Thomas T Perkins

Thomas T Perkins

UNVERIFIED PROFILE

Are you Thomas T Perkins?   Register this Author

Register author
Thomas T Perkins

Thomas T Perkins

Publications by authors named "Thomas T Perkins"

Are you Thomas T Perkins?   Register this Author

40Publications

635Reads

Quantifying the Initial Unfolding of Bacteriorhodopsin Reveals Retinal Stabilization.

Angew Chem Int Ed Engl 2018 Dec 17. Epub 2018 Dec 17.

Univ. of Colorado & NIST, JILA, 440 UCB, 80309, Boulder, UNITED STATES.

View Article
December 2018

High-Precision Single-Molecule Characterization of the Folding of an HIV RNA Hairpin by Atomic Force Microscopy.

Nano Lett 2018 10 24;18(10):6318-6325. Epub 2018 Sep 24.

JILA, National Institute of Standards and Technology, and University of Colorado , Boulder , Colorado 80309 , United States.

View Article
October 2018

FEATHER: Automated Analysis of Force Spectroscopy Unbinding and Unfolding Data via a Bayesian Algorithm.

Biophys J 2018 Sep 7;115(5):757-762. Epub 2018 Aug 7.

JILA, National Institute of Standards and Technology, University of Colorado, Boulder, Colorado; Department of Molecular, Cellular, and Developmental Biology, University of Colorado, Boulder, Colorado. Electronic address:

View Article
September 2018

Improved free-energy landscape reconstruction of bacteriorhodopsin highlights local variations in unfolding energy.

J Chem Phys 2018 Mar;148(12):123313

JILA, National Institute of Standard and Technology and University of Colorado, Boulder, Colorado 80309, USA.

View Article
March 2018

A Surface-Coupled Optical Trap with 1-bp Precision via Active Stabilization.

Methods Mol Biol 2017 ;1486:77-107

JILA, National Institute of Standards and Technology, and University of Colorado, Boulder, CO, 80309, USA.

View Article
January 2018

Improved Free-Energy Landscape Quantification Illustrated with a Computationally Designed Protein-Ligand Interaction.

Chemphyschem 2018 01 4;19(1):19-23. Epub 2017 Dec 4.

JILA, National Institute of Standards and Technology and the University of Colorado, Department of Physics and Department of Molecular, Cellular, and Developmental Biology, University of Colorado, Boulder, 440 UCB, Boulder, CO, 80309-0440, USA.

View Article
January 2018

Going Vertical To Improve the Accuracy of Atomic Force Microscopy Based Single-Molecule Force Spectroscopy.

ACS Nano 2018 Jan 22;12(1):198-207. Epub 2017 Dec 22.

JILA, National Institute of Standards and Technology , and University of Colorado, Boulder, Colorado 80309, United States.

View Article
January 2018

Force Spectroscopy with 9-μs Resolution and Sub-pN Stability by Tailoring AFM Cantilever Geometry.

Biophys J 2017 Dec 11;113(12):2595-2600. Epub 2017 Nov 11.

JILA, National Institute of Standards and Technology and University of Colorado, Boulder, Colorado; Department of Molecular, Cellular, and Developmental Biology, University of Colorado, Boulder, Colorado. Electronic address:

View Article
December 2017

Force-activated DNA substrates for probing individual proteins interacting with single-stranded DNA.

Nucleic Acids Res 2017 Oct;45(18):10775-10782

JILA, National Institute of Standards and Technology and University of Colorado, Boulder, CO 80309-0440, USA.

View Article
October 2017

Rapid Characterization of a Mechanically Labile α-Helical Protein Enabled by Efficient Site-Specific Bioconjugation.

J Am Chem Soc 2017 07 17;139(29):9867-9875. Epub 2017 Jul 17.

JILA, National Institute of Standards and Technology and University of Colorado , Boulder, Colorado 80309, United States.

View Article
July 2017

Hidden dynamics in the unfolding of individual bacteriorhodopsin proteins.

Science 2017 Mar;355(6328):945-950

JILA, National Institute of Standards and Technology and University of Colorado, Boulder, CO 80309, USA.

