8R7Y image
Entry Detail
PDB ID:
8R7Y
Title:
Deoxyribonucleoside regulator DeoR in complex with the DNA operator
Biological Source:
PDB Version:
Deposition Date:
2023-11-27
Release Date:
2024-06-19
Method Details:
Experimental Method:
Resolution:
3.70 Å
R-Value Free:
0.33
R-Value Work:
0.26
Space Group:
P 65 2 2
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:Deoxyribonucleoside regulator
Chain IDs:A, B, C, D
Chain Length:318
Number of Molecules:4
Biological Source:Bacillus subtilis subsp. subtilis str. 168
Polymer Type:polydeoxyribonucleotide
Description:OL18 DNA operator, strand 1
Chain IDs:E, H
Chain Length:18
Number of Molecules:2
Biological Source:Bacillus subtilis subsp. subtilis str. 168
Polymer Type:polydeoxyribonucleotide
Description:OL18 DNA operator, strand 2
Chain IDs:F, G
Chain Length:18
Number of Molecules:2
Biological Source:Bacillus subtilis subsp. subtilis str. 168
Primary Citation
Structural characterization of two prototypical repressors of SorC family reveals tetrameric assemblies on DNA and mechanism of function.
Nucleic Acids Res. 52 7305 7320 (2024)
PMID: 38842936 DOI: 10.1093/nar/gkae434

Abstact

The SorC family of transcriptional regulators plays a crucial role in controlling the carbohydrate metabolism and quorum sensing. We employed an integrative approach combining X-ray crystallography and cryo-electron microscopy to investigate architecture and functional mechanism of two prototypical representatives of two sub-classes of the SorC family: DeoR and CggR from Bacillus subtilis. Despite possessing distinct DNA-binding domains, both proteins form similar tetrameric assemblies when bound to their respective DNA operators. Structural analysis elucidates the process by which the CggR-regulated gapA operon is derepressed through the action of two effectors: fructose-1,6-bisphosphate and newly confirmed dihydroxyacetone phosphate. Our findings provide the first comprehensive understanding of the DNA binding mechanism of the SorC-family proteins, shedding new light on their functional characteristics.

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