The association of DNA binding proteins with the nuclear matrix may be related to a functional role of this subcellular structure in chromatin organization and gene regulation. In this study, nuclear matrix preparations from human HeLa S3 cervical carcinoma and rat ROS 17/2.8 osteosarcoma cells were assayed for the presence of DNA binding activities using consensus binding sequences of well-characterized transcription factors as probes. Competition analysis shows that each probe interacts with different nuclear matrix proteins in a sequence-specific manner and that DNA binding activities related to or identical with SP-1, ATF, CCAAT, C/EBP, OCT-1, and AP-1 are present in the nuclear matrix fraction of different cell types. Comparison of the relative abundance of these transcription factor binding activities in nuclear matrix and nonmatrix nuclear fractions suggests that the distribution between these two fractions is cell type specific, cell growth dependent, or independent of these biological parameters. These results are consistent with the postulated role of the nuclear matrix in transcriptional regulation of gene expression.
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