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Toward a Combinatorial Approach for the Prediction of IgG Half-Life and Clearance.

Goulet DR, Watson MJ, Tam SH, Zwolak A, Chiu ML, Atkins WM, Nath A.

Drug Metab Dispos. 2018 Dec;46(12):1900-1907. doi: 10.1124/dmd.118.081893. Epub 2018 Sep 19.


CW EPR parameters reveal cytochrome P450 ligand binding modes.

Lockart MM, Rodriguez CA, Atkins WM, Bowman MK.

J Inorg Biochem. 2018 Jun;183:157-164. doi: 10.1016/j.jinorgbio.2018.02.021. Epub 2018 Feb 24.


Conformational dynamics of P-glycoprotein in lipid nanodiscs and detergent micelles reveal complex motions on a wide time scale.

Li MJ, Guttman M, Atkins WM.

J Biol Chem. 2018 Apr 27;293(17):6297-6307. doi: 10.1074/jbc.RA118.002190. Epub 2018 Mar 6.


Kinetic mechanism of controlled Fab-arm exchange for the formation of bispecific immunoglobulin G1 antibodies.

Goulet DR, Orcutt SJ, Zwolak A, Rispens T, Labrijn AF, de Jong RN, Atkins WM, Chiu ML.

J Biol Chem. 2018 Jan 12;293(2):651-661. doi: 10.1074/jbc.RA117.000303. Epub 2017 Nov 17.


Heme Binding Biguanides Target Cytochrome P450-Dependent Cancer Cell Mitochondria.

Guo Z, Sevrioukova IF, Denisov IG, Zhang X, Chiu TL, Thomas DG, Hanse EA, Cuellar RAD, Grinkova YV, Langenfeld VW, Swedien DS, Stamschror JD, Alvarez J, Luna F, Galván A, Bae YK, Wulfkuhle JD, Gallagher RI, Petricoin EF Rd, Norris B, Flory CM, Schumacher RJ, O'Sullivan MG, Cao Q, Chu H, Lipscomb JD, Atkins WM, Gupta K, Kelekar A, Blair IA, Capdevila JH, Falck JR, Sligar SG, Poulos TL, Georg GI, Ambrose E, Potter DA.

Cell Chem Biol. 2017 Oct 19;24(10):1314. doi: 10.1016/j.chembiol.2017.09.012. No abstract available.


Heme Binding Biguanides Target Cytochrome P450-Dependent Cancer Cell Mitochondria.

Guo Z, Sevrioukova IF, Denisov IG, Zhang X, Chiu TL, Thomas DG, Hanse EA, Cuellar RAD, Grinkova YV, Langenfeld VW, Swedien DS, Stamschror JD, Alvarez J, Luna F, Galván A, Bae YK, Wulfkuhle JD, Gallagher RI, Petricoin EF Rd, Norris B, Flory CM, Schumacher RJ, O'Sullivan MG, Cao Q, Chu H, Lipscomb JD, Atkins WM, Gupta K, Kelekar A, Blair IA, Capdevila JH, Falck JR, Sligar SG, Poulos TL, Georg GI, Ambrose E, Potter DA.

Cell Chem Biol. 2017 Oct 19;24(10):1259-1275.e6. doi: 10.1016/j.chembiol.2017.08.009. Epub 2017 Sep 14. Erratum in: Cell Chem Biol. 2017 Oct 19;24(10):1314.


Differential Coupling of Binding, ATP Hydrolysis, and Transport of Fluorescent Probes with P-Glycoprotein in Lipid Nanodiscs.

Li MJ, Nath A, Atkins WM.

Biochemistry. 2017 May 16;56(19):2506-2517. doi: 10.1021/acs.biochem.6b01245. Epub 2017 May 4.


Diffusion of Soluble Aggregates of THIOMABs and Bispecific Antibodies in Serum.

Goulet DR, Zwolak A, Chiu ML, Nath A, Atkins WM.

Biochemistry. 2017 May 2;56(17):2251-2260. doi: 10.1021/acs.biochem.6b01097. Epub 2017 Apr 14.


Membrane Fluidity Modulates Thermal Stability and Ligand Binding of Cytochrome P4503A4 in Lipid Nanodiscs.

McClary WD, Sumida JP, Scian M, Paço L, Atkins WM.

Biochemistry. 2016 Nov 15;55(45):6258-6268. Epub 2016 Nov 1.


The Myeloablative Drug Busulfan Converts Cysteine to Dehydroalanine and Lanthionine in Redoxins.

