Search Results - "MARKY, L"

Folding of the thrombin aptamer into a G-quadruplex with Sr(2+): stability, heat, and hydration by Kankia, B I, Marky, L A

“…It has been shown that the DNA aptamer d(G(2)T(2)G(2)TGTG(2)T(2)G(2)) adopts an intramolecular G-quadruplex structure in the presence of K+. Its affinity for…”
Get full text

Predicting DNA Duplex Stability from the Base Sequence by Breslauer, Kenneth J., Frank, Ronald, Blöcker, Helmut, Marky, Luis A.

“…We report the complete thermodynamic library of all 10 Watson--Crick DNA nearest-neighbor interactions. We obtained the relevant thermodynamic data from…”
Get full text

Side Chain Contributions to the Stability of Alpha-Helical Structure in Peptides by Lyu, Pingchiang C., Liff, Mark I., Marky, Luis A., Kallenbach, Neville R.

“…Short peptides that contain significant α-helical structure in aqueous solution allow the investigation of the role of amino acid side chains in stabilizing or…”
Get full text

Calculating thermodynamic data for transitions of any molecularity from equilibrium melting curves by Marky, L A, Breslauer, K J

Get more information

Origins of Netropsin Binding Affinity and Specificity: Correlations of Thermodynamic and Structural Data by Marky, Luis A., Breslauer, Kenneth J.

“…We report complete thermodynamic profiles for netropsin binding to an oligomeric and to several polymeric DNA host duplexes. These data allow us to reach the…”
Get full text

Enthalpy--Entropy Compensations in Drug-DNA Binding Studies by Breslauer, Kenneth J., Remeta, David P., Chou, Wan-Yin, Ferrante, Robert, Curry, James, Zaunczkowski, Denise, Snyder, James G., Marky, Luis A.

“…We present a comparative study of calorimetrically derived thermodynamic profiles for the binding of a series of drugs with selected DNA host duplexes. We use…”
Get full text

Influence of fluctuations on DNA curvature. A comparison of flexible and static wedge models of intrinsically bent DNA by Olson, W K, Marky, N L, Jernigan, R L, Zhurkin, V B

“…Matrix-generator and Monte Carlo methods have been employed to study the influence of thermal fluctuations on the overall sizes and shapes of curved pieces of…”
Get more information

Thermodynamics of DNA hairpins: contribution of loop size to hairpin stability and ethidium binding by Rentzeperis, Dionisios, Alessi, Karen, Marky, Luis A.

“…A combination of calorimetric and spectroscopic techniques was used to evaluate the thermodynamic behavior of a set of DNA hairpins with the sequence…”
Get full text

Volume changes accompanying interaction of ligands with nucleic acids by Marky, L A, Kupke, D W, Kankia, B I

Get more information

Interaction of the dye ethidium bromide with DNA containing guanine repeats by Guo, Qiu, Lu, Min, Marky, Luis A, Kallenbach, Neville R

“…DNA containing one or more copies of the motifs repeated in telomere sequences has unusual conformational properties. The isolated sequence from the protozoan…”
Get full text

NMR Structure of the Thrombin-Binding DNA Aptamer Stabilized by Sr2 by Mao, Xi-an, Marky, Luis A., Gmeiner, William H.

“…The structure of thrombin-binding DNA aptamer complexed with a single Sr 2+ ion (Sr 2+ :TBA complex) has been determined using NMR spectroscopy and restrained…”
Get full text

Evidence in Escherichia coli that N3-Methyladenine Lesions Induced by a Minor Groove Binding Methyl Sulfonate Ester Can Be Processed by both Base and Nucleotide Excision Repair by Shah, Dharini, Kelly, Jack, Zhang, Yi, Dande, Prasad, Martinez, Juan, Ortiz, Gretchen, Fronza, Gilberto, Tran, Huy, Soto, Ana Maria, Marky, Luis, Gold, Barry

“…It has been previously reported that a neutral DNA equilibrium binding agent based on an N-methylpyrrolecarboxamide dipeptide (lex) and modified with an…”
Get full text

An Interpretation of Small-Ion Effects on the Electrostatics of the λ Repressor DNA Complex by Marky, Nancy L, Manning, Gerald S

“…Monte Carlo simulations of the interactions of Na+ and Cl- ions with λ repressor protein and its DNA operator site have revealed an interesting effect…”
Get full text

Differential hydration of dA.dT Base pairing and dA and dT bulges in deoxyoligonucleotides by ZIEBA, K, CHU, T. M, KUPKE, D. W, MARKY, L. A

“…The role of water in the formation of stable duplexes of nucleic acids is being studied by determining the concurrent volume change, heats, and counterion…”
Get full text

Contribution of loops and nicks to the formation of DNA dumbbells: Melting behavior and ligand binding by Rentzeperis, Dionisios, Ho, James, Marky, Luis A

“…We have evaluated the thermodynamic contribution of thymine loops and nicks to the overall stability of double-helical DNA by investigating (1) the melting…”
Get full text

A Theory of DNA Dissociation from the Nucleosome by Marky, Nancy L., Manning, Gerald S.

“…Previous analysis of an elastic model of the nucleosome indicated that 10 bp end segments of DNA can exist in a continuum of mechanically stable trajectories…”
Get full text

Enthalpy-entropy compensations in nucleic acids: contribution of electrostriction and structural hydration by Marky, L A, Kupke, D W

Get more information

Volume changes correlate with entropies and enthalpies in the formation of nucleic acid homoduplexes: differential hydration of A and B conformations by Rentzeperis, D, Kupke, D W, Marky, L A

“…We have used a combination of densimetric, calorimetric, and uv absorption techniques to obtain a complete thermodynamic characterization for the formation of…”
Get more information

Incorporation of a cationic aminopropyl chain in DNA hairpins: thermodynamics and hydration by Soto, A M, Kankia, B I, Dande, P, Gold, B, Marky, L A

“…We report on the physicochemical effects resulting from incorporating a 5-(3-aminopropyl) side chain onto a 2'-deoxyuridine (dU) residue in a short DNA…”
Get full text

Interaction of minor groove ligands to an AAATT/AATTT site: correlation of thermodynamic characterization and solution structure by Rentzeperis, Dionisios, Marky, Luis A, Dwyer, Tammy J, Geierstanger, Bernhard H, Pelton, Jeffrey G, Wemmer, David. E

“…A combination of circular dichroism spectroscopy, titration calorimetry, and optical melting has been used to investigate the association of the minor groove…”
Get full text