A full list of publications can be found on PubMed


Selected Publications

Y. Zhao, P.R. Cushing, D.C. Smithson, M. Pellegrini, A.A. Pletnev, S. Al-Ayyoubi, A.V. Grassetti, S.A. Gerber, R.K. Guy, D.R. Madden (2018) Cysteine modifiers suggest an allosteric inhibitory site on the CAL PDZ domain . Biosci. Rep. 38, 4.

K.L. Hvorecny, E. Dolben, S. Moreau-Marquis, T.H. Hampton, T.B. Shabaneh, B.A. Flitter, C.D. Bahl, J.M. Bomberger, B.D. Levy, B.A. Stanton, D.A. Hogan, D.R. Madden (2018) An epoxide hydrolase secreted by Pseudomonas aeruginosa decreases mucociliary transport and hinders bacterial clearance from the lung. Am. J. Physiol. Lung Cell Mol. Physiol 314, L150-L156.

K.L. Hvorecny, C.D.Bahl, S. Kitamura, K.S.S. Lee, B.D. Hammock, C. Morisseau, D.R. Madden (2017) Active-Site Flexibility and Substrate Specificity in a Bacterial Virulence Factor: Crystallographic Snapshots of an Epoxide Hydrolase. Structure. 25, 697-707.

C.A. Bertrand, S. Mitra, S.K. Mishra, X. Wang, Y. Zhao, J.M. Pilewski, D.R. Madden, R.A. Frizzell (2017) The CFTR trafficking mutation F508del inhibits the constitutive activity of SLC26A9. Am. J. Physiol. Lung Cell Mol. Physiol. 36, 358-362.

C.D. Bahl, J.D. St. Laurent, R.S.G. Karthikeyan, J.L. Priya, L. Prajna, M.E. Zegans, D.R. Madden (2017) The cif Virulence Factor Gene Is Present in Isolates From Patients With Pseudomonas aeruginosa Keratitis.Cornea. 312, L912–L925.

B.A. Flitter, K.L. Hvorecny, E. Ono, T. Eddens, J. Yang, D.H. Kwak, C.D. Bahl, T.H. Hampton, C. Morisseau, B.D. Hammock, X. Liu, J.S. Lee, J.K. Kolls, B.D. Levy, D.R. Madden, J.M. Bomberger (2017) Pseudomonas aeruginosa sabotages the generation of host proresolving lipid mediators.PNAS. 114, 136-141.

S. Kitamura, K.L. Hvorecny, J. Niu, B.D. Hammock, D.R. Madden, C. Morisseau (2016) Rational Design of Potent and Selective Inhibitors of an Epoxide Hydrolase Virulence Factor from Pseudomonas aeruginosa.J. Med. Chem. 59, 4790-9.

C.D. Bahl, K.L. Hvorecny, C. Morisseau, S.A. Gerber, D.R. Madden (2016) Visualizing the Mechanism of Epoxide Hydrolysis by the Bacterial Virulence Enzyme Cif.Biochemistry. 55, 788-97.

C.D. Bahl, K.L. Hvorecny, J.M. Bomberger, B.A. Stanton, B.D. Hammock, C. Morisseau, D.R. Madden (2015) Inhibiting an Epoxide Hydrolase Virulence Factor from Pseudomonas aeruginosa Protects CFTR.Angew. Chem. Int. Ed. Engl. 54, 9881-5.

J.F. Amacher, F. Zhong, G.P. Lisi, M.Q. Zhu, S.L. Alden, K.R. Hoke, D.R. Madden, E.V. Pletneva (2015) A Compact Structure of Cytochrome c Trapped in a Lysine-Ligated State: Loop Refolding and Functional Implications of a Conformational Switch.J. Am. Chem. Soc. 137, 8457-49.

J.F. Amacher, R. Zhao, M.R. Spaller, D.R. Madden (2014) Chemically Modified Peptide Scaffolds Target the CFTR-Associated Ligand PDZ Domain.PLoS One. 19, e103650.

