Aromatic–proline interactions: electronically tunable CH/π interactions

NJ Zondlo - Accounts of chemical research, 2013 - ACS Publications
Proline residues have unique roles in protein folding, structure, and function. Proline and the
aromatic amino acids comprise the encoded cyclic protein residues. Aromatic protein side …

[HTML][HTML] SH3 domain ligand binding: What's the consensus and where's the specificity?

K Saksela, P Permi - FEBS letters, 2012 - Elsevier
An increasing number of SH3 domain–ligand interactions continue to be described that
involve the conserved peptide-binding surface of SH3, but structurally deviate substantially …

[图书][B] Introduction to proteins: structure, function, and motion

A Kessel, N Ben-Tal - 2018 - taylorfrancis.com
Introduction to Proteins provides a comprehensive and state-of-the-art introduction to the
structure, function, and motion of proteins for students, faculty, and researchers at all levels …

Specificity and versatility of SH3 and other proline-recognition domains: structural basis and implications for cellular signal transduction

SSC Li - Biochemical Journal, 2005 - portlandpress.com
Protein–protein interactions occurring via the recognition of short peptide sequences by
modular interaction domains play a central role in the assembly of signalling protein …

Prediction of water and metal binding sites and their affinities by using the Fold-X force field

JWH Schymkowitz, F Rousseau… - Proceedings of the …, 2005 - National Acad Sciences
The empirical force field Fold-X was developed previously to allow rapid free energy
calculations in proteins. Here, we present an enhanced version of the force field allowing …

Biophysical prediction of protein–peptide interactions and signaling networks using machine learning

JM Cunningham, G Koytiger, PK Sorger… - Nature methods, 2020 - nature.com
In mammalian cells, much of signal transduction is mediated by weak protein–protein
interactions between globular peptide-binding domains (PBDs) and unstructured peptidic …

The ambivalent role of proline residues in an intrinsically disordered protein: from disorder promoters to compaction facilitators

B Mateos, C Conrad-Billroth, M Schiavina… - Journal of molecular …, 2020 - Elsevier
Intrinsically disordered proteins (IDPs) carry out many biological functions. They lack a
stable three-dimensional structure, but rather adopt many different conformations in dynamic …

Evolution of in silico strategies for protein-protein interaction drug discovery

SJY Macalino, S Basith, NAB Clavio, H Chang, S Kang… - Molecules, 2018 - mdpi.com
The advent of advanced molecular modeling software, big data analytics, and high-speed
processing units has led to the exponential evolution of modern drug discovery and better …

The molecular architecture of protein–protein binding sites

D Reichmann, O Rahat, M Cohen, H Neuvirth… - Current opinion in …, 2007 - Elsevier
The formation of specific protein interactions plays a crucial role in most, if not all, biological
processes, including signal transduction, cell regulation, the immune response and others …

Structure of a BCOR corepressor peptide in complex with the BCL6 BTB domain dimer

AF Ghetu, CM Corcoran, L Cerchietti, VJ Bardwell… - Molecular cell, 2008 - cell.com
The transcriptional corepressors BCOR, SMRT, and NCoR are known to bind competitively
to the BCL6 BTB domain despite the fact that BCOR has no detectable sequence similarity …