Background Determination of protein-DNA complex structures with both NMR and X-ray
crystallography remains challenging in many cases. High Ambiguity-Driven DOCKing …

Proteins and RNAs are primary biomolecules that are involved in most biological processes.
Coding RNAs are responsible for gene expression and protein synthesis, whereas non …

Protein–protein docking algorithms aim to predict the structure of a complex given the atomic
structures of the proteins that assemble it. The docking procedure usually consists of two …

Many biological processes are mediated by complex interactions between DNA and
proteins. Transcription factors, various polymerases, nucleases and histones recognize and …

DNA–protein interactions are involved in many essential biological activities. Because there
is no simple mapping code between DNA base pairs and protein amino acids, the prediction …

Background Determination of protein-DNA complex structures with both NMR and X-ray
crystallography remains challenging in many cases. High Ambiguity-Driven DOCKing …

In living cells protein–DNA interactions are fundamental processes. Here, we compare the
3D structures of several DNA-binding proteins frequently determined with and without …

Herein we present MELD-DNA, a novel computational approach to address the problem of
protein-DNA structure prediction. This method addresses well-known issues hampering …

Incorporating the dynamic nature of biomolecules in the modeling of their complexes is a
challenge, especially when the extent and direction of the conformational changes taking …

Understanding how proteins specifically bind and recognize DNA has important implications
in the understanding of many diseases and how to combat them. The Knob-Socket model of …