Computer Graphics Program to Reveal the Dependence of the Gross Three-dimensional Structure of the B-DNA Double Helix on Primary Structure

Overview

Journal Nucleic Acids Res

Publisher Oxford University Press

Specialty Biochemistry

Date 1986 Jan 10

PMID 3753773

Citations 8

Authors

C S Tung

S C Harvey

Affiliations

Soon will be listed here.

Abstract

Programs are presented to plot the gross three-dimensional structure of the DNA double helix with the base sequence as input information. The rules that determine the overall structure of the double helix are those that predict the dependence of local helix parameters (specifically, helix twist angle and relative basepair roll angle) on sequence. For this purpose, the user can select either the Calladine-Dickerson parameters or the Tung-Harvey parameters. These programs can be used as tools to investigate the variation of DNA tertiary structure with sequence, which may play an important role in the sequence-specific recognition of DNA by proteins.

Citing Articles

Interdependence of conformational variables in double-helical DNA.

Sarai A, Jernigan R, Mazur J Biophys J. 1996; 71(3):1507-18.

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Long-range organization and sequence-directed curvature of Xenopus laevis satellite 1 DNA.

Pasero P, Sjakste N, Blettry C, Got C, Marilley M Nucleic Acids Res. 1993; 21(20):4703-10.

PMID: 7901836 PMC: 331494. DOI: 10.1093/nar/21.20.4703.

Bending and curvature calculations in B-DNA.

Goodsell D, DICKERSON R Nucleic Acids Res. 1994; 22(24):5497-503.

PMID: 7816643 PMC: 332108. DOI: 10.1093/nar/22.24.5497.

Sequence dependent electrophoretic mobilities and melting temperatures for A-T containing oligodeoxyribonucleotides.

Wilson W, Zuo E, Jones R, Zon G, Baumstark B Nucleic Acids Res. 1987; 15(1):105-18.

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Alterations in the adenine-plus-thymine-rich region of CEN3 affect centromere function in Saccharomyces cerevisiae.

Gaudet A, Fitzgerald-Hayes M Mol Cell Biol. 1987; 7(1):68-75.

PMID: 3550426 PMC: 365042. DOI: 10.1128/mcb.7.1.68-75.1987.

References

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