This is a proposed theoretical investigation of the dynamics of double helical DNA. the methods are various adaptations of helix lattice methods. We will use of recently developed mean field self-consistent phonon approximation to study helix strand separation melting. This will be for both thermal induced and excitation induced melting. It will be done for various base sequences. We will also use our recently developed extended Gruneisen calculations to study the conformational stability of DNA as a function of a range of thermodynamic state variables. We will apply this to the B-Z conformation problem. Physical models will be developed to conform to the Gruneisen parameters needed to induce conformation change. We will continue our general study of resonant vibrational modes in DNA. We will investigate the role of external coupling to these resonant modes.

Agency
National Institute of Health (NIH)
Institute
National Institute of General Medical Sciences (NIGMS)
Type
Research Project (R01)
Project #
2R01GM024443-09
Application #
3272308
Study Section
Biophysics and Biophysical Chemistry A Study Section (BBCA)
Project Start
1980-01-01
Project End
1990-07-31
Budget Start
1987-08-01
Budget End
1988-07-31
Support Year
9
Fiscal Year
1987
Total Cost
Indirect Cost
Name
Purdue University
Department
Type
Schools of Arts and Sciences
DUNS #
072051394
City
West Lafayette
State
IN
Country
United States
Zip Code
47907
Prabhu, V V; Young, L; Prohofsky, E W (1991) Observation of preferred direction melting in a lattice model of poly(dA-dC).poly(dG-dT). Biopolymers 31:355-8
Chen, Y Z; Feng, Y; Prohofsky, E W (1991) Premelting thermal fluctuational base pair opening probability of poly(dA).poly(dT) as predicted by the modified self-consistent phonon theory. Biopolymers 31:139-48
Beger, R; Feng, Y; Prohofsky, E W (1990) Vibrational fluctuations of hydrogen bonds in a DNA double helix with alternating TA type inserts. Biophys J 58:437-45
Feng, Y; Prohofsky, E W (1990) Vibrational fluctuations of hydrogen bonds in a DNA double helix with nonuniform base pairs. Biophys J 57:547-53
Schroll, W K; Prabhu, V V; Prohofsky, E W et al. (1989) Phonon interpretation of inelastic neutron scattering in DNA crystals. Biopolymers 28:1189-93
Girirajan, K S; Young, L; Prohofsky, E W (1989) Vibrational free energy, entropy, and temperature factors of DNA calculated by a helix lattice approach. Biopolymers 28:1841-60
Hua, X M; Prohofsky, E W (1988) Normal-mode calculation for methylated Z-DNA poly(dG-m5dC).(dG-m5dC). Biopolymers 27:645-55
Kim, Y; Prohofsky, E W (1986) Predicted role of particular phonons in the strand separation melting of the DNA double helix. J Biomol Struct Dyn 4:437-42
Devi Prasad, K V; Prohofsky, E W (1985) Conformational changes in DNA and soft modes. J Biomol Struct Dyn 3:551-8