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Items: 1 to 50 of 161

1.

Inverted Regulation of Multidrug Efflux Pumps, Acid Resistance and Porins in Benzoate-Evolved Escherichia coli K-12.

Moore JP, Li H, Engmann ML, Bischof KM, Kunka KS, Harris ME, Tancredi AC, Ditmars FS, Basting PJ, George NS, Bhagwat AA, Slonczewski JL.

Appl Environ Microbiol. 2019 Jun 7. pii: AEM.00966-19. doi: 10.1128/AEM.00966-19. [Epub ahead of print]

PMID:
31175192
2.

An Ontology for Facilitating Discussion of Catalytic Strategies of RNA-Cleaving Enzymes.

Bevilacqua PC, Harris ME, Piccirilli JA, Gaines C, Ganguly A, Kostenbader K, Ekesan Ş, York DM.

ACS Chem Biol. 2019 Jun 21;14(6):1068-1076. doi: 10.1021/acschembio.9b00202. Epub 2019 Jun 7.

PMID:
31095369
3.

Structure-guided design of anti-cancer ribonucleotide reductase inhibitors.

Misko TA, Liu YT, Harris ME, Oleinick NL, Pink J, Lee HY, Dealwis CG.

J Enzyme Inhib Med Chem. 2019 Dec;34(1):438-450. doi: 10.1080/14756366.2018.1545226.

5.

Evidence That Nucleophile Deprotonation Exceeds Bond Formation in the HDV Ribozyme Transition State.

Lu J, Koo SC, Weissman BP, Harris ME, Li NS, Piccirilli JA.

Biochemistry. 2018 Jun 26;57(25):3465-3472. doi: 10.1021/acs.biochem.8b00031. Epub 2018 May 17.

PMID:
29733591
6.

Structure-Guided Synthesis and Mechanistic Studies Reveal Sweetspots on Naphthyl Salicyl Hydrazone Scaffold as Non-Nucleosidic Competitive, Reversible Inhibitors of Human Ribonucleotide Reductase.

Huff SE, Mohammed FA, Yang M, Agrawal P, Pink J, Harris ME, Dealwis CG, Viswanathan R.

J Med Chem. 2018 Feb 8;61(3):666-680. doi: 10.1021/acs.jmedchem.7b00530. Epub 2018 Jan 5.

7.

Preface.

Harris ME, Anderson VE.

Methods Enzymol. 2017;596:xv-xviii. doi: 10.1016/S0076-6879(17)30303-8. No abstract available.

PMID:
28911786
8.

Kinetic Isotope Effect Analysis of RNA 2'-O-Transphosphorylation.

Harris ME, York DM, Piccirilli JA, Anderson VE.

Methods Enzymol. 2017;596:433-457. doi: 10.1016/bs.mie.2017.07.017. Epub 2017 Sep 5.

PMID:
28911780
9.

Phylogenetic sequence analysis and functional studies reveal compensatory amino acid substitutions in loop 2 of human ribonucleotide reductase.

Knappenberger AJ, Grandhi S, Sheth R, Ahmad MF, Viswanathan R, Harris ME.

J Biol Chem. 2017 Oct 6;292(40):16463-16476. doi: 10.1074/jbc.M117.798769. Epub 2017 Aug 14.

10.

Potent competitive inhibition of human ribonucleotide reductase by a nonnucleoside small molecule.

Ahmad MF, Alam I, Huff SE, Pink J, Flanagan SA, Shewach D, Misko TA, Oleinick NL, Harte WE, Viswanathan R, Harris ME, Dealwis CG.

Proc Natl Acad Sci U S A. 2017 Aug 1;114(31):8241-8246. doi: 10.1073/pnas.1620220114. Epub 2017 Jul 17.

11.

The contribution of the C5 protein subunit of Escherichia coli ribonuclease P to specificity for precursor tRNA is modulated by proximal 5' leader sequences.

Niland CN, Anderson DR, Jankowsky E, Harris ME.

RNA. 2017 Oct;23(10):1502-1511. doi: 10.1261/rna.056408.116. Epub 2017 Jul 10.

12.

Mapping specificity landscapes of RNA-protein interactions by high throughput sequencing.

Jankowsky E, Harris ME.

Methods. 2017 Apr 15;118-119:111-118. doi: 10.1016/j.ymeth.2017.03.002. Epub 2017 Mar 2.

13.

Rules of RNA specificity of hnRNP A1 revealed by global and quantitative analysis of its affinity distribution.

Jain N, Lin HC, Morgan CE, Harris ME, Tolbert BS.

