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Items: 1 to 20 of 219


The Many Roles of Binding Cooperativity in the Control of DNA Replication.

von Hippel PH, Marcus AH.

Biophys J. 2019 Dec 3;117(11):2043-2046. doi: 10.1016/j.bpj.2019.10.029. Epub 2019 Oct 28. No abstract available.


Local DNA Base Conformations and Ligand Intercalation in DNA Constructs Containing Optical Probes.

Ji H, Johnson NP, von Hippel PH, Marcus AH.

Biophys J. 2019 Sep 17;117(6):1101-1115. doi: 10.1016/j.bpj.2019.08.006. Epub 2019 Aug 12.


Measuring local conformations and conformational disorder of (Cy3)2 dimer labeled DNA fork junctions using absorbance, circular dichroism and two-dimensional fluorescence spectroscopy.

Heussman D, Kittell J, Kringle L, Tamimi A, von Hippel PH, Marcus AH.

Faraday Discuss. 2019 Jul 11;216(0):211-235. doi: 10.1039/c8fd00245b.


Using microsecond single-molecule FRET to determine the assembly pathways of T4 ssDNA binding protein onto model DNA replication forks.

Phelps C, Israels B, Jose D, Marsh MC, von Hippel PH, Marcus AH.

Proc Natl Acad Sci U S A. 2017 May 2;114(18):E3612-E3621. doi: 10.1073/pnas.1619819114. Epub 2017 Apr 17.


Using Multiorder Time-Correlation Functions (TCFs) To Elucidate Biomolecular Reaction Pathways from Microsecond Single-Molecule Fluorescence Experiments.

Phelps C, Israels B, Marsh MC, von Hippel PH, Marcus AH.

J Phys Chem B. 2016 Dec 29;120(51):13003-13016. doi: 10.1021/acs.jpcb.6b08449. Epub 2016 Dec 19.


Changing the Stability of Macromolecular Surfaces by Manipulating the Aqueous Environment.

von Hippel PH.

Biophys J. 2016 Nov 1;111(9):1817-1820. doi: 10.1016/j.bpj.2016.09.023. No abstract available.


Sequence-Dependent Conformational Heterogeneity and Proton-Transfer Reactivity of the Fluorescent Guanine Analogue 6-Methyl Isoxanthopterin (6-MI) in DNA.

Johnson NP, Ji H, Steinberg TH, von Hippel PH, Marcus AH.

J Phys Chem B. 2015 Oct 8;119(40):12798-807. doi: 10.1021/acs.jpcb.5b06361. Epub 2015 Sep 25.


Mapping the interactions of the single-stranded DNA binding protein of bacteriophage T4 (gp32) with DNA lattices at single nucleotide resolution: gp32 monomer binding.

Jose D, Weitzel SE, Baase WA, von Hippel PH.

Nucleic Acids Res. 2015 Oct 30;43(19):9276-90. doi: 10.1093/nar/gkv817. Epub 2015 Aug 14.


Mapping the interactions of the single-stranded DNA binding protein of bacteriophage T4 (gp32) with DNA lattices at single nucleotide resolution: polynucleotide binding and cooperativity.

Jose D, Weitzel SE, Baase WA, Michael MM, von Hippel PH.

Nucleic Acids Res. 2015 Oct 30;43(19):9291-305. doi: 10.1093/nar/gkv818. Epub 2015 Aug 14.


A multilaboratory comparison of calibration accuracy and the performance of external references in analytical ultracentrifugation.

