Dependent Protein Kinase Inhibitor as a Lead Compound for Treating Cryptosporidiosis" J. Infect. Dis. 2013, 208, 1342-1348. (DOI: 10.1093/infdis/jit327)

Hari, S. B.; Merritt, E. A.; Maly, D. J. "Sequence Determinants of a Specific Inactive Protein Kinase Conformation" Chem. Biol. 2013, 20, 806-815. (DOI: 10.1016/j.chembiol.2013.05.005)


Brigham, J. L.; Perera, B. G. K.; Maly, D. J. "A hexylchloride-based catch-and-release system for chemical proteomic applications" ACS Chem. Biol. 2013, 8, 691-699. (DOI: 10.1021/cb300623a)


Andrews, S. S.; Hill, Z. B.; Perera, B. G. K.; Maly, D. J. "Label Transfer Reagents to Probe p38 MAPK Binding Partners" ChemBioChem 2013, 14, 209-216. (DOI: 10.1002/cbic.201200673)


Ranjitkar, P.; Perera, B. G. K.; Swaney, D.; Hari, S. B.; Larson, E. T.; Krishnamurty, R.; Merritt, E. A.; Villén, J.; Maly, D. J. "Affinity-Based Probes Based on Type II Kinase Inhibitors" J. Am. Chem. Soc. 2012, 134, 19017-19025. (DOI: 10.1021/ja306035v)


Wang, L.; Perera, B. G. K.; Hari, S. B.; Bhhatarai, B.; Backes, B. J.; Seeliger, M. A.; Schürer, S. C.; Oakes, S. A.; ^Papa, F. A.; ^Maly, D. J. "Divergent allosteric control of the IRE1α endoribonuclease using kinase inhibitors." Nat. Chem. Biol. 2012, 8, 982-989. (DOI: 10.1038/nchembio.1094)


Krishnamurty, R.; Brigham, J. L.; Leonard, S. E.; Ranjitkar, P.; Dale, E. J.; Larson, E. T.; Merritt, E. A.; Maly, D. J. "Active site profiling reveals coupling between domains in SRC-family kinases" Nat. Chem. Biol. 2013, 9, 43-50. (DOI: 10.1038/NChemBio.1118)


Zhang, Z.; Ojo, K. K.; Johnson, S. M.; Larson, E. T.; He, P.; Geiger, J. A.; Castellanos-Gonzalez, A.; White, C. A.; Parsons, M.; Merritt, E. A.; Maly, D. J.; Verlinde, C. L. M. J.; Van Voorhis, W. C.; Fan, E. "Benzoylbenzimidazole-based selective inhibitors targeting Cryptosporidium parvum and Toxoplasma gondii calcium-dependent protein kinase-1" Bioorg. Med. Chem. Lett. 2012, 5264-5267.(DOI: 10.1016/j.bmcl.2012.06.050)


Larson, E. T.; Ojo, K. K.; Murphy, R. C.; Johnson, S. M.; Zhang, Z.; Kim, J. E.; Leibly, D. J.; Fox, A. M. W.; Reid, M. C.; Dale, E. J.; Perera, B. G. K.; Kim, J.; Hewitt, S. N.; Hol, W. G. J.; Verlinde, C. M. J.; Fan, E.; ^Van Voorhis, W. C.; ^Maly, D. J.; ^Merritt, E. A. "Multiple determinants for selective inhibition of apicomplexan calcium-dependent protein kinase CDPK1." J. Med. Chem. 2012, 2803-2810. (DOI: 10.1021/jm201725v)


Johnson, S. M.; Murphy, R. C.; Geiger, J. A.; DeRocher, A. E.; Zhang, Z.; Ojo, K. K.; Larson, E. T.; Perera, B. G. K.; Dale, E. J.; He, P.; Reid, M. C.; Fox, A. M. W.; Mueller, N. R.; Merritt, E. A.; Fan, E.; Parsons, M.; ^Van Voorhis, W. C.; ^Maly, D. J. "Development of Toxoplasma gondii Calcium-Dependent Protein Kinase 1 (TgCDPK1) Inhibitors with Potent Anti-Toxoplasma Activity." J. Med. Chem. 2012, 55, 2416-2426. (DOI: 10.1021/jm201713h)


