José A Rodríguez-Martínez, Aaron W Reinke ... Aseem Z Ansari
Cognate site identification uncovers the impact of combinatorial dimerization in specifying new DNA binding sites for human bZIP transcription factors and comprehensive specificity landscapes predict the impact of SNPs on bZIP binding at previously unannotated regulatory loci.
Todd R Riley, Allan Lazarovici ... Harmen J Bussemaker
A biophysically principled algorithm can build quantitative models of protein-DNA binding specificity of unprecedented accuracy from a leading type of high-throughput in vitro binding data.
The core domains of an RNA helicase interact with a wide variety of NTPs and nucleic acids suggesting how related enzymes may have evolved to have diverse functions.
Drosophila has almost all transcription factor binding specificities available to humans; and human transcription factors with divergent specificities operate in cell types that are not found in fruit flies.
The fate of duplicated transcription factors within budding yeast is described, providing insights into the mechanisms that shape transcriptional networks during evolution.
Christina M Zimanyi, Percival Yang-Ting Chen ... Catherine L Drennan
Substrate and effector bound structures of a bacterial ribonucleotide reductase reveal the molecular basis by which substrate preference is modulated by a distal site on the enzyme.
The transcription factor (TF)-binding specificities of Pseudomonas aeruginosa allow us to predict virulence-associated TFs and their target genes, which will facilitate to find effective treatment and prevention for its associated diseases.
Structured RNA elements bind to the human methyltransferase like-3 (METTL3)-METTL14 enzyme complex with high affinity and restrict the formation of N6-deoxymethyladenosine in DNA.
Tuned protein–protein interaction affinity optimizes the repressive function of the ETS family transcription factor Yan in order to contribute specificity and robustness to cell fate specification in the developing Drosophila eye.
Brian PH Metzger, Yeonwoo Park ... Joseph W Thornton
A complete mutational scan of a protein-DNA interface shows that pairwise epistatic interactions among amino acids determine a transcription factor's specificity for DNA and facilitate the evolution of new functions.
