NMR Studies of an SV40 Enhancer Core DNA Sequence

Donlan, Mary E.; Cheung, S.; Lu, Ponzy

doi:10.1016/s0006-3495(86)83580-9

Cited by 6 publications

(3 citation statements)

References 14 publications

(19 reference statements)

Supporting

Mentioning

Contrasting

Order By: Relevance

“…This observation is of unusual biological interest since both CA and TA dinucleotides appear highly overrepresented in known DNA-protein recognition consensus sequences (15)(16)(17) and can in some instances interchange in the TATA regions of promoters (18; Trifonov, E.N. and Harrington, R.E., unpublished data).…”

Section: Mcnamara Eta/mentioning

confidence: 98%

Sequence-Dependent Kinks Induced in Curved DNA

McNamara

Bolshoy

Trifonov

et al. 1990

Journal of Biomolecular Structure and Dynamics

View full text Add to dashboard Cite

In certain curved DNA fragments without AA dinucleotides, the gel retardation anomaly associated with curvature passes through a maximum with fragment length, indicating length (and electric field) dependent structural transitions in the DNA. We suggest that thermally induced stereochemical kinks in DNA are stabilized in the gel, thus relieving the effects of curvature. These kinks are shown to occur specifically at CA/TG and TA/TA stacks. Other physical and biological evidence points to frequent structural dislocations at CA and TA steps. These reversible sequence dependent kinks may therefore represent a novel class of structural protein-DNA recognition elements.

show abstract

Section: Mcnamara Eta/mentioning

confidence: 98%

Sequence-Dependent Kinks Induced in Curved DNA

McNamara

Bolshoy

Trifonov

et al. 1990

Journal of Biomolecular Structure and Dynamics

View full text Add to dashboard Cite

show abstract

“…Scheme 10 sequences should serve as good models for probing into the unique hydrogen exchange and presumably conformational features reported for (GTG)(CAC) steps in right-handed operator and enhancer sequences (Lu et al 1983;Cheung et al 1984;Donlan et al 1986).…”

Section: C1-g2-c3-t4-c5-g6-c7-g8-c9-g1o-a11-g12-c13-g14 C14-c13-g12-amentioning

confidence: 99%

“…This result is of interest since the (GTG)-(CAC) sequence is also the site of lac operator mutants with the highest level of constitutive /?-galactoside synthesis. Further, the (GTG)-(CAC) sequence is a common feature of protein recognition sites on prokaryotic and eucaryotic DNA (Donlan et al 1986). The hydrogen-exchange measurements on (GTG)-(CAC) containing duplexes should be extended to studies as a function of added buffer catalyst to evaluate whether the base-pair opening rates for this sequence also exhibit unusual behaviour in solution.…”

Section: Sequence Dependencementioning

confidence: 99%

DNA and RNA: NMR studies of conformations and dynamics in solution

Patel

Shapiro

Hare

1987

Quart. Rev. Biophys.

183

167

View full text Add to dashboard Cite

The early NMR research on nucleic acids was of a qualitative nature and was restricted to partial characterization of short oligonucleotides in aqueous solution. Major advances in magnet design, spectrometer electronics, pulse techniques, data analysis and computational capabilities coupled with the availability of pure and abundant supply of long oligonucleotides have extended these studies towards the determination of the 3-D structure of nucleic acids in solution.

show abstract