Naslov
Elastic Models of DNA Bending

Autori
Vlahoviček, Kristian ; Munteanu, Mircea G. ; Pongor, Sandor ;

Vrsta, podvrsta i kategorija rada
Poglavlja u knjigama, znanstveni

Knjiga
Structural Biology and Functional Genomics

Urednik/ci
E. Morton, E ; Pongor, Sandor

Izdavač
Kluwer Scientific

Grad
Amsterdam

Godina
1999

Raspon stranica
97-114

ISBN
0-7923-5782-5

Ključne riječi
bendability, computer program, curvature, genomic DNA, Internet server, molecular modeling prediction

Sažetak
Bending is a local conformational micropolymorphism of DNA in which the original B-DNA structure is only distorted but not extensively modified. Bending can be predicted by simple static geometry models as well as by a recently developed elastic model that incorporate sequence dependent anisotropic bendability (SDAB). The SDAB model qualitatively explains phenomena including affinity of protein binding, kinking, as well as sequence-dependent vibrational properties of DNA. The vibrational properties of DNA segments can be studied by finite element analysis of a model subjected to an initial bending moment. The frequency spectrum is obtained by applying Fourier analysis to the displacement values in the time domain. This analysis shows that the spectrum of the bending vibrations quite sensitively depends on the sequence, for example the spectrum of a curved sequence is characteristically different from the spectrum of straight sequence motifs of identical basepair composition. Curvature distributions are genome-specific, and pronounced differences are found between protein-coding and regulatory regions, respectively, that is, sites of extreme curvature and/or bendability are less frequent in protein-coding regions. A WWW server is set up for the prediction of curvature and generation of 3D models from DNA sequences (http:@www.icgeb.trieste.it/dna)

Izvorni jezik
Engleski

Znanstvena područja
Kemija

POVEZANOST RADA