Allostery and cooperativity revisited

Q Cui, M Karplus - Protein science, 2008 - Wiley Online Library
Although phenomenlogical models that account for cooperativity in allosteric systems date
back to the early and mid‐60's (eg, the KNF and MWC models), there is resurgent interest in …

Intrinsically disordered proteins play diverse roles in cell signaling

SE Bondos, AK Dunker, VN Uversky - Cell Communication and Signaling, 2022 - Springer
Signaling pathways allow cells to detect and respond to a wide variety of chemical (eg Ca2+
or chemokine proteins) and physical stimuli (eg, sheer stress, light). Together, these …

[图书][B] Structure and function of intrinsically disordered proteins

P Tompa, A Fersht - 2009 - taylorfrancis.com
The existence and functioning of intrinsically disordered proteins (IDPs) challenge the
classical structure-function paradigm that equates function with a well-defined 3D structure …

Protein allostery, signal transmission and dynamics: a classification scheme of allosteric mechanisms

CJ Tsai, A Del Sol, R Nussinov - Molecular Biosystems, 2009 - pubs.rsc.org
Allostery has come of age; the number, breadth and functional roles of documented
proteinallostery cases are rising quickly. Since all dynamic proteins are potentially allosteric …

Quantifying correlations between allosteric sites in thermodynamic ensembles

CL McClendon, G Friedland, DL Mobley… - Journal of chemical …, 2009 - ACS Publications
Allostery describes altered protein function at one site due to a perturbation at another site.
One mechanism of allostery involves correlated motions, which can occur even in the …

From protein sequence to dynamics and disorder with DynaMine

E Cilia, R Pancsa, P Tompa, T Lenaerts… - Nature …, 2013 - nature.com
Protein function and dynamics are closely related; however, accurate dynamics information
is difficult to obtain. Here based on a carefully assembled data set derived from experimental …

Support vector regression scoring of receptor–ligand complexes for rank-ordering and virtual screening of chemical libraries

L Li, B Wang, SO Meroueh - Journal of chemical information and …, 2011 - ACS Publications
The community structure–activity resource (CSAR) data sets are used to develop and test a
support vector machine-based scoring function in regression mode (SVR). Two scoring …

NMR methods to study dynamic allostery

S Grutsch, S Brüschweiler… - PLoS computational …, 2016 - journals.plos.org
Nuclear magnetic resonance (NMR) spectroscopy provides a unique toolbox of
experimental probes for studying dynamic processes on a wide range of timescales, ranging …

Dynamic allostery-based molecular workings of kinase: peptide complexes

LG Ahuja, PC Aoto, AP Kornev… - Proceedings of the …, 2019 - National Acad Sciences
A dense interplay between structure and dynamics underlies the working of proteins,
especially enzymes. Protein kinases are molecular switches that are optimized for their …

Energy propagation and network energetic coupling in proteins

AAST Ribeiro, V Ortiz - The Journal of Physical Chemistry B, 2015 - ACS Publications
Understanding how allosteric proteins respond to changes in their environment is a major
goal of current biological research. We show that these responses can be quantified by …