Zhao H, Ghirlando R, Alfonso C, Arisaka F, Attali I, Bain DL, Bakhtina MM, Becker DF, Bedwell GJ, Bekdemir A, Besong TM, Birck C, Brautigam CA, Brennerman W, Byron O, Bzowska A, Chaires JB, Chaton CT, Cölfen H, Connaghan KD, Crowley KA, Curth U, Daviter T, Dean WL, Díez AI, Ebel C, Eckert DM, Eisele LE, Eisenstein E, England P, Escalante C, Fagan JA, Fairman R, Finn RM, Fischle W, de la Torre JG, Gor J, Gustafsson H, Hall D, Harding SE, Cifre JG, Herr AB, Howell EE, Isaac RS, Jao SC, Jose D, Kim SJ, Kokona B, Kornblatt JA, Kosek D, Krayukhina E, Krzizike D, Kusznir EA, Kwon H, Larson A, Laue TM, Le Roy A, Leech AP, Lilie H, Luger K, Luque-Ortega JR, Ma J, May CA, Maynard EL, Modrak-Wojcik A, Mok YF, Mücke N, Nagel-Steger L, Narlikar GJ, Noda M, Nourse A, Obsil T, Park CK, Park JK, Pawelek PD, Perdue EE, Perkins SJ, Perugini MA, Peterson CL, Peverelli MG, Piszczek G, Prag G, Prevelige PE, Raynal BD, Rezabkova L, Richter K, Ringel AE, Rosenberg R, Rowe AJ, Rufer AC, Scott DJ, Seravalli JG, Solovyova AS, Song R, Staunton D, Stoddard C, Stott K, Strauss HM, Streicher WW, Sumida JP, Swygert SG, Szczepanowski RH, Tessmer I, Toth RT 4th, Tripathy A, Uchiyama S, Uebel SF, Unzai S, Gruber AV, von Hippel PH, Wandrey C, Wang SH, Weitzel SE, Wielgus-Kutrowska B, Wolberger C, Wolff M, Wright E, Wu YS, Wubben JM, Schuck P.

PLoS One. 2015 May 21;10(5):e0126420. doi: 10.1371/journal.pone.0126420. eCollection 2015.


John Schellman and the birth of protein folding.

Baldwin RL, von Hippel PH.

Proc Natl Acad Sci U S A. 2015 Jun 2;112(22):6776-7. doi: 10.1073/pnas.1506481112. Epub 2015 May 7. No abstract available.


Increased subtlety of transcription factor binding increases complexity of genome regulation.

von Hippel PH.

Proc Natl Acad Sci U S A. 2014 Dec 9;111(49):17344-5. doi: 10.1073/pnas.1418978111. Epub 2014 Dec 2. No abstract available.


Old and new approaches to DNA breathing: Comments on "Fluctuations in the DNA double helix: A critical review" by M.D. Frank-Kamenetskii and S. Prakash.

von Hippel PH.

Phys Life Rev. 2014 Jun;11(2):176-7. doi: 10.1016/j.plrev.2014.04.003. Epub 2014 Apr 13. No abstract available.


Internally labeled Cy3/Cy5 DNA constructs show greatly enhanced photo-stability in single-molecule FRET experiments.

Lee W, von Hippel PH, Marcus AH.

Nucleic Acids Res. 2014 May;42(9):5967-77. doi: 10.1093/nar/gku199. Epub 2014 Mar 13.


Solution conformation of 2-aminopurine (2-AP) dinucleotide determined by ultraviolet 2D fluorescence spectroscopy (UV-2D FS).

Widom JR, Johnson NP, von Hippel PH, Marcus AH.

New J Phys. 2013 Feb 1;15. doi: 10.1088/1367-2630/15/2/025028.


Single-molecule FRET and linear dichroism studies of DNA breathing and helicase binding at replication fork junctions.

Phelps C, Lee W, Jose D, von Hippel PH, Marcus AH.

Proc Natl Acad Sci U S A. 2013 Oct 22;110(43):17320-5. doi: 10.1073/pnas.1314862110. Epub 2013 Sep 23.


Fifty years of DNA "breathing": Reflections on old and new approaches.

von Hippel PH, Johnson NP, Marcus AH.

Biopolymers. 2013 Dec;99(12):923-54. doi: 10.1002/bip.22347. Review.


A single-molecule view of the assembly pathway, subunit stoichiometry, and unwinding activity of the bacteriophage T4 primosome (helicase-primase) complex.

Lee W, Jose D, Phelps C, Marcus AH, von Hippel PH.

Biochemistry. 2013 May 7;52(18):3157-70. doi: 10.1021/bi400231s. Epub 2013 Apr 24.


Electronic transition moments of 6-methyl isoxanthopterin--a fluorescent analogue of the nucleic acid base guanine.

Widom JR, Rappoport D, Perdomo-Ortiz A, Thomsen H, Johnson NP, von Hippel PH, Aspuru-Guzik A, Marcus AH.

Nucleic Acids Res. 2013 Jan;41(2):995-1004. doi: 10.1093/nar/gks1148. Epub 2012 Nov 26.

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