Proc Natl Acad Sci U S A. 2017 Feb 28;114(9):2206-2211. doi: 10.1073/pnas.1616371114. Epub 2017 Feb 13.

14.

A Two-Metal-Ion-Mediated Conformational Switching Pathway for HDV Ribozyme Activation.

Lee TS, Radak BK, Harris ME, York DM.

ACS Catal. 2016;6(3):1853-1869. Epub 2016 Feb 1.

15.

Inhibition of soluble guanylyl cyclase by small molecules targeting the catalytic domain.

Vijayaraghavan J, Kramp K, Harris ME, van den Akker F.

FEBS Lett. 2016 Oct;590(20):3669-3680. doi: 10.1002/1873-3468.12427. Epub 2016 Oct 4.

16.

Analysis of the RNA Binding Specificity Landscape of C5 Protein Reveals Structure and Sequence Preferences that Direct RNase P Specificity.

Lin HC, Zhao J, Niland CN, Tran B, Jankowsky E, Harris ME.

Cell Chem Biol. 2016 Oct 20;23(10):1271-1281. doi: 10.1016/j.chembiol.2016.09.002. Epub 2016 Sep 29.

17.

Nucleoside Analogue Triphosphates Allosterically Regulate Human Ribonucleotide Reductase and Identify Chemical Determinants That Drive Substrate Specificity.

Knappenberger AJ, Ahmad MF, Viswanathan R, Dealwis CG, Harris ME.

Biochemistry. 2016 Oct 18;55(41):5884-5896. doi: 10.1021/acs.biochem.6b00594. Epub 2016 Oct 3.

PMID:
27634056
18.

Determination of the Specificity Landscape for Ribonuclease P Processing of Precursor tRNA 5' Leader Sequences.

Niland CN, Zhao J, Lin HC, Anderson DR, Jankowsky E, Harris ME.

ACS Chem Biol. 2016 Aug 19;11(8):2285-92. doi: 10.1021/acschembio.6b00275. Epub 2016 Jun 23.

PMID:
27336323
19.

Optimization of high-throughput sequencing kinetics for determining enzymatic rate constants of thousands of RNA substrates.

Niland CN, Jankowsky E, Harris ME.

Anal Biochem. 2016 Oct 1;510:1-10. doi: 10.1016/j.ab.2016.06.004. Epub 2016 Jun 11.

20.

POT1-TPP1 Binding and Unfolding of Telomere DNA Discriminates against Structural Polymorphism.

Mullins MR, Rajavel M, Hernandez-Sanchez W, de la Fuente M, Biendarra SM, Harris ME, Taylor DJ.

J Mol Biol. 2016 Jul 3;428(13):2695-708. doi: 10.1016/j.jmb.2016.04.031. Epub 2016 May 10.

21.

Inhibition of yeast ribonucleotide reductase by Sml1 depends on the allosteric state of the enzyme.

Misko TA, Wijerathna SR, Radivoyevitch T, Berdis AJ, Ahmad MF, Harris ME, Dealwis CG.

FEBS Lett. 2016 Jun;590(12):1704-12. doi: 10.1002/1873-3468.12207. Epub 2016 May 27.

22.

Opioid use and walking among patients with chronic low back pain.

Krein SL, Bohnert A, Kim HM, Harris ME, Richardson CR.

J Rehabil Res Dev. 2016;53(1):107-16. doi: 10.1682/JRRD.2014.08.0190.

23.

Isotope effect analyses provide evidence for an altered transition state for RNA 2'-O-transphosphorylation catalyzed by Zn(2+).

Zhang S, Gu H, Chen H, Strong E, Ollie EW, Kellerman D, Liang D, Miyagi M, Anderson VE, Piccirilli JA, York DM, Harris ME.

Chem Commun (Camb). 2016 Mar 25;52(24):4462-5. doi: 10.1039/c5cc10212j.

24.

Theme and Variation in tRNA 5' End Processing Enzymes: Comparative Analysis of Protein versus Ribonucleoprotein RNase P.

Harris ME.

J Mol Biol. 2016 Jan 16;428(1):5-9. doi: 10.1016/j.jmb.2015.12.001. Epub 2015 Dec 3. No abstract available.

PMID:
26655024
25.

Identification of Non-nucleoside Human Ribonucleotide Reductase Modulators.

Ahmad MF, Huff SE, Pink J, Alam I, Zhang A, Perry K, Harris ME, Misko T, Porwal SK, Oleinick NL, Miyagi M, Viswanathan R, Dealwis CG.

J Med Chem. 2015 Dec 24;58(24):9498-509. doi: 10.1021/acs.jmedchem.5b00929. Epub 2015 Dec 9.

26.

