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Nucleic Acids Research, 1985, Vol. 13, No. 17 6205-6221
© 1985

Articles

Site-specific nicking at the avian retrovirus LTR circle junction by the viral pp32 DNA endonuclease

Duane P. Grandgenett and Ajaykumar C. Vora

Institute for Molecular Virology, St.Louis University School of Medicine, 3681 Park Avenue St. Louis, Mo 63110, USA

Received March 29, 1985. Revised August 8, 1985. Accepted August 8, 1985.

The avian retrovirus pp32 DNA endonuclease prefers to nick supercoiled DNA containing long terminal repeat (LTR) circle junction sequences at one or the other of two sites, each which mapped two nucleotides back from the circle junction. The sequence at the sites of nicking was

Formula
where indicates the positions of the two alternative nicked sites. This site-specific nicking was observed when the circle junction LTR DNA was present in supercoiled form, the divalent metal ion was Mg2+ and the molar ratio of protein to DNA was low. The majority of other LTR DNA sites nicked by pp32 in the presence of Mg2+ were adjacent to or within the dinucleotide CA.


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