Scian M, Guttman M, Bouldin SD, Outten CE, Atkins WM.

Biochemistry. 2016 Aug 23;55(33):4720-30. doi: 10.1021/acs.biochem.6b00622. Epub 2016 Aug 11.


Membrane Interactions, Ligand-Dependent Dynamics, and Stability of Cytochrome P4503A4 in Lipid Nanodiscs.

Treuheit NA, Redhair M, Kwon H, McClary WD, Guttman M, Sumida JP, Atkins WM.

Biochemistry. 2016 Feb 23;55(7):1058-69. doi: 10.1021/acs.biochem.5b01313. Epub 2016 Feb 8.


Supporting data for characterization of the busulfan metabolite EdAG and the Glutaredoxins that it adducts.

Scian M, Atkins WM.

Data Brief. 2015 Sep 10;5:161-70. doi: 10.1016/j.dib.2015.09.002. eCollection 2015 Dec.


Comparison of epsilon- and delta-class glutathione S-transferases: the crystal structures of the glutathione S-transferases DmGSTE6 and DmGSTE7 from Drosophila melanogaster.

Scian M, Le Trong I, Mazari AM, Mannervik B, Atkins WM, Stenkamp RE.

Acta Crystallogr D Biol Crystallogr. 2015 Oct;71(Pt 10):2089-98. doi: 10.1107/S1399004715013929. Epub 2015 Sep 26.


Assembly and characterization of gp160-nanodiscs: A new platform for biochemical characterization of HIV envelope spikes.

Nakatani-Webster E, Hu SL, Atkins WM, Catalano CE.

J Virol Methods. 2015 Dec 15;226:15-24. doi: 10.1016/j.jviromet.2015.09.011. Epub 2015 Sep 28.


The busulfan metabolite EdAG irreversibly glutathionylates glutaredoxins.

Scian M, Atkins WM.

Arch Biochem Biophys. 2015 Oct 1;583:96-104. doi: 10.1016/ Epub 2015 Aug 14.


Applications of Lipid Nanodiscs for the Study of Membrane Proteins by Surface Plasmon Resonance.

Trahey M, Li MJ, Kwon H, Woodahl EL, McClary WD, Atkins WM.

Curr Protoc Protein Sci. 2015 Aug 3;81:29.13.1-16. doi: 10.1002/0471140864.ps2913s81.


Drug modulation of water-heme interactions in low-spin P450 complexes of CYP2C9d and CYP125A1.

Conner KP, Cruce AA, Krzyaniak MD, Schimpf AM, Frank DJ, Ortiz de Montellano P, Atkins WM, Bowman MK.

Biochemistry. 2015 Feb 10;54(5):1198-207. doi: 10.1021/bi501402k. Epub 2015 Jan 29.


Biological messiness vs. biological genius: Mechanistic aspects and roles of protein promiscuity.

Atkins WM.

J Steroid Biochem Mol Biol. 2015 Jul;151:3-11. doi: 10.1016/j.jsbmb.2014.09.010. Epub 2014 Sep 12. Review.


Strength of axial water ligation in substrate-free cytochrome P450s is isoform dependent.

Conner KP, Schimpf AM, Cruce AA, McLean KJ, Munro AW, Frank DJ, Krzyaniak MD, Ortiz de Montellano P, Bowman MK, Atkins WM.

Biochemistry. 2014 Mar 11;53(9):1428-34. doi: 10.1021/bi401547j. Epub 2014 Feb 27.


Reaction dynamics of ATP hydrolysis catalyzed by P-glycoprotein.

Scian M, Acchione M, Li M, Atkins WM.

Biochemistry. 2014 Feb 18;53(6):991-1000. doi: 10.1021/bi401280v. Epub 2014 Feb 7.


Enzymatic detoxication, conformational selection, and the role of molten globule active sites.

Honaker MT, Acchione M, Zhang W, Mannervik B, Atkins WM.

J Biol Chem. 2013 Jun 21;288(25):18599-611. doi: 10.1074/jbc.M112.445767. Epub 2013 May 6.


Cross-linking mass spectrometry and mutagenesis confirm the functional importance of surface interactions between CYP3A4 and holo/apo cytochrome b(5).

Zhao C, Gao Q, Roberts AG, Shaffer SA, Doneanu CE, Xue S, Goodlett DR, Nelson SD, Atkins WM.

Biochemistry. 2012 Nov 27;51(47):9488-500. doi: 10.1021/bi301069r. Epub 2012 Nov 14.


