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ATKINS LAB PUBLICATIONS
Recent Cytochrome P450-related Papers
Lockart MM, Rodriguez CA, Atkins WM, Bowman MK. "CW EPR Parameters Reveal Cytochrome P450 Ligand Binding Modes." J Inorg Biochem (2018). (PubMed link)
McClary WD, Sumida JP, Scian M, Paço L, Atkins WM. "Membrane Fluidity Modulates Thermal Stability and Ligand Binding of Cytochrome P4503A4 in Lipid Nanodiscs." Biochemistry (2016).
(PubMed link)
Treuheit NA, Redhair M, Kwon H, McClary WD, Guttman M, Sumids JP, Atkins, WM "Membrane Interactions, Ligand-Dependent Dynamics and Stability of Cytochrome P4503A4 in Lipid Nanodiscs." Biochemistry (2016). (PubMed link)
Conner KP, Cruce AA, Krzyaniak MD, Schimpf AM, Frank DJ, Ortiz de Montellano P, Atkins WM, Bowman MK. "Drug Modulation of Water-Heme Interactions in Low-Spin P450 Complexes of CYP2C9d and CYP125A1." Biochemistry ( 2015). (PubMed link)
Conner KP, Schimpf AM, Cruce AA, McLean KJ, Munro AW, Frank DJ, Krzyaniak MD, Ortiz de Montellano P, Bowman MK, Atkins WM. "Strength of Axial Water Ligation in Substrate-Free Cytochrome P450s is Isoform Dependent."Biochemistry. (2014). (PubMed link)
Honaker MT, Acchione M, Zhang W, Mannervik B, Atkins WM. "Enzymatic Detoxication, Conformational Selection, and the Role of Molten Globule Active Sites." J Biol Chem. (2013). (PubMed link)
Zhao C, Gao Q, Roberts AG, Shaffer SA, Doneanu CE, Xue S, Goodlett DR, Nelson SD, Atkins WM. "Cross-linking mass spectrometry and mutagenesis confirm the functional importance of surface interactions between CYP3A4 and holo/apo cytochrome b(5)." Biochemistry (2012). (PubMed link)
Conner KP, Vennam P, Woods CM, Krzyaniak MD, Bowman MK, Atkins WM. "1,2,3-Triazole-heme interactions in cytochrome P450: functionally competent triazole-water-heme complexes."Biochemistry (2012). (PubMed link)
Atkins WM, Qian H.
"Stochastic Ensembles, Conformationally Adaptive Teamwork,
and Enzymatic Detoxification."
Biochemistry (New Concepts). Epub ahead of print (2011).
(PubMed link)
Foti RS, Honaker M, Nath A, Pearson JT, Buttrick B, Isoherranen N, Atkins WM.
"Catalytic Versus Inhibitory Promiscuity in Cytochrome P450s:
Implications for Evolution of New Function."
Biochemistry (New Concepts). 50:2387-2393 (2011).
(PubMed link)
Yang J, Atkins WM, Isoherranen N, Paine MF, Thummel KE.
"Evidence of CYP3A Allosterism in Vivo: Analysis of Interaction
Between Fluconazole and Midazolam."
Clin Pharmacol Ther. (2011).
(PubMed link)
Woods CM, Fernandez C, Kunze KL, Atkins Wm.
"Allosteric activation of cytochrome P450 3A4 by α-naphthoflavone:
branch point regulation revealed by isotope dilution analysis."
Biochemistry. 50(46):10041-51 (Nov 22 2011).
(PubMed link)
Conner KP, Woods CM, Atkins WM. "Interactions of Cytochrome P450s
With Their Ligands." Arch Biochem Biophys. 507(1):56-65 (2011).
(PubMed link)
Nath A, Zientek MA, Burke BJ, Jiang Y, Atkins WM. "Quantifying and Predicting the
Promiscuity and Isoform Specificity of Small-Molecule Cytochrome P450 Inhibitors."
Drug Metab Dispos. (2010).
(PubMed link)
Roberts AG, Cheesman MJ, Primak A, Bowman MK, Atkins WM, Rettie AE. "Intramolecular
Heme Ligation of the Cytochrome P450 2C9 R108H Mutant Demonstrates Pronounced
Conformational Flexibility of the B-C Loop Region: Implications for Substrate Binding."
Biochemistry (2010).
(PubMed link)
Nath A, Atkins, WM. "A quantitative index of substrate promiscuity."
Biochemistry 8:47(1):157-66 (2008).
(PDF)
Lampe JN, Fernandez C, Nath A, Atkins WM. "Nile Red is a fluorescent allosteric
substrate of cytochrome P4503A4." Biochemistry 47:509-16 (2008).
(PDF)
Nath A, Atkins WM. "Principal Component Analysis of CYP2C9 and CYP3A4 Probe
Substrate/Inhibitor Panels." Drug Metab Dispos. 36(11):2151-5 (2008).
(PDF)
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Recent Glutathione S-transferase-related Papers
Scian M, Guttman M, Bouldin SD, Outten CE, Atkins WM. " The Myeloablative Drug Busulfan Converts Cysteine to Dehyrdroalanine and Lanthionine in Redoxins." Biochemistry (2016).(PubMed link)
Scian M, Atkins WM. "Supporting Data for Charaterization of Busulfan Metabolite EdAG and the Glutaredoxins that it Adducts." Data Brief. (2015). (PubMed link)
Scian M, Atkins WM. "The Busulfan Metabolite EdAG Irreversibly Glutathionylates Glutaredoxins." Arch Biochem Biophys. (2015). (PubMed link)
Scian M, Le Trong I, Mazari AM, Mannervik, Atkins WM, Stenkamp RE. "Comparison of Epsilon- and Delta-class Glutathione S-transferases: The Crystal Structures of the Glutathione S-transferases DmGSTE6 and DmGSTE7 from Drosophila melanogaster." Acta Crystallogr D Biol Crystallogr. (2015).
