Search Results - "Chuprina, V P"

Structure of the complex of lac repressor headpiece and an 11 base-pair half-operator determined by nuclear magnetic resonance spectroscopy and restrained molecular dynamics by Chuprina, V P, Rullmann, J A, Lamerichs, R M, van Boom, J H, Boelens, R, Kaptein, R

“…The structure of the complex of lac repressor headpiece and an 11 base-pair lac half-operator has been determined by NMR spectroscopy and restrained Molecular…”
Get more information

Molecular Dynamics Simulation of the Hydration Shell of a B-DNA Decamer Reveals two Main Types of Minor-Groove Hydration Depending on Groove Width by Chuprina, V. P., Hienemann, U., Nurislamov, A. A., Zielenkiewicz, P., Dickerson, R. E., Saenger, W.

“…The conformation of the self-complementary B-DNA decamer C-C-A-A-C-G-T-T-G-G is known from a high-resolution x-ray crystal structure analysis. Molecular…”
Get full text

Measurement of anomalously high hydration of (dA) n · (dT) n double helices in dilute solution by Buckin, V. A, Kankiya, B. I, Bulichov, N. V, Lebedev, A. V, Gukovsky, I. Ya, Chuprina, V. P, Sarvazyan, A. P, Williams, A. R

“…Different DNA sequences have different physical properties, which seem to be important for their biological function. In particular, (dA)n.(dT)n has many…”
Get full text

Sequence Effects on Local DNA Topology by Chuprina, Vasily P., Lipanov, Andrei A., Oleg Yu. Fedoroff, Kim, Seong-Gi, Kintanar, Agustin, Reid, Brian R.

“…Nuclear Overhauser effect-derived distances between adenine H2 protons and anomeric H1' protons on the same strand or on the complementary strand are presented…”
Get full text

New insights into the structure of An tracts and B'-B' bends in DNA by Chuprina, V. P, Fedoroff, O. Yu, Reid, Brian R

“…Energy calculations suggest that the currently available NOE distance constraints for An tracts in DNA are incapable of distinguishing between structures with…”
Get full text

Regularities in formation of the spine of hydration in the DNA minor groove and its influence on the DNA structure by Chuprina, Vasily P.

“…Computer calculations as well as an analysis of space-filling models and literature data allowed the following conclusions to be made: (1) an ordered spine of…”
Get full text

Dependence of the hydration shell structure in the minor groove of the DNA double helix on the groove width as revealed by Monte Carlo simulation by Teplukhin, A V, Poltev, V I, Chuprina, V P

“…The hydration shell of several conformations of the polynucleotides poly(dA).poly(dT), poly(dA).poly(dU), and poly(dA-dI).poly(dT-dC) has been simulated using…”
Get more information

The structure of poly(dA):poly(dT) in a condensed state and in solution by Lipanov, A A, Chuprina, V P

“…New X-ray and energetically optimal models of poly(dA):poly(dT) with the hydration spine in the minor groove have been compared with the NMR data in solution…”
Get full text

NMR and nucleic acid-protein interactions: the lac repressor-operator system by Kaptein, R, Boelens, R, Chuprina, V P, Rullmann, J A, Slijper, M

Get more information

The Study of Possible A and B Conformations of Alternating DNA Using a New Program for Conformational Analysis of Duplexes (CONAN) by Nesterova, E. N., Fedorov, O. Yu, Poltev, V. I., Chuprina, V. P.

“…A new program, CONAN has been designed for CONformational ANalysis of oligonucleotide duplexes with natural and modified bases. It allows to model both regular…”
Get full text

DNA B to D transition can be explained in terms of hydration economy of the minor groove atoms by Lipanov, A A, Beglov, D B, Chuprina, V P

“…Adjacent phosphate oxygen atoms in A and Z-DNA are located much closer together than in the B form and can be hydrated more economically due to the formation…”
Get more information

Monte-Carlo simulation of DNA duplex hydration. B and B' conformations of poly(dA).poly(dT) have different hydration shells by Poltev, V I, Teplukhin, A V, Chuprina, V P

“…Monte-Carlo simulation of poly(dA).poly(dT) hydration by 30 water molecules per nucleotide pair has been performed. Two B-family conformations, both with a 36…”
Get more information

Anomalous properties of adenine thymine tracts by CHUPRINA, V. P, ABAGYAN, R. A

Get full text

Electrophoretic behavior of d(GGAAAAAAGG)n, d(CCAAAAAACC)n, and (CCAAAAAAGG)n and implications for a DNA bending model by ABAGYAN, R. A, MIRONOV, V. N, CHERNOV, B. K, CHUPRINA, V. P, ULYANOV, A. V

“…Double stranded multimers (C2A6C2)n, (C2A6G2)n and (G2A6G2)n were prepared from chemically synthesized oligonucleotides to study the influence of sequences…”
Get full text

Solution Structure of the Sequence-specific HMG Box of the Lymphocyte Transcriptional Activator Sox-4 (∗) by van Houte, Leo P.A., Chuprina, Vasily P., van der Wetering, Marc, Boelens, Rolf, Kaptein, Robert, Clevers, Hans

“…Two groups of HMG box proteins are distinguished. Proteins in the first group contain multiple HMG boxes, are non-sequence-specific, and recognize structural…”
Get full text

Bh-DNA: variations of the poly[d(A)].poly[d(T)] structure within the framework of the fibre diffraction studies by Lipanov, A A, Chuprina, V P, Alexeev, D G, Skuratovskii IYa

“…A refinement of the recent results for poly[d(A)].poly[d(T)] (Alexeev et al., J. Biomol. Struct. Dyn. 4,989 (1987)) involving additional parameters of the…”
Get more information

Adjacent G:A mismatch base pairs contain BII phosphodiesters in solution by Chou, Shan Ho, Cheng, Jya Wei, Fedorov, O. Yu, Chuprina, V. P, Reid, Brian R

Get full text

Sequence-Dependent Binding of Metal Ion to DNA Oligomeres. A Comparison of Molecular Electrostatic Potentials with NMR Data by Montrel, Michael, Chuprina, Vasily P., Poltev, Valery I., Nerdal, Willy, Sletten, Einar

“…Experimentally observed sequence-selective binding of metal ion to DNA oligonucleotides have been compared with variations of electrostatic potential (EP)…”
Get full text

Sequence dependence of DNA structure in solution by Fedoroff OYu, Reid, B R, Chuprina, V P

“…Sequence-dependent structural variations in DNA can influence its binding by ligands and proteins. However, relatively little is known about sequence-structure…”
Get more information

Investigation of solution structure of d(GAATTTAAATTC)2 by 1H NMR, molecular dynamics, mechanics, refinement by back-calculation of the NOESY spectrum and analysis of this structure using X-ray data by Chuprina, V P, Sletten, E, Fedoroff OYu

“…1H NMR spectroscopy, restrained molecular mechanics and dynamics and refinements after back-calculation of the NOESY spectrum have been performed to study the…”
Get more information