1,2,3-Triazole-heme interactions in cytochrome P450: functionally competent triazole-water-heme complexes.

Conner KP, Vennam P, Woods CM, Krzyaniak MD, Bowman MK, Atkins WM.

Biochemistry. 2012 Aug 14;51(32):6441-57. Epub 2012 Jul 31.


Impact of linker and conjugation chemistry on antigen binding, Fc receptor binding and thermal stability of model antibody-drug conjugates.

Acchione M, Kwon H, Jochheim CM, Atkins WM.

MAbs. 2012 May-Jun;4(3):362-72. doi: 10.4161/mabs.19449. Epub 2012 Apr 26.


Kinetic mechanism of fuculose-1-phosphate aldolase from the hyperthermophilic archaeon Methanococcus jannaschii.

Park HC, Park JS, Choi JD, Dabrowski M, Atkins WM, Yoon MY.

Enzyme Microb Technol. 2012 Apr 5;50(4-5):209-14. doi: 10.1016/j.enzmictec.2012.01.001. Epub 2012 Jan 17.


Evidence of CYP3A allosterism in vivo: analysis of interaction between fluconazole and midazolam.

Yang J, Atkins WM, Isoherranen N, Paine MF, Thummel KE.

Clin Pharmacol Ther. 2012 Mar;91(3):442-9. doi: 10.1038/clpt.2011.178. Epub 2011 Nov 2.


Allosteric activation of cytochrome P450 3A4 by α-naphthoflavone: branch point regulation revealed by isotope dilution analysis.

Woods CM, Fernandez C, Kunze KL, Atkins WM.

Biochemistry. 2011 Nov 22;50(46):10041-51. doi: 10.1021/bi2013454. Epub 2011 Oct 28.


Ensemble perspective for catalytic promiscuity: calorimetric analysis of the active site conformational landscape of a detoxification enzyme.

Honaker MT, Acchione M, Sumida JP, Atkins WM.

J Biol Chem. 2011 Dec 9;286(49):42770-6. doi: 10.1074/jbc.M111.304386. Epub 2011 Oct 14.


The structural basis for homotropic and heterotropic cooperativity of midazolam metabolism by human cytochrome P450 3A4.

Roberts AG, Yang J, Halpert JR, Nelson SD, Thummel KT, Atkins WM.

Biochemistry. 2011 Dec 20;50(50):10804-18. doi: 10.1021/bi200924t. Epub 2011 Nov 22. Erratum in: Biochemistry. 2012 Feb 14;51(6):1332.


Conformational analysis of human ATP-binding cassette transporter ABCB1 in lipid nanodiscs and inhibition by the antibodies MRK16 and UIC2.

Ritchie TK, Kwon H, Atkins WM.

J Biol Chem. 2011 Nov 11;286(45):39489-96. doi: 10.1074/jbc.M111.284554. Epub 2011 Sep 21.


Stochastic ensembles, conformationally adaptive teamwork, and enzymatic detoxification.

Atkins WM, Qian H.

Biochemistry. 2011 May 17;50(19):3866-72. doi: 10.1021/bi200275r. Epub 2011 Apr 20.


Interactions of glutathione transferases with 4-hydroxynonenal.

Balogh LM, Atkins WM.

Drug Metab Rev. 2011 May;43(2):165-78. doi: 10.3109/03602532.2011.558092. Epub 2011 Mar 14. Review.


Catalytic versus inhibitory promiscuity in cytochrome P450s: implications for evolution of new function.

Foti RS, Honaker M, Nath A, Pearson JT, Buttrick B, Isoherranen N, Atkins WM.

Biochemistry. 2011 Apr 5;50(13):2387-93. doi: 10.1021/bi1020716. Epub 2011 Mar 11.


Yeast-hybrid based high-throughput assay for identification of anthrax lethal factor inhibitors.

Kim J, Park HC, Gedi V, Park HY, Roberts AG, Atkins WM, Yoon MY.

Biochem Biophys Res Commun. 2011 Jan 7;404(1):517-22. doi: 10.1016/j.bbrc.2010.12.015. Epub 2010 Dec 6.


Interactions of cytochrome P450s with their ligands.

Conner KP, Woods CM, Atkins WM.

Arch Biochem Biophys. 2011 Mar 1;507(1):56-65. doi: 10.1016/ Epub 2010 Oct 19. Review.


Stereoselective effects of 4-hydroxynonenal in cultured mouse hepatocytes.