K. Koeppen, B.A. Coutermarsh, D.R. Madden, B.A. Stanton (2014) Serum- and Glucocorticoid-induced Protein Kinase 1 (SGK1) Increases the Cystic Fibrosis Transmembrane Conductance Regulator (CFTR) in Airway Epithelial Cells by Phosphorylating Shank2E Protein.J. Biol. Chem. 289, 17142-50.

C.D. Bahl, K.L. Hvorecny, A.A. Bridges, A.E. Ballok, J.M. Bomberger, K.C. Cady, G.A. O'Toole, D.R. Madden (2014) Signature motifs identify an Acinetobacter Cif virulence factor with epoxide hydrolase activity.J. Biol. Chem. 289, 7460-9.

J.F. Amacher, P.R. Cushing, L. Brooks, P. Boisguerin, D.R. Madden (2014) Stereochemical Preferences Modulate Affinity and Selectivity among Five PDZ Domains that Bind CFTR: Comparative Structural and Sequence Analyses.Structure. 22, 82-93.

J.F. Amacher, P.R. Cushing, C.D. Bahl, T. Beck, D.R. Madden (2013) Stereochemical determinants of C-terminal specificity in PDZ peptide-binding domains: a novel contribution of the carboxylate-binding loop.J. Biol. Chem. 288, 5114-26.

A.N. Kettenbach, T. Wang, B.K. Faherty, D.R. Madden, S. Knapp, C. Bailey-Kellogg, S.A. Gerber (2012) Rapid determination of multiple linear kinase substrate motifs by mass spectrometry. Chem Biol. 19, 608-618.

K.E. Roberts, P.R. Cushing, P. Boisguerin, D.R. Madden, B.R. Donald (2012) Computational Design of a PDZ Domain Peptide Inhibitor that Rescues CFTR Activity. PLoS Comput Biol. 8, e1002477.

K.M. Cihil,P. Ellinger, A. Fellows, D.B. Stolz, D.R. Madden, A. Swiatecka-Urban (2012) Disabled-2 Protein Facilitates Assembly Polypeptide-2-independent Recruitment of Cystic Fibrosis Transmembrane Conductance Regulator to Endocytic Vesicles in Polarized Human Airway Epithelial Cells. J Biol Chem. 287, 15087-15099.

C.R. Midgett, A. Gill, D.R. Madden (2012) Domain architecture of a calcium-permeable AMPA receptor in a ligand-free conformation. Front Mol Neurosci. 4, 56.

C.D. Bahl, D.R. Madden (2012) Pseudomonas aeruginosa Cif defines a distinct class of α/β epoxide hydrolases utilizing a His/Tyr ring-opening pair. Protein Pept Lett. 19, 186-193.

W. Park, C.R. Midgett, D.R. Madden, G.S. Chirikjian (2011) A Stochastic Kinematic Model of Class Averaging in Single-Particle Electron Microscopy. Int J Rob Res. 30, 730-754.

J.F. Amacher, P.R. Cushing, J.A. Weiner, D.R. Madden (2011) Crystallization and preliminary diffraction analysis of the CAL PDZ domain in complex with a selective peptide inhibitor. Acta Crystallogr. F67, 600-603.

A. Gill, T.C. Scanlon, D.C. Osipovitch, D.R. Madden, K.E. Griswold (2011) Crystal structure of a charge engineered human lysozyme having enhanced bactericidal activity. PLoS One. 6, e16788.

M.V. Navarro, P.D. Newell, P.V. Krasteva, D. Chatterjee, D.R. Madden, G.A. O'Toole, H. Sondermann (2011) Structural basis for c-di-GMP-mediated inside-out signaling controlling periplasmic proteolysis. PLoS Biol. 9, e1000588.

P.R. Cushing, L. Vouilleme, M. Pellegrini, P. Boisguerin, D.R. Madden (2010) A Stabilizing Influence: CAL PDZ Inhibition Extends the Half-Life of ΔF508-CFTR. Angew Chem Int Ed Engl. 49, 9907-9911.

L. Vouilleme, P.R. Cushing, R. Volkmer, D.R. Madden, P. Boisguerin (2010) Engineering Peptide inhibitors to overcome PDZ binding promiscuity. Angew Chem Int Ed Engl. 49, 9912-9916.