Ojo, K. K.; Pfander, C.; Mueller, N. R.; Burstroem, C.; Larson, E. T.; Bryan, C. M.; Fox, A. M. W.; Reid, M. C.; Johnson, S. M.; Murphy, R. C.; Kennedy, M.; Mann, H.; Leibly, D. J.; Hewitt, S. N.; Verlinde, C. M. J.; Kappe, S.; Merritt, E. A.; ^Maly, D. J.; ^Billker, O.; ^Van Voorhis, W. C. "Transmission blocking compound BKI-1 prevents malaria infection of mosquitoes." J. Clin. Invest. 2012, 2301-2305. (DOI: 10.1172/JCI61822)


Hill, Z. B.; Perera, B. G. K.; Andrews, S.; Maly, D. J. "Targeting Diverse Signaling Interaction Sites Allows the Rapid Generation of Bivalent Kinase Inhibitors." ACS Chem. Biol. 2012, 7, 487-495. (DOI: 10.1021/cb200387g)


Hari, S. B.; Ranjitkar, P.; Maly, D. J. "Determination of the kinetics and thermodynamics of ligand binding to a specific inactive conformation in protein kinases." Methods Mol. Biol. 2012, 928, 153-159.(DOI: 10.1007/978-1-62703-008-3_12)


Ranjitkar, P.; Maly, D. J. "Affinity purification of protein kinases that adopt a specific inactive conformation." Methods Mol. Biol. 2012, 928, 143-151.(DOI: 10.1007/978-1-62703-008-3_11)


Goreshnik, I; Brock, A. M.; Maly, D. J. "Biochemical and pharmacological profiling of the pro-survival protein Bcl-xL." Bioorg. Med. Chem. Lett. 2011, 21, 4951-4955.(DOI: 10.1016/j.bmcl.2011.06.134)


Hill, Z. B.; Perera, B. G. K.; Maly, D. J. "Bivalent inhibitors of the tyrosine kinases ABL and SRC: Molecular determinants of potency and selectivity." Mol. BioSyst. 2011, 7, 447-456. (DOI: 10.1039/c0mb00108b)


Krishnamurty, R.; Brock, A. M.; Maly, D. J. "5-AminoIndazoles as general affinity reagents for protein kinases." Bioorg. Med. Chem. Lett. 2011, 21, 550-554. (DOI: 10.1016/j.bmcl.2010.10.069)


Murphy, R. C.; Ojo, K. K.; Larson, E. T.; Castellanos-Gonzalez, A.; Perera, B. G. K.; Keyloun, K. R.; Kim, J. E.; Bhandari, J. G.; Muller, N. R.; Verlinde, C. L. M. J.; White, C. A.; Merritt, E. A.; ^Van Voorhis, W. C.; ^Maly, D. J. "Discovery of Potent and Selective Inhibitors of Calcium-Dependent Protein Kinase 1 (CDPK1) from C. parvum and T. gondii." ACS Med. Chem. Lett. 2010, 1, 331-335. (DOI: 10.1021/ml100096t)


Ojo, K. K.; Larson, E. T.; Keyloun, K. R.; Castaneda, L. J.; DeRocher, A. E.; Inampudi, K. K.; Kim, J. E.; Arakaki, T.; Murphy, R. C.; Zhang, L.; Napuli, A. J.; Maly, D. J.; Verlinde, C. L. M. J.; Buckner, F. S.; Parsons, M.; Hol, W. G. J.; Merritt, E. A.; Van Voorhis W. C. "Toxoplasma gondii calcium-dependent protein kinase 1 is a target for selective kinase inhibitors." Nat. Struct. Mol. Biol. 2010, 17, 602-607. (DOI: 10.1038/nsmb.1818)


Gregersen, K. A. D.; Hill, Z. B.; Gadd, J. C.; Fujimoto, B.; Maly, D. J.; Chiu, D. T. "Intracellular Delivery of Bioactive Molecules Using Light-Addressable Nanocapsules." ACS Nano 2010, 4, 7603-7611. (DOI: 10.1021/nn102345f)


Goreshnik, I.; Maly, D. J. "A Small Molecule-Regulated Guanine Nucleotide Exchange Factor" J. Am. Chem. Soc. 2010, 132, 938. (DOI: 10.1021/ja907886v)


Krishnamurty, R.; Maly, D. J. "Biochemical Mechanisms of Resistance to Small-Molecule Protein Kinase Inhibitors" ACS Chem. Biol. 2010, 5, 121. (DOI: 10.1021/cb9002656)


Ranjitkar, P.; Brock, A. M.; Maly, D. J. "Affinity Probes that Target a Specific Inactive Conformation of Protein Kinases" Chem. Biol. 2010, 17, 195. (DOI: 10.1016/j.chembiol.2010.01.008)