Dabrowski MJ, Zolnerciks JK, Balogh LM, Greene RJ, Kavanagh TJ, Atkins WM.

Chem Res Toxicol. 2010 Oct 18;23(10):1601-7. doi: 10.1021/tx100190k. Epub 2010 Sep 28.


Quantifying and predicting the promiscuity and isoform specificity of small-molecule cytochrome P450 inhibitors.

Nath A, Zientek MA, Burke BJ, Jiang Y, Atkins WM.

Drug Metab Dispos. 2010 Dec;38(12):2195-203. doi: 10.1124/dmd.110.034645. Epub 2010 Sep 14.


Glutathione transferase A4-4 resists adduction by 4-hydroxynonenal.

Shireman LM, Kripps KA, Balogh LM, Conner KP, Whittington D, Atkins WM.

Arch Biochem Biophys. 2010 Dec 15;504(2):182-9. doi: 10.1016/ Epub 2010 Sep 15.


Intramolecular heme ligation of the cytochrome P450 2C9 R108H mutant demonstrates pronounced conformational flexibility of the B-C loop region: implications for substrate binding.

Roberts AG, Cheesman MJ, Primak A, Bowman MK, Atkins WM, Rettie AE.

Biochemistry. 2010 Oct 12;49(40):8700-8. doi: 10.1021/bi100911q. Epub 2010 Sep 21.


Single-molecule fluorescence spectroscopy using phospholipid bilayer nanodiscs.

Nath A, Trexler AJ, Koo P, Miranker AD, Atkins WM, Rhoades E.

Methods Enzymol. 2010;472:89-117. doi: 10.1016/S0076-6879(10)72014-0.


Substrate specificity combined with stereopromiscuity in glutathione transferase A4-4-dependent metabolism of 4-hydroxynonenal.

Balogh LM, Le Trong I, Kripps KA, Shireman LM, Stenkamp RE, Zhang W, Mannervik B, Atkins WM.

Biochemistry. 2010 Feb 23;49(7):1541-8. doi: 10.1021/bi902038u.


Chapter 11 - Reconstitution of membrane proteins in phospholipid bilayer nanodiscs.

Ritchie TK, Grinkova YV, Bayburt TH, Denisov IG, Zolnerciks JK, Atkins WM, Sligar SG.

Methods Enzymol. 2009;464:211-31. doi: 10.1016/S0076-6879(09)64011-8.


Structural analysis of a glutathione transferase A1-1 mutant tailored for high catalytic efficiency with toxic alkenals.

Balogh LM, Le Trong I, Kripps KA, Tars K, Stenkamp RE, Mannervik B, Atkins WM.

Biochemistry. 2009 Aug 18;48(32):7698-704. doi: 10.1021/bi900895b.


On the use of hydrogen/deuterium exchange mass spectrometry data to improve de novo protein structure prediction.

Malmstroem L, Hou L, Atkins WM, Goodlett DR.

Rapid Commun Mass Spectrom. 2009 Feb;23(3):459-61. doi: 10.1002/rcm.3882. No abstract available.


The stereochemical course of 4-hydroxy-2-nonenal metabolism by glutathione S-transferases.

Balogh LM, Roberts AG, Shireman LM, Greene RJ, Atkins WM.

J Biol Chem. 2008 Jun 13;283(24):16702-10. doi: 10.1074/jbc.M801725200. Epub 2008 Apr 17.


Spectral resolution of a second binding site for Nile Red on cytochrome P4503A4.

Nath A, Fernández C, Lampe JN, Atkins WM.

Arch Biochem Biophys. 2008 Jun 1;474(1):198-204. doi: 10.1016/ Epub 2008 Mar 25.


Multiple-ligand binding in CYP2A6: probing mechanisms of cytochrome P450 cooperativity by assessing substrate dynamics.

Harrelson JP, Atkins WM, Nelson SD.

Biochemistry. 2008 Mar 4;47(9):2978-88. doi: 10.1021/bi702020y. Epub 2008 Feb 5.


Nile Red is a fluorescent allosteric substrate of cytochrome P450 3A4.

Lampe JN, Fernandez C, Nath A, Atkins WM.

Biochemistry. 2008 Jan 15;47(2):509-16. Epub 2007 Dec 20.


A quantitative index of substrate promiscuity.

Nath A, Atkins WM.

Biochemistry. 2008 Jan 8;47(1):157-66. Epub 2007 Dec 15.


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