Cleary, M. A., Herr, W. (April 1995) Mechanisms for flexibility in DNA sequence recognition and VP16-induced complex formation by the Oct-1 POU domain. Mol Cell Biol, 15 (4). pp. 2090-100. ISSN 0270-7306 (Print)
Abstract
DNA binding by the Oct-1 protein is directed by its POU domain, a bipartite DNA-binding domain made up of a POU-specific (POUS) domain and a POU-homeo (POUH) domain, two helix-turn-helix-containing DNA-binding modules that cooperate in DNA recognition. Although the best-characterized DNA target for Oct-1 binding is the octamer sequence ATGCAAAT, Oct-1 also binds a number of different DNA sequence elements. For example, Oct-1 recognizes a form of the herpes simplex virus VP16-responsive TAATGARAT element, called the (OCTA-)TAATGARAT site, that lacks octamer site similarity. Our studies suggest two mechanisms by which Oct-1 achieves flexible DNA sequence recognition. First, an important arginine found in the Oct-1 POUS domain tolerates substitutions of its base contacts within the octamer site. Second, on the (OCTA-)TAATGARAT site, the POUS domain is located on the side of the POUH domain opposite from where it is located on an octamer site. This flexibility of the Oct-1 POU domain in DNA binding also has an impact on its participation in a multiprotein-DNA complex with VP16. We show that Oct-1 POUS domain residues that contact DNA have different effects on VP16-induced complex formation depending on whether the VP16-responsive element involved has overlapping octamer similarity or not.
| Item Type: | Paper |
|---|---|
| Uncontrolled Keywords: | Amino Acid Sequence Arginine/genetics/metabolism Base Sequence Binding Sites Consensus Sequence DNA/genetics/ metabolism DNA-Binding Proteins/ metabolism Herpes Simplex Virus Protein Vmw65/ metabolism Host Cell Factor C1 Models, Molecular Molecular Sequence Data Nucleic Acid Conformation Octamer Transcription Factor-1 Promoter Regions (Genetics)/ genetics Protein Binding Research Support, U.S. Gov't, P.H.S. Structure-Activity Relationship Transcription Factors/ metabolism |
| Subjects: | bioinformatics > genomics and proteomics > design > amino acid design bioinformatics > genomics and proteomics > genetics & nucleic acid processing bioinformatics > genomics and proteomics > genetics & nucleic acid processing > protein structure, function, modification > protein types > DNA binding protein organism description > virus > herpes simplex virus bioinformatics > genomics and proteomics > genetics & nucleic acid processing > protein structure, function, modification > protein types > transcription factor |
| CSHL Authors: | |
| Communities: | CSHL labs > Herr lab |
| Depositing User: | Jessica Koos |
| Date: | April 1995 |
| Date Deposited: | 15 Aug 2014 18:59 |
| Last Modified: | 15 Aug 2014 18:59 |
| PMCID: | PMC230436 |
| Related URLs: | |
| URI: | https://repository.cshl.edu/id/eprint/30579 |
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