DNA controls the dimerization of the human FoxP1 forkhead domain.

Transcription factors (TFs) regulate gene expression by binding to specific DNA sequences and gating access to genes. Even when the binding of TFs and their cofactors to DNA is reversible, indicating a reversible control of gene expression, there is little knowledge about the molecular effect DNA has on TFs. Using single-molecule multiparameter fluorescence spectroscopy, molecular dynamics simulations, and biochemical assays, we find that the monomeric form of the forkhead (FKH) domain of the human FoxP1 behaves as a disordered protein and increases its folded population when it dimerizes. Notably, DNA binding promotes a disordered FKH dimer bound to DNA, negatively controlling the stability of the dimeric FoxP1:DNA complex. The DNA-mediated reversible regulation on FKH dimers suggests that FoxP1-dependent gene suppression is unstable, and it must require the presence of other dimerization domains or cofactors to revert the negative impact exerted by the DNA.

Ab initio calculations for industrial materials engineering: successes and challenges.

Computational materials science based on ab initio calculations has become an important partner to experiment. This is demonstrated here for the effect of impurities and alloying elements on the strength of a Zr twist grain boundary, the dissociative adsorption and diffusion of iodine on a zirconium surface, the diffusion of oxygen atoms in a Ni twist grain boundary and in bulk Ni, and the dependence of the work function of a TiN-HfO(2) junction on the replacement of N by O atoms. In all of these cases, computations provide atomic-scale understanding as well as quantitative materials property data of value to industrial research and development. There are two key challenges in applying ab initio calculations, namely a higher accuracy in the electronic energy and the efficient exploration of large parts of the configurational space. While progress in these areas is fueled by advances in computer hardware, innovative theoretical concepts combined with systematic large-scale computations will be needed to realize the full potential of ab initio calculations for industrial applications.

The generation of domain boundaries in catalytically-grown carbon nanotubes.

Arrays of catalytically-grown multi-wall carbon nanotubes were grown using identical conditions in a chemical vapor deposition environment, but cooled at different cooling rates, to identify the influence of cooling rate on the structural properties of the nanotube at the catalyst-wall interface. Ex-situ transmission electron microscopy led to the identification of twist, twin, and tilt domain boundaries in all samples irrespective of cooling rate. In addition, the relative position of twist, twin, and tilt domain boundaries in nanotubes cooled at different rates was maintained uniformly across all samples cooled at different rates. The results are interpreted in light of the concurrence of base- and tip-growth for the catalytic synthesis of nanotubes, suggesting a rather steady position occupied by the domain boundaries coupled to the catalytic particles.