Publications by authors named "Karunesh Arora"

25Publications

Frustration and folding of a TIM barrel protein.

Proc Natl Acad Sci U S A 2019 08 25;116(33):16378-16383. Epub 2019 Jul 25.

Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, Worcester, MA 01605;

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August 2019

Regulation of calreticulin-major histocompatibility complex (MHC) class I interactions by ATP.

Proc Natl Acad Sci U S A 2015 Oct 29;112(41):E5608-17. Epub 2015 Sep 29.

Department of Microbiology and Immunology, University of Michigan Medical School, Ann Arbor, MI 48109;

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October 2015

Modulation of frustration in folding by sequence permutation.

Proc Natl Acad Sci U S A 2014 Jul 7;111(29):10562-7. Epub 2014 Jul 7.

Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, Worcester, MA 01605;

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July 2014

pH-induced stability switching of the bacteriophage HK97 maturation pathway.

J Am Chem Soc 2014 Feb 13;136(8):3097-107. Epub 2014 Feb 13.

Department of Molecular and Cell Biology, University of Connecticut , Storrs, Connecticut 06269, United States.

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February 2014

How DNA polymerase X preferentially accommodates incoming dATP opposite 8-oxoguanine on the template.

Biophys J 2013 Dec;105(11):2559-68

Department of Natural Sciences, Marymount Manhattan College, New York, New York. Electronic address:

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December 2013

Deconstructing activation events in rhodopsin.

J Am Chem Soc 2013 Jul 22;135(30):10906-9. Epub 2013 Jul 22.

Department of Chemistry, University of Michigan, Ann Arbor, Michigan 48109, USA.

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July 2013

Perspective: pre-chemistry conformational changes in DNA polymerase mechanisms.

Theor Chem Acc 2012 Nov 23;131:1287. Epub 2012 Nov 23.

Department of Chemistry, New York University, 100 Washington Square East, Silver Building, New York, NY 10003, USA. Courant Institute of Mathematical Sciences, New York, University, 251 Mercer Street, New York, NY 10012, USA.

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November 2012

Multiple intermediates, diverse conformations, and cooperative conformational changes underlie the catalytic hydride transfer reaction of dihydrofolate reductase.

Top Curr Chem 2013 ;337:165-87

Department of Chemistry and Biophysics Program, University of Michigan, Ann Arbor, MI, 48109, USA.

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December 2013

Conformational dynamics in human purine nucleoside phosphorylase with reactants and transition-state analogues.

J Phys Chem B 2010 Dec 11;114(49):16263-72. Epub 2010 Oct 11.

Department of Biochemistry, Albert Einstein College of Medicine, 1300 Morris Park Avenue, Bronx, New York, United States.

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December 2010

Hexameric helicase deconstructed: interplay of conformational changes and substrate coupling.

Biophys J 2010 Apr;98(8):1449-57

Department of Molecular Biology, The Scripps Research Institute, La Jolla, California, USA.

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April 2010

Extracting Kinetic and Stationary Distribution Information from Short MD Trajectories via a Collection of Surrogate Diffusion Models.

J Chem Theory Comput 2009 Jan;5(1):47-58

Department of Statistics and Department of Computational and Applied Mathematics, Rice University, Houston, TX 77005-1892, USA.

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January 2009

K+/Na+ selectivity in toy cation binding site models is determined by the 'host'.

Biophys J 2009 May;96(10):3887-96

Department of Chemistry and Program in Biophysics, University of Michigan, Ann Arbor, Michigan 48109, USA.

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May 2009

Functionally important conformations of the Met20 loop in dihydrofolate reductase are populated by rapid thermal fluctuations.

J Am Chem Soc 2009 Apr;131(15):5642-7

Department of Chemistry and Biophysics Program, University of Michigan, 930 North University Avenue, Ann Arbor, Michigan 48109, USA.

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April 2009

Mismatched base-pair simulations for ASFV Pol X/DNA complexes help interpret frequent G*G misincorporation.

J Mol Biol 2008 Dec 17;384(5):1086-97. Epub 2008 Oct 17.

Department of Natural Sciences and Mathematics, Marymount Manhattan College, 221 East 71st Street, New York, NY 10021, USA.

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December 2008

Large-scale allosteric conformational transitions of adenylate kinase appear to involve a population-shift mechanism.

Proc Natl Acad Sci U S A 2007 Nov 13;104(47):18496-501. Epub 2007 Nov 13.

Department of Molecular Biology, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA.

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November 2007

Regulation of DNA repair fidelity by molecular checkpoints: "gates" in DNA polymerase beta's substrate selection.

Biochemistry 2006 Dec 1;45(51):15142-56. Epub 2006 Dec 1.

Department of Chemistry and Courant Institute of Mathematical Sciences, New York University, New York, New York 10012, USA.

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December 2006

Harmonic Fourier beads method for studying rare events on rugged energy surfaces.

J Chem Phys 2006 Nov;125(17):174108

Department of Molecular Biology, The Scripps Research Institute, TPC6, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA.

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November 2006

Sequential side-chain residue motions transform the binary into the ternary state of DNA polymerase lambda.

Biophys J 2006 Nov 18;91(9):3182-95. Epub 2006 Aug 18.

Department of Chemistry and Courant Institute of Mathematical Sciences, New York University, New York, New York, USA.

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November 2006

Conformational transition pathway of polymerase beta/DNA upon binding correct incoming substrate.

J Phys Chem B 2005 Mar;109(11):5358-67

Department of Chemistry and Courant Institute of Mathematical Sciences, New York University, 251 Mercer Street, New York, New York 10012, USA.

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March 2005