W. Park, D.R. Madden, D.N. Rockmore, G.S. Chirikjian (2010) Deblurring of Class-Averaged Images in Single-Particle Electron Microscopy. Inverse Probl. 26, 3500521-35005229.

C.D. Bahl, C. Morisseau, J.M. Bomberger, B.A. Stanton, B.D. Hammock, G.A. O'Toole, D.R. Madden (2010) Crystal structure of the cystic fibrosis transmembrane conductance regulator inhibitory factor Cif reveals novel active-site features of an epoxide hydrolase virulence factor. J Bacteriol. 192, 1785-1795.

A. Birdsey-Benson, A. Gill, L.P. Henderson, D.R. Madden (2010) Enhanced efficacy without further cleft closure: reevaluating twist as a source of agonist efficacy in AMPA receptors. J Neurosci. 30, 1463-1470.

C.D. Bahl, D.P. MacEachran, G.A. O'Toole, D.R. Madden. (2010) Purification, crystallization and preliminary X-ray diffraction analysis of Cif, a virulence factor secreted by Pseudomonas aeruginosa. Acta Crystallogr F66, 26-28.

N. Nayeem, Y. Zhang, D.K. Schweppe, D.R. Madden, T. Green (2009) A nondesensitizing kainate receptor point mutant. Mol Pharmacol. 76, 534-542.

A. Gill, A. Birdsey-Benson, B.L. Jones, L.P. Henderson, D.R. Madden (2008) Correlating AMPA receptor activation and cleft closure across subunits: crystal structures of the GluR4 ligand-binding domain in complex with full and partial agonists. Biochemistry, 47, 13831-13841.

A. Gill, D.R. Madden (2008) Purification and crystallization of a non-GluR2 AMPA-receptor ligand-binding domain: a case of cryo-incompatibility addressed by room-temperature data collection. Acta Crystallogr, F64, 831-835.

P.R. Cushing, A. Fellows, D. Villone, P. Boisguérin, D.R. Madden (2008) The relative binding affinities of PDZ partners for CFTR: a biochemical basis for efficient endocytic recycling. Biochemistry 47, 10084-10098.

C.R. Midgett, D.R. Madden (2008) The quaternary structure of a calcium-permeable AMPA receptor: conservation of shape and symmetry across functionally distinct subunit assemblies. J Mol Biol. 382, 578-584.

C.R. Midgett, D.R. Madden (2007) Breaking the bottleneck: eukaryotic membrane protein expression for high-resolution structural studies. J Struct. Biol., 160, 265-274.

D.R. Madden, M. Safferling (2007) Baculoviral expression of an integral membrane protein for structural studies. Methods Mol Biol. 363, 39-57.

M. Wolde, A. Fellows, J. Cheng, A. Kivenson, B. Coutermarsh, L. Talebian, K. Karlson, A. Piserchio, D.F. Mierke, B.A. Stanton, W.B. Guggino, D.R. Madden (2007) Targeting CAL as a negative regulator of ΔF508-CFTR cell-surface expression: an RNA interference and structure-based mutagenetic approach. J Biol Chem. 282, 8099-8109

D.R. Madden (2005) New light on an open-and-shut case. Nature Chem. Biol. 1, 317-319.

A. Piserchio, A. Fellows, D.R. Madden, and D.F. Mierke (2005) Association of the cystic fibrosis transmembrane conductance regulator with CAL: structural features and molecular dynamics. Biochemistry 44, 16158-16166.

J. Féthière, D. Venzke, D.R. Madden, and B. Böttcher (2005) Peripheral stator of the yeast V-ATPase: stoichiometry and specificity of interaction between the EG-complex and subunits C and H. Biochemistry 44, 15906-15914.

D.R. Madden, N. Armstrong, D. Svergun, J. Pérez and P. Vachette (2005) Solution X-ray scattering evidence for agonist- and antagonist-induced modulation of cleft closure in a glutamate receptor ligand-binding domain. J Biol Chem. 280, 23637-23642.

A. Gill and D.R. Madden (2005). Glutamate receptor ion channels: structural insights into molecular mechanisms. In The Structural Biology of Membrane Proteins (Buchanan, S, and Grisshammer, R, eds.), Cambridge, UK: Royal Society of Chemistry.

