A large variety of DNA molecules, derived as restriction fragments from both prokaryotic (Ross et al., 1982; Stellwagen, 1983; Bossi and Smith, 1984; Zahn and Blattner, 1985) and eukaryotic (Simpson, 1979; Challberg and England, 1980; Israelewski, 1983; Schmidt, 1984; Kidane et al., 1984; Garrett and Carroll, 1986; Ray et al., 1986; Ryder et al., 1986) sources, display abnormal electrophoretic behavior. In particular, such molecules run more slowly in acrylamide gels than would be expected on the basis of their sizes (by sequence). An additional example of such electrophoretic behavior is displayed in figure 1. This example is of historical interest in that the HindII+III digest of SV40 was the first published restriction digest. The retardation of the F fragment was originally believed to be due to a chemical interaction of the fragment with the acrylamide gel. The example is also noteworthy in that the sequences giving rise to the anomalous behavior lie entirely within the coding sequences for the major capsid protein (VP1) gene.
KeywordsSimian Virus Helix Axis Axial Curvature Junction Model Adjacent Base Pair
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- Buchman, A.R., Burnett, L. and Berg, P. (1981). The SV40 nucleotide sequence (appendix A): in DNA Tumor Viruses, J. Tooze, ed. Cold Spring Harbor Laboratory, N.Y., 799–842.Google Scholar
- Hagerman, P.J. (1984b) Application of Transient Electric Birefringence to the Study of DNA Structure: in Methods in Enzymology. C.H.W. Hirs and S.N. Timasheff, eds. Academic Press, Inc., New York, 198–219.Google Scholar
- Israelewski, N. (1983). Structure and function of an AT-rich, interspersed repetitive sequence from Chironomus thum mi: solenoidal DNA, 142 bp palindrome-frame and homologies with the sequence for site-specific recombination of bacterial transposons. Nucl. Acids Res. 11:6985–6996.PubMedCrossRefGoogle Scholar
- Marini, J.C. and Englund, P.T. (1983). Correction. Proc. Natl. Acad. Sci. USA 80:7678.Google Scholar
- Seising, E., Wells, R.D., Alden, C.J. and Arnott, S. (1979). Bent DNA: Visualization of a base-paired and stacked A-B conformational junction. J. Biol. Chem. 254:5417–5422.Google Scholar
- Ulanovsky, L.E. and Trifonov, E.N. (1987). Curved DNA: Wedge components estimated. Nature (in press).Google Scholar