View Article
March 2017

Optimizing force spectroscopy by modifying commercial cantilevers: Improved stability, precision, and temporal resolution.

J Struct Biol 2017 01 1;197(1):13-25. Epub 2016 Feb 1.

JILA, National Institute of Standards and Technology and University of Colorado, Boulder, CO 80309, USA; Department of Molecular, Cellular, and Developmental Biology, University of Colorado, Boulder, CO 80309, USA. Electronic address:

View Article
January 2017

Sequence-dependent nanometer-scale conformational dynamics of individual RecBCD-DNA complexes.

Nucleic Acids Res 2016 07 24;44(12):5849-60. Epub 2016 May 24.

JILA, National Institute of Standards and Technology and University of Colorado, Boulder, CO 80309, USA Department of Molecular, Cellular, and Developmental Biology, University of Colorado, Boulder, CO 80309, USA

View Article
July 2016

Optimizing 1-μs-Resolution Single-Molecule Force Spectroscopy on a Commercial Atomic Force Microscope.

Nano Lett 2015 Oct 5;15(10):7091-8. Epub 2015 Oct 5.

JILA, National Institute of Standards and Technology and University of Colorado , Boulder, Colorado 80309, United States.

View Article
October 2015

Direct Observation of the Reversible Two-State Unfolding and Refolding of an α/β Protein by Single-Molecule Atomic Force Microscopy.

Angew Chem Int Ed Engl 2015 Aug 1;54(34):9921-5. Epub 2015 Jul 1.

Department of Chemistry, University of British Columbia, 2036 Main Mall, Vancouver, BC V6T 1Z1 (Canada).

View Article
August 2015

Ultrastable atomic force microscopy: improved force and positional stability.

FEBS Lett 2014 Oct 4;588(19):3621-30. Epub 2014 May 4.

JILA, National Institute of Standards and Technology and University of Colorado, Boulder, CO 80309, USA; Department of Molecular, Cellular, and Developmental Biology, University of Colorado, Boulder, CO 80309, USA. Electronic address:

View Article
October 2014

Ångström-precision optical traps and applications.

Authors:
Thomas T Perkins

Annu Rev Biophys 2014 ;43:279-302

JILA, National Institute of Standards and Technology and University of Colorado, Boulder, Colorado 80309; email:

View Article
August 2014

Improved single molecule force spectroscopy using micromachined cantilevers.

ACS Nano 2014 May 1;8(5):4984-95. Epub 2014 Apr 1.

JILA, National Institute of Standards and Technology and University of Colorado , Boulder, Colorado 80309, United States.

View Article
May 2014

Nano-chemical infrared imaging of membrane proteins in lipid bilayers.

J Am Chem Soc 2013 Dec 2;135(49):18292-5. Epub 2013 Dec 2.

Department of Physics and Department of Chemistry, ‡Department of Chemical and Biological Engineering, and §Department of Molecular, Cellular, and Developmental Biology, University of Colorado , Boulder, Colorado, 80309, United States.

View Article
December 2013

Torsionally constrained DNA for single-molecule assays: an efficient, ligation-free method.

Nucleic Acids Res 2013 Oct 9;41(19):e179. Epub 2013 Aug 9.

JILA, National Institute of Standards and Technology and University of Colorado, Boulder, CO 80309, USA and Department of Molecular, Cellular, and Developmental Biology, University of Colorado, Boulder, CO 80309, USA.

View Article
October 2013

Atomic force microscopy with sub-picoNewton force stability for biological applications.

Methods 2013 Apr 4;60(2):131-41. Epub 2013 Apr 4.

JILA, National Institute of Standards and Technology, University of Colorado, Boulder, CO 80309, USA.

View Article
April 2013

Optimizing bead size reduces errors in force measurements in optical traps.

Opt Express 2013 Jan;21(1):39-48

JILA, National Institute of Standards and Technology and University of Colorado, Boulder, Colorado 80309, USA.

View Article
January 2013

Single-molecule optical-trapping measurements with DNA anchored to an array of gold nanoposts.

Methods Mol Biol 2012 ;875:335-56

JILA, National Institute of Standards and Technology and University of Colorado, Boulder, CO, USA.

