The intrinsic flexibility of DNA and the difficulty of identifying its interaction surface have long
been challenges that prevented the development of efficient protein–DNA docking methods …

Protein–DNA interactions are essential for many biological processes. X‐ray crystallography
can provide high‐resolution structures, but protein‐DNA complexes are difficult to crystallize …

Intrinsic flexibility of DNA has hampered the development of efficient protein− DNA docking
methods. In this study we extend HADDOCK (High Ambiguity Driven DOCKing)[C …

Accurate prediction of protein–DNA complexes could provide an important stepping stone
towards a thorough comprehension of vital intracellular processes. Few attempts were made …

We present a protein–DNA docking benchmark containing 47 unbound–unbound test cases
of which 13 are classified as easy, 22 as intermediate and 12 as difficult cases. The latter …

Background Protein-DNA interactions are important for many cellular processes, however
structural knowledge for a large fraction of known and putative complexes is still lacking …

Background Protein-DNA interactions are important for many cellular processes, however
structural knowledge for a large fraction of known and putative complexes is still lacking …

Since Paul Ehrlich formulated his famous principle corpora non agunt nisi fixata [meaning
that a substance is not (biologically) active unless it is bound] at the beginning of the 20th …

Here we present pyDockDNA, which is based on the pyDock program, with a new module
for reading and parsing DNA molecules. The protocol is composed of two major steps …

Protein–RNA and protein–DNA interactions play fundamental roles in many biological
processes. A detailed understanding of these interactions requires knowledge about protein …