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

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 …

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 …

Motivation: Computational modeling of protein–DNA complexes remains a challenging
problem in structural bioinformatics. One of the key factors for a successful protein–DNA …

Proteins and nucleic acids are essential biological macromolecules for cell life. Indeed,
interactions between proteins and DNA regulate many biological processes such as protein …

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 …

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 …

We consider the identification of interacting protein-nucleic acid partners using the rigid
body docking method FTdock, which is systematic and exhaustive in the exploration of …

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 …

Protein–protein and protein–DNA/RNA interactions play a fundamental role in a variety of
biological processes. Determining the complex structures of these interactions is valuable, in …