Enzyme transition states from theory and experiment.

Harris ME, Piccirilli JA, York DM.

Biochim Biophys Acta. 2015 Nov;1854(11):1727-8. doi: 10.1016/j.bbapap.2015.08.006. Epub 2015 Aug 22. No abstract available.

PMID:
26302659
27.

Specificity and nonspecificity in RNA-protein interactions.

Jankowsky E, Harris ME.

Nat Rev Mol Cell Biol. 2015 Sep;16(9):533-44. doi: 10.1038/nrm4032. Epub 2015 Aug 19. Review.

28.

Assessment of metal-assisted nucleophile activation in the hepatitis delta virus ribozyme from molecular simulation and 3D-RISM.

Radak BK, Lee TS, Harris ME, York DM.

RNA. 2015 Sep;21(9):1566-77. doi: 10.1261/rna.051466.115. Epub 2015 Jul 13.

29.

Transition State Features in the Hepatitis Delta Virus Ribozyme Reaction Revealed by Atomic Perturbations.

Koo SC, Lu J, Li NS, Leung E, Das SR, Harris ME, Piccirilli JA.

J Am Chem Soc. 2015 Jul 22;137(28):8973-82. doi: 10.1021/jacs.5b01189. Epub 2015 Jul 14.

30.

Determination of hepatitis delta virus ribozyme N(-1) nucleobase and functional group specificity using internal competition kinetics.

Kellerman DL, Simmons KS, Pedraza M, Piccirilli JA, York DM, Harris ME.

Anal Biochem. 2015 Aug 15;483:12-20. doi: 10.1016/j.ab.2015.04.024. Epub 2015 May 1.

31.

Integration of kinetic isotope effect analyses to elucidate ribonuclease mechanism.

Harris ME, Piccirilli JA, York DM.

Biochim Biophys Acta. 2015 Nov;1854(11):1801-8. doi: 10.1016/j.bbapap.2015.04.022. Epub 2015 Apr 30. Review.

32.

Exploring the Role of Residue 228 in Substrate and Inhibitor Recognition by VIM Metallo-β-lactamases.

Mojica MF, Mahler SG, Bethel CR, Taracila MA, Kosmopoulou M, Papp-Wallace KM, Llarrull LI, Wilson BM, Marshall SH, Wallace CJ, Villegas MV, Harris ME, Vila AJ, Spencer J, Bonomo RA.

Biochemistry. 2015 May 26;54(20):3183-96. doi: 10.1021/acs.biochem.5b00106. Epub 2015 May 12.

33.

Effect of Zn2+ binding and enzyme active site on the transition state for RNA 2'-O-transphosphorylation interpreted through kinetic isotope effects.

Chen H, Piccirilli JA, Harris ME, York DM.

Biochim Biophys Acta. 2015 Nov;1854(11):1795-800. doi: 10.1016/j.bbapap.2015.02.022. Epub 2015 Mar 23.

34.

Interpretation of pH-activity profiles for acid-base catalysis from molecular simulations.

Dissanayake T, Swails JM, Harris ME, Roitberg AE, York DM.

Biochemistry. 2015 Feb 17;54(6):1307-13. doi: 10.1021/bi5012833. Epub 2015 Feb 6.

35.

Synthetic, potentiometric and spectroscopic studies of chelation between Fe(III) and 2,5-DHBA supports salicylate-mode of siderophore binding interactions.

Porwal SK, Furia E, Harris ME, Viswanathan R, Devireddy L.

J Inorg Biochem. 2015 Apr;145:1-10. doi: 10.1016/j.jinorgbio.2014.12.010. Epub 2014 Dec 15.

PMID:
25589161
36.

Mechanistic insights into RNA transphosphorylation from kinetic isotope effects and linear free energy relationships of model reactions.

Chen H, Giese TJ, Huang M, Wong KY, Harris ME, York DM.

Chemistry. 2014 Oct 27;20(44):14336-43. doi: 10.1002/chem.201403862. Epub 2014 Sep 15.

37.

Determination of relative rate constants for in vitro RNA processing reactions by internal competition.

Lin HC, Yandek LE, Gjermeni I, Harris ME.

Anal Biochem. 2014 Dec 15;467:54-61. doi: 10.1016/j.ab.2014.08.022. Epub 2014 Aug 28.

38.

Altered (transition) states: mechanisms of solution and enzyme catalyzed RNA 2'-O-transphosphorylation.

Kellerman DL, York DM, Piccirilli JA, Harris ME.

Curr Opin Chem Biol. 2014 Aug;21:96-102. doi: 10.1016/j.cbpa.2014.06.010. Epub 2014 Jul 12. Review.

