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Protein Cofactors Are Essential for High-Affinity DNA Binding by the Nuclear Factor κb RelA Subunit
Mulero M.C.2; Shahabi S.2; Ko M.S.1; Schiffer J.M.2; Huang D.-B.2; Wang V.Y.-F.3; Amaro R.E.2; Huxford T.1; Ghosh G.2
2018-05-22
Source PublicationBiochemistry
ISSN15204995 00062960
Volume57Issue:20Pages:2943-2957
Abstract

Transcription activator proteins typically contain two functional domains: a DNA binding domain (DBD) that binds to DNA with sequence specificity and an activation domain (AD) whose established function is to recruit RNA polymerase. In this report, we show that purified recombinant nuclear factor κB (NF-κB) RelA dimers bind specific κB DNA sites with an affinity significantly lower than that of the same dimers from nuclear extracts of activated cells, suggesting that additional nuclear cofactors might facilitate DNA binding by the RelA dimers. Additionally, recombinant RelA binds DNA with relatively low affinity at a physiological salt concentration in vitro. The addition of p53 or RPS3 (ribosomal protein S3) increases RelA:DNA binding affinity 2- to >50-fold depending on the protein and ionic conditions. These cofactor proteins do not form stable ternary complexes, suggesting that they stabilize the RelA:DNA complex through dynamic interactions. Surprisingly, the RelA-DBD alone fails to bind DNA under the same solution conditions even in the presence of cofactors, suggesting an important role of the RelA-AD in DNA binding. Reduced RelA:DNA binding at a physiological ionic strength suggests that multiple cofactors might be acting simultaneously to mitigate the electrolyte effect and stabilize the RelA:DNA complex in vivo. Overall, our observations suggest that the RelA-AD and multiple cofactor proteins function cooperatively to prime the RelA-DBD and stabilize the RelA:DNA complex in cells. Our study provides a mechanism for nuclear cofactor proteins in NF-κB-dependent gene regulation.

DOI10.1021/acs.biochem.8b00158
URLView the original
Indexed BySCIE
WOS Research AreaBiochemistry & Molecular Biology
WOS SubjectBiochemistry & Molecular Biology
WOS IDWOS:000433404600006
Scopus ID2-s2.0-85046549077
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Citation statistics
Document TypeJournal article
CollectionFaculty of Health Sciences
Affiliation1.San Diego State University
2.University of California, San Diego
3.Universidade de Macau
Recommended Citation
GB/T 7714
Mulero M.C.,Shahabi S.,Ko M.S.,et al. Protein Cofactors Are Essential for High-Affinity DNA Binding by the Nuclear Factor κb RelA Subunit[J]. Biochemistry, 2018, 57(20), 2943-2957.
APA Mulero M.C.., Shahabi S.., Ko M.S.., Schiffer J.M.., Huang D.-B.., Wang V.Y.-F.., Amaro R.E.., Huxford T.., & Ghosh G. (2018). Protein Cofactors Are Essential for High-Affinity DNA Binding by the Nuclear Factor κb RelA Subunit. Biochemistry, 57(20), 2943-2957.
MLA Mulero M.C.,et al."Protein Cofactors Are Essential for High-Affinity DNA Binding by the Nuclear Factor κb RelA Subunit".Biochemistry 57.20(2018):2943-2957.
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