D.R. Madden, Q. Cheng, S. Thiran, S. Rajan, F. Rigo, K. Keinänen, S. Reinelt, H. Zimmermann and V. Jayaraman (2004) Stereochemistry of glutamate receptor agonist efficacy: engineering a dual-specificity AMPA/kainate receptor. Biochemistry 43, 15838-15844.

W. Tichelaar, M. Safferling, K. Keinänen, H. Stark and D.R. Madden (2004) The three-dimensional structure of an ionotropic glutamate receptor reveals a dimer-of-dimers assembly. J Mol Biol. 344, 435-442.

S. Reinelt, E. Hofmann, T. Gerharz, M. Bott and D.R. Madden (2003) The structure of the periplasmic ligand-binding domain of the sensor kinase CitA reveals the first extracellular PAS domain. J Biol Chem. 278, 39189-39196.

A. Pasternack, S.K. Coleman, J. Féthière, D.R. Madden, J.P. LeCaer, J. Rossier, M. Pasternack, K. Keinänen K. (2003) Characterization of the functional role of the N-glycans in the AMPA receptor ligand-binding domain. J Neurochem. 85, 1184-1192

D.R. Madden (2002) The inner workings of the AMPA receptors. Curr Opin Drug Discov Devel. 5, 741-748

D.R. Madden (2002) The structure and function of glutamate receptor ion channels. Nature Rev. Neurosci. 3, 91-101.

B. Klockow, W. Tichelaar, D.R. Madden, H.H. Niemann, T. Akiba, K. Hirose, D.J. Manstein (2002) The dynamin A ring complex: molecular organization and nucleotide-dependent conformational changes. EMBO J. 21, 240-250.

M. Safferling, W. Tichelaar, G. Kümmerle, A. Jouppila, A. Kuusinen, K. Keinänen and D.R. Madden (2001) First images of a glutamate receptor ion channel: oligomeric state and molecular dimensions of GluRB homomers. Biochemistry, 40, 13948-13953.

D.R. Madden, S. Thiran, H. Zimmermann, J. Romm and V. Jayaraman (2001) Stereochemistry of quinoxaline antagonist binding to a glutamate receptor investigated by Fourier transform infrared spectroscopy. J Biol Chem., 276, 37821-37826.

J. Féthière, A. Andersson, K. Keinänen and D.R. Madden (2000) Crystallization of an AMPA receptor binding domain without agonist: importance of carbohydrate content and crystal freezing conditions. Acta Cryst., D56, 1625-1629.

V. Jayaraman, R. Keesey, D.R. Madden (2000) Ligand--protein interactions in the glutamate receptor. Biochemistry, 39, 8693-8697.

V. Jayaraman, S. Thiran, D.R. Madden (2000) Fourier transform infrared spectroscopic characterization of a photolabile precursor of glutamate. FEBS Lett., 475, 278-282.

D.R. Madden, R. Abele, A. Andersson, K. Keinänen (2000) Large-scale expression and thermodynamic characterization of a glutamate receptor agonist-binding domain. Eur J Biochem., 267, 4281-4289.

R. Abele, K. Keinänen and D.R. Madden (2000) Agonist-induced isomerization in a glutamate receptor ligand-binding domain: a kinetic and mutagenetic analysis. J Biol Chem. 275, 21355-21363.

A. Kuusinen, R. Abele, D.R. Madden, K. Keinänen (1999) Oligomerization and ligand-binding properties of the ectodomain of the alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionic acid receptor subunit GluRD. J Biol Chem. 274, 28937-28943.

R. Abele, D. Svergun, K. Keinänen, M.H. Koch, D.R. Madden (1999) A molecular envelope of the ligand-binding domain of a glutamate receptor in the presence and absence of agonist. Biochemistry, 38, 10949-10957.

R. Abele, M. Lampinen, K. Keinänen, D.R. Madden, (1998) Disulfide bonding and cysteine accessibility in the alpha-amino-3-hydroxy-5-methylisoxazole-4-propionic acid receptor subunit GluRD. Implications for redox modulation of glutamate receptors. J Biol Chem. 273, 25132-25138.