Blacken, G. R.; Volný, M.; Diener, M.; Jackson, K. E.; Ranjitkar, P.; Maly, D. J.; Tureček, F. "Reactive Landing of Gas-Phase Ions as a Tool for the Fabrication of Metal Oxide Surfaces for In Situ Phosphopeptide Enrichment" J. Am. Soc. Mass Spectrom. 2009, 915. (DOI: 10.1016/j.jasms.2009.01.006)


Hill, Z. B.; Perera, B. G. K.; Maly, D. J. "A Chemical Genetic Method for Generating Bivalent Inhibitors of Protein Kinases." J. Am. Chem. Soc. 2009, 131, 6686. (DOI: 10.1021/ja900871y)


Seeliger, M. A.; Ranjitkar, P.; Kasap. C.; Shan, Y.; Shaw, D. E.; Shah, N. E.; Kuriyan, J.; Maly, D. J. "Equally Potent Inhibition of c-Src and Abl by Compounds that Recognize Inactive Kinase Conformations" Cancer Res. 2009, 69, 2384. (DOI: 10.1158/0008-5472.CAN-08-3953)


Perera, G.; Maly, D. J. "Design, Synthesis and Characterization of "Clickable" 4-Anilinoquinazoline Kinase Inhibitors" Mol. BioSyst. 2008, 4, 542. (DOI: 10.1039/b720014e)


Statsuk, A. V.; Maly, D. J.; Seeliger, M. A.; Fabian, M. A.; Biggs, W. H.; Lockhart, D. J.; Zarrinkar, P. P.; Kuriyan, J.; Shokat, K. M. "Tuning a Three-Component Reaction For Trapping Kinase Substrate Complexes." J. Am. Chem. Soc. 2008, 130, 17568. (DOI: 10.1021/ja807066f)


Maly, D.J. "Exploring the Intermembrane Space." ACS Chem. Biol. 2007, 2, 213.

Krishnamurty, R.; Maly, D. J. "Chemical Genomic and Proteomic Methods for Determining Kinase Inhibitor Selectivity" Comb. Chem. High Throughput Screening 2007, 10, 652.

Gosalia, D. N.; Salisbury, C. M.; Maly D. J.; Ellman, J. A.; Diamond, S. L. "Profiling Serine Protease Substrate Specificity with Solution Phase Fluorogenic Peptide Microarrays" Proteomics 2005, 5, 1292.

Maly, D. J.; Allen, J. A.; Shokat, K. M. "A Mechanism-Based Cross-Linker for the Identification of Kinase-Substrate Pairs" J. Am. Chem. Soc. 2004, 126, 9160.

Maly, D. J.; Huang, L.; Ellman, J. A. "Combinatorial Strategies for Targeting Protein Families. Application to the Proteases" ChemBioChem 2002, 3, 16.

Kehoe, J. W.; Maly, D. J.; Verdugo, D. E.; Armstrong, J. I.; Cook, B. N.; Moore, K. L.; Ellman, J. A.; Bertozzi, C. R. "Tyrosyl Protein Sulfotransferase Inhibitors Generated by Combinatorial Target-Guided Ligand Assembly" Bioorg. Med. Chem. Lett. 2002, 12, 329.

Maly, D. J.; Leonetti, F.; Backes, B. J.; Dauber, D. S.; Harris, J. L.; Craik, C. S.; Ellman, J. A. "Expedient Solid-Phase Synthesis of Fluorogenic Protease Substrates Using the 7-Amino-4-Carbamoylmethylcoumarin (ACC) Fluorophore" J. Org. Chem. 2002, 67, 910.

Dauber, D. S.; Ziermann, R.; Parkin, N.; Maly, D. J.; Mahrus, S.; Harris, J. L.; Ellman, J. A.; Petropoulos, C.; Craik, C. S. "Altered Substrate Specificity of Drug-Resistant HIV-1 Protease" J. Virol. 2002, 76, 1359.

Salisbury, C. M.; Maly, D. J.; Ellman, J. A. "Peptide Microarrays for the Determination of Protease Substrate Specificity" J. Am. Chem. Soc. 2002, 124, 14868.

Maly, D. J.; Choong, I. C.; Ellman, J. A. "Combinatorial Target-Guided Ligand Assembly: Identification of Potent Subtype-Selective c-Src Inhibitors" Proc. Natl. Acad. Sci. USA 2000, 97, 2419.

Mann, D. A.; Kanai, M.; Maly, D. J.; Kiessling, L. L. "Probing Low Affinity and Multivalent Interactions with Surface Plasmon Resonance: Ligands for Concanavalin A" J. Am. Chem. Soc. 1998, 120, 10575.