(PubMed link)
Balogh LM, Atkins WM.
"Interactions of Glutathione Transferases with
4-hydroxynonenal."
Drug Metab Rev. 43(2):165-78 (2011).
(PubMed link)
Honaker MT, Acchione M, Sumida JP, Atkins WM.
"Ensemble Perspective for Catalytic Promiscuity: Calorimetric
Analysis of the Active Site Conformational Landscape of a
Detoxification Enzyme."
J Biol Chem. 286(49):42770-6 (Dec 9 2011).
(PubMed link)
Shireman LM, Kripps KA, Balogh LM, Conner KP, Whittington
D, Atkins WM. "Glutathione Transferase
A4–4 Resists Adduction by 4-Hydroxynonenal."
Arch Biochem Biophys. (2010).
(PubMed link)
Dabrowski MJ, Zolnerciks JK, Balogh LM, Greene RJ, Kavanagh TJ, Atkins WM.
"Stereoselective Effects of 4-Hydroxynonenal in
Cultured Mouse Hepatocytes." Chem Res Toxicol. (2010).
(PubMed link)
Balogh LM, Le Trong I, Kripps KA, Shireman LM, Stenkamp RE, Zhang W,
Mannervik B, Atkins WM.
"Substrate Specificity Combined with Stereopromiscuity
in Glutathione Transferase A4-4-Dependent Metabolism of 4-Hydroxynonenal."
Biochemistry Feb 23;49(7):1541-8 (2010).
(PubMed link)
Balogh LM, Le Trong I, Krips KA, Tars K, Stenkamp RE, Mannervik B, Atkins WM.
"Structural analysis of a glutathione transferase A1-1 mutant
tailored for high catalytic efficiency with toxic alkenals." Biochemistry
Aug 18;48(32):7698-704 (2009).
(PubMed link)
Balogh LM, Roberts A, Shireman LM, Greene RJ, Atkins WM. "The stereochemical course of
4-hydroxynonenal metabolism by glutathione s-transferases."
J Biol Chem. 283(24):16702-10 (2008).
(PDF)
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Recent P-Glycoprotein Papers
Li MJ, Guttman M, Atkins, WM. "Conformational Dynamics of P-glycoprotein in Lipid Nanodiscs and Detergent Micelles Reveal Complex Motions on a Wide Time Scale." J Biol Chem. (2018).
(PubMed link)
Li MJ, Nath A, Atkins WM. "Differential Coupling of Binding, ATP Hydrolysis, and Transport of Fluorescent Probes with P-Glycoprotein in Lipid Nanodiscs." Biochemistry (2017).
(PubMed link)
Scian M, Acchione M, Li M, Atkins WM. "Reaction dynamics of ATP hydrolysis catalyzed by P-glycoprotein."
Biochemistry. (2014). (PubMed link)
Ritchie TK, Kwon HW, Atkins WM.
"Conformational Analysis of ABCB1 Transporter in Lipid Nanodiscs
and the Mechanism of Inhibitory Antibodies."
J Biol Chem. (2011). (PubMed link)
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Recent Nanodisc Papers
Trahey M, Li MJ, Kwon H, Woodahl EL, McClary WD, Atkins WM. "Applications of Lipid Nanodiscs for the Study of Membrane Proteins by Surface Plasmon Resonance." Curr Protoc Protein Sci. 2015. (PubMed link)
Nath A, Trexler AJ, Koo P, Miranker AD, Atkins WM, Rhoades E. "Single-molecule
Fluorescence Spectroscopy Using Phospholipid Bilayer Nanodiscs."
Methods Enzymol. 472:89-117 (2010).
(PubMed link)
Ritchie TK, Grinkova YV, Bayburt TH, Denisov IG, Zolnerciks JK, Atkins WM, Sligar SG.
"Chapter 11 - Reconstitution of Membrane Proteins in Phospholipid
Bilayer Nanodiscs." Methods Enzymol. 464:211-31 (2009).
(PDF)
(PubMed link)
Nath A, Koo PK, Rhoades E, Atkins WM. "Allosteric Effects on Substrate Dissociation
from Cytochrome P450 3A4 in Nanodiscs Observed by Ensemble and Single-
Molecule Fluorescence Spectroscopy." J Am Chem Soc. (2008).
(PDF)
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Recent Antibody Papers
Goulet DR, Watson MJ, Tam SH, Zwolak A, Chiu ML, Atkins WM, Nath A. "Towards a Combinatorial Approach for the Prediction of Immunoglobulin G Half-Life and Clearance." Drug Metab Dispos. (2018). (PubMed link)
Goulet DR, Orcutt SJ, Zwolak A, Rispens T, Labrijn AF, de Jong RN, Atkins WM, Chiu ML. "Kinetic Mechanism of Controlled Fab-arm Exchange for the Formation of Bispecific Immunoglobulin G1 Antibodies." J Biol Chem. (2018). (PubMed link)
Goulet DR, Zwolak A Chiu ML Nath A, Atkins WM. "Diffusion of Soluble Aggregates of THIOMABs and Bispecific Antibodies in Serum." Biochemistry (2017). (PubMed link)
Acchione M, Kwon H, Jochheim CM, Atkins WM. "Impact of linker and conjugation chemistry on antigen binding, Fc receptor binding and thermal stability of model antibody-drug conjugates." MAbs (2012). (PubMed link)
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