View Article
September 2012

Routine and timely sub-picoNewton force stability and precision for biological applications of atomic force microscopy.

Nano Lett 2012 Jul 15;12(7):3557-61. Epub 2012 Jun 15.

JILA, National Institute of Standards and Technology and University of Colorado, Boulder, Colorado 80309, United States.

View Article
July 2012

Dynamics and multiple stable binding modes of DNA intercalators revealed by single-molecule force spectroscopy.

Angew Chem Int Ed Engl 2012 Feb 9;51(8):1811-5. Epub 2011 Dec 9.

JILA, National Institute of Standards and Technology and University of Colorado, Boulder, CO 80309-0440, USA.

View Article
February 2012

Overstretching DNA at 65 pN does not require peeling from free ends or nicks.

J Am Chem Soc 2011 Mar 5;133(10):3219-21. Epub 2011 Jan 5.

JILA, National Institute of Standards and Technology, and University of Colorado, Boulder, Colorado 80309, USA.

View Article
March 2011

Label-free optical imaging of membrane patches for atomic force microscopy.

Opt Express 2010 Nov;18(23):23924-32

JILA, National Institute of Standards and Technology and Department of Physics, University of Colorado, Boulder, Colorado 80309, USA.

View Article
November 2010

Single-molecule studies of RecBCD.

Methods Mol Biol 2010 ;587:155-72

MCD Biology, JILA, NIST & CU, University of Colorado at Boulder, Boulder, CO, USA.

View Article
May 2010

Integrating a high-force optical trap with gold nanoposts and a robust gold-DNA bond.

Nano Lett 2009 Aug;9(8):2978-83

JILA, National Institute of Standards and Technology and University of Colorado, Boulder, Colorado 80309, USA.

View Article
August 2009

Precision surface-coupled optical-trapping assay with one-basepair resolution.

Biophys J 2009 Apr;96(7):2926-34

JILA, National Institute of Standards and Technology, University of Colorado, Boulder, Colorado, USA.

View Article
April 2009

Ultrastable atomic force microscopy: atomic-scale stability and registration in ambient conditions.

Nano Lett 2009 Apr;9(4):1451-6

JILA, National Institute of Standards and Technology, and University of Colorado, Boulder, Colorado 80309, USA.

View Article
April 2009

Elasticity of short DNA molecules: theory and experiment for contour lengths of 0.6-7 microm.

Biophys J 2007 Dec 31;93(12):4360-73. Epub 2007 Aug 31.

JILA, National Institute of Standards and Technology and University of Colorado, USA.

View Article
December 2007

TFIIA changes the conformation of the DNA in TBP/TATA complexes and increases their kinetic stability.

J Mol Biol 2007 Sep 29;372(3):619-32. Epub 2007 Jun 29.

Department of Chemistry and Biochemistry, University of Colorado at Boulder, 215 UCB, Boulder, CO 80309-0215, USA.

View Article
September 2007

Stabilization of an optical microscope to 0.1 nm in three dimensions.

Appl Opt 2007 Jan;46(3):421-7

JILA, University of Colorado and National Institute of Standards and Technology, Boulder, CO 80309, USA.

View Article
January 2007

Gold nanoparticles: enhanced optical trapping and sensitivity coupled with significant heating.

Opt Lett 2006 Aug;31(16):2429-31

JILA, University of Colorado, and National Institute of Standards and Technology, Boulder, CO 80309, USA.

View Article
August 2006

Measuring 0.1-nm motion in 1 ms in an optical microscope with differential back-focal-plane detection.

Opt Lett 2004 Nov;29(22):2611-3

JILA, National Institute of Standards and Technology, Boulder, Colorado 80309-0440, USA.

View Article
November 2004

Forward and reverse motion of single RecBCD molecules on DNA.

Biophys J 2004 Mar;86(3):1640-8

Department of Biological Sciences, Stanford University, Stanford, California 94305-5020, USA.

View Article
March 2004

Sequence-dependent pausing of single lambda exonuclease molecules.

Science 2003 Sep 28;301(5641):1914-8. Epub 2003 Aug 28.

Department of Biological Sciences, Stanford University, Stanford, CA 94305, USA.

View Article
September 2003