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Volume 271, Number 34, Issue of August 23, 1996 pp. 20958-20964
©1996 by The American Society for Biochemistry and Molecular Biology, Inc.

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The Development and Use of a DNA Polymerase Arrest Assay for the Evaluation of Parameters Affecting Intrastrand Tetraplex Formation

(Received for publication, March 5, 1996, and in revised form, May 16, 1996)

From the Section on Genomic Structure and Function, Laboratory of Biochemical Pharmacology, NIDDK, National Institutes of Health, Bethesda, Maryland 20892-0830

We show here that a K⁺-dependent block to DNA synthesis is a sensitive and specific indicator of intrastrand tetraplex formation that can be used, both to identify sequences with tetraplex-forming potential and to examine parameters that affect tetraplex formation. We show that tetraplex formation is determined by a complex combination of factors including the size and base composition of its constituent loops and stems. In the process of carrying out this study we have found that the number of sequences with the ability to form tetraplexes is larger than previously thought, and that such sequences are ubiquitous in eukaryote genomes.

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