Results 101 to 110 of about 2,072,080 (375)

The ONETEP linear-scaling density functional theory program.

Journal of Chemical Physics, 2020
We present an overview of the onetep program for linear-scaling density functional theory (DFT) calculations with large basis set (plane-wave) accuracy on parallel computers.
Joseph C. A. Prentice, Jolyon Aarons, J. C. Womack, A. Allen, L. Andrinopoulos, L. Anton, R. Bell, Arihant Bhandari, Gabriel A Bramley, R. Charlton, R. J. Clements, D. Cole, G. Constantinescu, F. Corsetti, S. Dubois, K. K. Duff, J. M. Escartín, A. Greco, Quintin Hill, Louis P. Lee, E. Linscott, D. O’Regan, M. J. Phipps, L. Ratcliff, Álvaro Ruiz Serrano, E. Tait, G. Teobaldi, V. Vitale, N. Yeung, T. Zuehlsdorff, J. Dziedzic, P. Haynes, N. Hine, A. Mostofi, M. Payne, Chris-Kriton Skylaris   +35 more
semanticscholar   +1 more source

In situ molecular organization and heterogeneity of the Legionella Dot/Icm T4SS

FEBS Letters, EarlyView.
We present a nearly complete in situ model of the Legionella Dot/Icm type IV secretion system, revealing its central secretion channel and identifying new components. Using cryo‐electron tomography with AI‐based modeling, our work highlights the structure, variability, and mechanism of this complex nanomachine, advancing understanding of bacterial ...
Przemysław Dutka, Yuxi Liu, Stefano Maggi, Debnath Ghosal, Jue Wang, Prashant P. Damke, Stephen D. Carter, Wei Zhao, Sukhithasri Vijayrajratnam, Joseph P. Vogel, Carrie L. Shaffer, Grant J. Jensen   +11 more
wiley   +1 more source

Sequence determinants of RNA G‐quadruplex unfolding by Arg‐rich regions

FEBS Letters, EarlyView.
We show that Arg‐rich peptides selectively unfold RNA G‐quadruplexes, but not RNA stem‐loops or DNA/RNA duplexes. This length‐dependent activity is inhibited by acidic residues and is conserved among SR and SR‐related proteins (SRSF1, SRSF3, SRSF9, U1‐70K, and U2AF1).
Naiduwadura Ivon Upekala De Silva, Puspa Kunwar, Md Ibnul Rifat Rahman, Joanna Koryo Kwao, Nathan Lehman, Zihan Zhang, Trenton Paul, Claire Cheng, Nicholas Truex, Hui‐Ting Lee, Jun Zhang   +10 more
wiley   +1 more source

Efficient learning of a one-dimensional density functional theory

Physical Review Research, 2020
Density functional theory underlies the most successful and widely used numerical methods for electronic structure prediction of solids. However, it has the fundamental shortcoming that the universal density functional is unknown.
M. Michael Denner, Mark H. Fischer, Titus Neupert   +2 more
doaj   +1 more source

Progress in Time-Dependent Density-Functional Theory

, 2011
The classic density-functional theory (DFT) formalism introduced by Hohenberg, Kohn, and Sham in the mid-1960s, is based upon the idea that the complicated N-electron wavefunction can be replaced with the mathematically simpler 1-electron charge density ...
Casida M., Casida ME., Frenkel J., Gatti M, Li Z, M. Huix-Rotllant, M.E. Casida   +6 more
core   +2 more sources

PICALM::MLLT10 translocated leukemia

FEBS Letters, EarlyView.
This comprehensive review of PICALM::MLLT10 translocated acute leukemia provides an in‐depth review of the structure and function of CALM, AF10, and the fusion oncoprotein (1). The multifaceted molecular mechanisms of oncogenesis, including nucleocytoplasmic shuttling (2), epigenetic modifications (3), and disruption of endocytosis (4), are then ...
John M. Cullen, Antonia C. Nakatsugawa, Natalie Barton, Henry Haines, Gary S. Stein, Janet L. Stein, Daniel S. Wechsler, Jessica L. Heath   +7 more
wiley   +1 more source

Open shells in reduced-density-matrix-functional theory

, 2005
Reduced-density-matrix-functional theory is applied to open-shell systems. We introduce a spin-restricted formulation by appropriately expressing approximate correlation-energy functionals in terms of spin-dependent occupation numbers and spin ...
A. M. K. Müller, E. K. U. Gross, N. Helbig, N. N. Lathiotakis   +3 more
core   +1 more source

Cell wall target fragment discovery using a low‐cost, minimal fragment library

FEBS Letters, EarlyView.
LoCoFrag100 is a fragment library made up of 100 different compounds. Similarity between the fragments is minimized and 10 different fragments are mixed into a single cocktail, which is soaked to protein crystals. These crystals are analysed by X‐ray crystallography, revealing the binding modes of the bound fragment ligands.
Kaizhou Yan, Mathew Stanley, Olawale Raimi, Andrew T. Ferenbach, Helge C Dorfmueller, Daan M. F. van Aalten   +5 more
wiley   +1 more source

Phase-space approach to dynamical density functional theory

, 2007
We consider a system of interacting particles subjected to Langevin inertial dynamics and derive the governing time-dependent equation for the one-body density. We show that, after suitable truncations of the Bogoliubov-Born-Green-Kirkwood-Yvon hierarchy,
Bender C. M., de Groot S. R., Enskog D., Evans R., Gardiner C., Hansen J.-P., Harris S., Hassani S., Kreuzer H. J., McLennan J. A., Nayfeh A., Reichl L. E., Simone Melchionna, Umberto Marini Bettolo Marconi, van Kampen N., von Smoluchowski M.   +15 more
core   +1 more source

Cell density–dependent nuclear‐cytoplasmic shuttling of SETDB1 integrates with Hippo signaling to regulate YAP1‐mediated transcription

FEBS Letters, EarlyView.
At low cell density, SETDB1 and YAP1 accumulate in the nucleus. As cell density increases, the Hippo pathway is gradually activated, and SETDB1 is associated with increased YAP1 phosphorylation. At high cell density, phosphorylated YAP1 is sequestered in the cytoplasm, while SETDB1 becomes polyubiquitinated and degraded by the ubiquitin–proteasome ...
Jaemin Eom, Jaewoong Jang, Jung Sun Park, Yong‐Kook Kang   +3 more
wiley   +1 more source