39.

Control not at initiation? Bah, humbug!

Merrick WC, Harris ME.

EMBO J. 2014 Jan 7;33(1):3-4. doi: 10.1002/embj.201387388. Epub 2013 Dec 21.

40.

Hidden specificity in an apparently nonspecific RNA-binding protein.

Guenther UP, Yandek LE, Niland CN, Campbell FE, Anderson D, Anderson VE, Harris ME, Jankowsky E.

Nature. 2013 Oct 17;502(7471):385-8. doi: 10.1038/nature12543. Epub 2013 Sep 22.

41.

Trichloromethyl ketones: asymmetric transfer hydrogenation and subsequent Jocic-type reactions with amines.

Perryman MS, Harris ME, Foster JL, Joshi A, Clarkson GJ, Fox DJ.

Chem Commun (Camb). 2013 Nov 4;49(85):10022-4. doi: 10.1039/c3cc46070c.

PMID:
24045713
42.

Experimental and computational analysis of the transition state for ribonuclease A-catalyzed RNA 2'-O-transphosphorylation.

Gu H, Zhang S, Wong KY, Radak BK, Dissanayake T, Kellerman DL, Dai Q, Miyagi M, Anderson VE, York DM, Piccirilli JA, Harris ME.

Proc Natl Acad Sci U S A. 2013 Aug 6;110(32):13002-7. doi: 10.1073/pnas.1215086110. Epub 2013 Jul 22.

43.

Enhanced labelling on alcoholic drinks: reviewing the evidence to guide alcohol policy.

Martin-Moreno JM, Harris ME, Breda J, Møller L, Alfonso-Sanchez JL, Gorgojo L.

Eur J Public Health. 2013 Dec;23(6):1082-7. doi: 10.1093/eurpub/ckt046. Epub 2013 May 8. Review.

PMID:
23657783
44.

Coordinated interactions of multiple POT1-TPP1 proteins with telomere DNA.

Corriveau M, Mullins MR, Baus D, Harris ME, Taylor DJ.

J Biol Chem. 2013 Jun 7;288(23):16361-70. doi: 10.1074/jbc.M113.471896. Epub 2013 Apr 24.

45.

Alternative substrate kinetics of Escherichia coli ribonuclease P: determination of relative rate constants by internal competition.

Yandek LE, Lin HC, Harris ME.

J Biol Chem. 2013 Mar 22;288(12):8342-54. doi: 10.1074/jbc.M112.435420. Epub 2013 Jan 28.

46.

Molecular simulations of RNA 2'-O-transesterification reaction models in solution.

Radak BK, Harris ME, York DM.

J Phys Chem B. 2013 Jan 10;117(1):94-103. doi: 10.1021/jp3084277. Epub 2012 Dec 24.

47.

Early insights into the interactions of different β-lactam antibiotics and β-lactamase inhibitors against soluble forms of Acinetobacter baumannii PBP1a and Acinetobacter sp. PBP3.

Papp-Wallace KM, Senkfor B, Gatta J, Chai W, Taracila MA, Shanmugasundaram V, Han S, Zaniewski RP, Lacey BM, Tomaras AP, Skalweit MJ, Harris ME, Rice LB, Buynak JD, Bonomo RA.

Antimicrob Agents Chemother. 2012 Nov;56(11):5687-92. doi: 10.1128/AAC.01027-12. Epub 2012 Aug 20.

48.

Exploring the role of a conserved class A residue in the Ω-Loop of KPC-2 β-lactamase: a mechanism for ceftazidime hydrolysis.

Levitt PS, Papp-Wallace KM, Taracila MA, Hujer AM, Winkler ML, Smith KM, Xu Y, Harris ME, Bonomo RA.

J Biol Chem. 2012 Sep 14;287(38):31783-93. doi: 10.1074/jbc.M112.348540. Epub 2012 Jul 26.

49.

Sarcoidosis triggered by interferon-Beta treatment of multiple sclerosis: a case report and focused literature review.

Chakravarty SD, Harris ME, Schreiner AM, Crow MK.

Semin Arthritis Rheum. 2012 Oct;42(2):206-12. doi: 10.1016/j.semarthrit.2012.03.008. Epub 2012 May 8. Review.

PMID:
22572392
50.

Retained products of conception through a perforated uterine wall following elective abortion: a unique case report.

Bhole S, Harris ME, Sistrom CL, Shifrin RY, Mulvihill MS, Moawad NS.

Emerg Radiol. 2012 Oct;19(5):477-81. doi: 10.1007/s10140-012-1040-5. Epub 2012 Apr 11. No abstract available.

PMID:
22527356

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