Stability effects of mutations and protein evolvability

N Tokuriki, DS Tawfik - Current opinion in structural biology, 2009 - Elsevier
The past several years have seen novel insights at the interface of protein biophysics and
evolution. The accepted paradigm that proteins can tolerate nearly any amino acid …

Protein kinetic stability

JM Sanchez-Ruiz - Biophysical chemistry, 2010 - Elsevier
The relevance of protein stability for biological function and molecular evolution is widely
recognized. Protein stability, however, comes in two flavours: thermodynamic stability, which …

Mutational studies on resurrected ancestral proteins reveal conservation of site-specific amino acid preferences throughout evolutionary history

VA Risso, F Manssour-Triedo… - Molecular biology …, 2015 - academic.oup.com
Local protein interactions (“molecular context” effects) dictate amino acid replacements and
can be described in terms of site-specific, energetic preferences for any different amino acid …

Stabilizing proteins from sequence statistics: the interplay of conservation and correlation in triosephosphate isomerase stability

BJ Sullivan, T Nguyen, V Durani, D Mathur… - Journal of molecular …, 2012 - Elsevier
Understanding the determinants of protein stability remains one of protein science's greatest
challenges. There are still no computational solutions that calculate the stability effects of …

Triosephosphate isomerase by consensus design: dramatic differences in physical properties and activity of related variants

BJ Sullivan, V Durani, TJ Magliery - Journal of molecular biology, 2011 - Elsevier
Consensus design, the selection of mutations based on the most common amino acid in
each position of a multiple sequence alignment, has proven to be an efficient way to …

Natural selection for kinetic stability is a likely origin of correlations between mutational effects on protein energetics and frequencies of amino acid occurrences in …

R Godoy-Ruiz, F Ariza, D Rodriguez-Larrea… - Journal of molecular …, 2006 - Elsevier
It appears plausible that natural selection constrains, to some extent at least, the stability in
many natural proteins. If, during protein evolution, stability fluctuates within a comparatively …

Molecular information theory meets protein folding

IE Sánchez, EA Galpern, MM Garibaldi… - The Journal of …, 2022 - ACS Publications
We propose an application of molecular information theory to analyze the folding of single
domain proteins. We analyze results from various areas of protein science, such as …

Enhanced vulnerability of human proteins towards disease-associated inactivation through divergent evolution

E Medina-Carmona, JE Fuchs, JA Gavira… - Human molecular …, 2017 - academic.oup.com
Human proteins are vulnerable towards disease-associated single amino acid replacements
affecting protein stability and function. Interestingly, a few studies have shown that …

Inferring stabilizing mutations from protein phylogenies: application to influenza hemagglutinin

JD Bloom, MJ Glassman - PLoS computational biology, 2009 - journals.plos.org
One selection pressure shaping sequence evolution is the requirement that a protein fold
with sufficient stability to perform its biological functions. We present a conceptual framework …

Biliverdin reductase: PKC interaction at the cross-talk of MAPK and PI3K signaling pathways

MD Maines - Antioxidants & redox signaling, 2007 - liebertpub.com
Biliverdin reductase (BVR) was characterized some 25 years ago as a unique dual-
cofactor/pH-dependent enzyme that catalyzes the reduction of biliverdin-IXa. Our knowledge …