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Volume 272, Number 52, Issue of December 26, 1997 pp. 33344-33352

Characterization of Two Protein Activities That Interact at the Promoter of the Trypanosomatid Spliced Leader RNA

(Received for publication, August 6, 1997, and in revised form, October 8, 1997)

From the Department of Microbiology and Molecular Genetics, UMDNJ-New Jersey Medical School, Newark, New Jersey 07103

All trypanosome mRNAs have a spliced leader (SL). The SL RNA gene in Leptomonas seymouri is a member of the small nuclear RNA gene family. However, the SL RNA is required in stoichiometric amounts for trans-splicing during mRNA formation. Expression of the SL RNA gene requires sequence elements at bp 60 to 70 and bp 30 to 40 upstream from the transcription initiation site. Using conventional and affinity chromatography, we have identified and characterized an ~122-kDa protein, promoter-binding protein (PBP) 1, that binds to double-strand DNA. The PBP-1-binding site is within the bp 60 to 70 element determined by DNase I footprinting. Therefore, PBP-1 is the first characterized double-strand DNA binding activity that interacts with a trypanosome gene promoter. A second protein, PBP-2, interacts with the PBP-1:DNA complex and its DNase I footprint extends to include the second promoter element (bp 30 to 40). An alteration of the spacing between the two promoter elements or mutation of the second element decreases PBP-2/PBP-1:DNA stability. Taken together, these data suggest that PBP-1 and PBP-2 are components of a transcription initiation complex that assembles within the SL RNA gene promoter.

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