5H20

X-ray structure of PadR-like Transcription factor from bacteroid fragilis

Summary for 5H20

• Entry DOI: 10.2210/pdb5h20/pdb
• Descriptor: Putative PadR-family transcriptional regulatory protein, PHOSPHATE ION, alpha-D-glucopyranose, ... (5 entities in total)
• Functional Keywords: bacteroid fragilis, transcription factor, padr, transcription regulator
• Biological source: Bacteroides fragilis
• Total number of polymer chains: 1
• Total formula weight: 13448.10

Authors

Lee, C.,Hong, M. (deposition date: 2016-10-13, release date: 2017-03-08, Last modification date: 2023-11-08)

Primary citation

Lee, C.,Kim, M.I.,Hong, M.
Structural and functional analysis of BF2549, a PadR-like transcription factor from Bacteroides fragilis.
Biochem. Biophys. Res. Commun., 483:264-270, 2017

PubMed Abstract: A phenolic acid decarboxylase (padC) regulator, PadR and its homologs proteins belong to the PadR family. Despite the growing numbers of the PadR family members and their various roles in bacteria, such as detoxifications, drug transports and circadian rhythms, biochemical and biophysical studies of the PadR family are very limited. Thus, a ligand-induced regulatory mechanism of the PadR family transcription factors remains to be elucidated. Here, we report a crystal structure of a Bacteroides fragilis PadR-like protein, BF2549 and revealed its interaction with putative operator DNA and ligand molecules. Comparative structural and primary sequence analyses provide a PadR-specific motif that is conserved in the PadR family but deviated from the MarR family. Furthermore, putative ligand binding sites are observed in the BF2549 structure. Finally, a homology-based structure model of BF2549 and 29-mer dsDNA propose regulatory mechanisms of the PadR family in transcriptional derepression.

PubMed: 28027933
DOI: 10.1016/j.bbrc.2016.12.155

Experimental method

X-RAY DIFFRACTION (2.5 Å)