The atomic structure of protein-protein recognition sites

LL Conte, C Chothia, J Janin - Journal of molecular biology, 1999 - Elsevier
The non-covalent assembly of proteins that fold separately is central to many biological
processes, and differs from the permanent macromolecular assembly of protein subunits in …

A dissection of specific and non-specific protein–protein interfaces

RP Bahadur, P Chakrabarti, F Rodier, J Janin - Journal of molecular biology, 2004 - Elsevier
We compare the geometric and physical–chemical properties of interfaces involved in
specific and non-specific protein–protein interactions in crystal structures reported in the …

The interface of protein-protein complexes: analysis of contacts and prediction of interactions

RP Bahadur, M Zacharias - Cellular and Molecular Life Sciences, 2008 - Springer
Specific protein-protein interactions are essential for cellular functions. Experimentally
determined three-dimensional structures of protein-protein complexes offer the possibility to …

Studies of protein‐protein interfaces: a statistical analysis of the hydrophobic effect

CJ Tsai, SL Lin, HJ Wolfson, R Nussinov - Protein Science, 1997 - Wiley Online Library
Data sets of 362 structurally nonredundant protein‐protein interfaces and of 57 symmetry‐
related oligomeric interfaces have been used to explore whether the hydrophobic effect that …

Dissecting protein–protein recognition sites

P Chakrabarti, J Janin - Proteins: Structure, Function, and …, 2002 - Wiley Online Library
The recognition sites in 70 pairwise protein–protein complexes of known three‐dimensional
structure are dissected in a set of surface patches by clustering atoms at the interface. When …

Revisiting the Voronoi description of protein–protein interfaces

F Cazals, F Proust, RP Bahadur, J Janin - Protein Science, 2006 - Wiley Online Library
We developed a model of macromolecular interfaces based on the Voronoi diagram and the
related alpha‐complex, and we tested its properties on a set of 96 protein–protein …

Protein–protein interactions: hot spots and structurally conserved residues often locate in complemented pockets that pre-organized in the unbound states …

X Li, O Keskin, B Ma, R Nussinov, J Liang - Journal of molecular biology, 2004 - Elsevier
Energetic hot spots account for a significant portion of the total binding free energy and
correlate with structurally conserved interface residues. Here, we map experimentally …

Protein–protein interactions: General trends in the relationship between binding affinity and interfacial buried surface area

J Chen, N Sawyer, L Regan - Protein Science, 2013 - Wiley Online Library
Protein–protein interactions play key roles in many cellular processes and their affinities and
specificities are finely tuned to the functions they perform. Here, we present a study on the …

[PDF][PDF] Macromolecular recognition in the protein data bank

J Janin, F Rodier, P Chakrabarti… - … Section D: Biological …, 2007 - journals.iucr.org
Crystal structures deposited in the Protein Data Bank illustrate the diversity of biological
macromolecular recognition: transient interactions in protein–protein and protein–DNA …

On the role of electrostatic interactions in the design of protein–protein interfaces

FB Sheinerman, B Honig - Journal of molecular biology, 2002 - Elsevier
Here, the methods of continuum electrostatics are used to investigate the contribution of
electrostatic interactions to the binding of four protein–protein complexes; barnase–barstar …