8tkl

Murine NF-kappaB p50 Rel Homology Region homodimer in complex with a Test 16-mer kappaB-like DNA

spinqualitylabelsall models 8tkl, resolution 3.00Å Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image   Print3D Structural highlights 8tkl is a 4 chain structure with sequence from Homo sapiens and Mus musculus. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance. Method: X-ray diffraction, Resolution 3Å Resources: FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT Publication Abstract from PubMed Though originally characterized as an inactive or transcriptionally repressive factor, the NF-kappaB p50 homodimer has become appreciated as a physiologically relevant driver of specific target gene expression. By virtue of its low affinity for cytoplasmic IkappaB protein inhibitors, p50 accumulates in the nucleus of resting cells, where it is a binding target for the transcriptional co-activator IkappaBzeta. In this study, we employed X-ray crystallography to analyze the structure of the p50 homodimer on kappaB DNA from the promoters of human interleukin-6 (IL-6) and neutrophil-gelatinase-associated lipocalin (NGAL) genes, both of which respond to IkappaBzeta. The NF-kappaB p50 homodimer binds 11-bp on IL-6 kappaB DNA, while, on NGAL kappaB DNA, the spacing is 12-bp. This begs the question: what DNA binding mode is preferred by NF-kappaB p50 homodimer? To address this, we engineered a "Test" kappaB-like DNA containing the core sequence 5'-GGGGAATTCCCC-3' and determined its X-ray crystal structure in complex with p50. This revealed that, when presented with multiple options, NF-kappaB p50 homodimer prefers to bind 11-bp, which necessarily imposes asymmetry on the complex despite the symmetry inherent in both the protein and its target DNA, and that the p50 dimerization domain can contact DNA via distinct modes. X-ray Crystallographic Study of Preferred Spacing by the NF-kappaB p50 Homodimer on kappaB DNA.,Zhu N, Mealka M, Mitchel S, Milani C, Acuna LM, Rogers E, Lahana AN, Huxford T Biomolecules. 2023 Aug 26;13(9):1310. doi: 10.3390/biom13091310. PMID:37759710 From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

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