The role of protein loops and linkers in conformational dynamics and allostery

E Papaleo, G Saladino, M Lambrughi… - Chemical …, 2016 - ACS Publications
Proteins are dynamic entities that undergo a plethora of conformational changes that may
take place on a wide range of time scales. These changes can be as small as the rotation of …

Psychrophilic enzymes: from folding to function and biotechnology

G Feller - Scientifica, 2013 - Wiley Online Library
Psychrophiles thriving permanently at near‐zero temperatures synthesize cold‐active
enzymes to sustain their cell cycle. Genome sequences, proteomic, and transcriptomic …

Structural flexibility and protein adaptation to temperature: Molecular dynamics analysis of malate dehydrogenases of marine molluscs

Y Dong, M Liao, X Meng… - Proceedings of the …, 2018 - National Acad Sciences
Orthologous proteins of species adapted to different temperatures exhibit differences in
stability and function that are interpreted to reflect adaptive variation in structural “flexibility.” …

Computer simulations explain the anomalous temperature optimum in a cold-adapted enzyme

J Sočan, M Purg, J Åqvist - Nature communications, 2020 - nature.com
Cold-adapted enzymes from psychrophilic species show the general characteristics of being
more heat labile, and having a different balance between enthalpic and entropic …

Comparing mutagenesis and simulations as tools for identifying functionally important sequence changes for protein thermal adaptation

M Liao, GN Somero, Y Dong - Proceedings of the National …, 2019 - National Acad Sciences
Comparative studies of orthologous proteins of species evolved at different temperatures
have revealed consistent patterns of temperature-related variation in thermal stabilities of …

Targeted Mutation of a Non-catalytic Gating Residue Increases the Rate of Pseudomonas aeruginosa d-Arginine Dehydrogenase Catalytic Turnover

JA Quaye, D Ouedraogo, G Gadda - Journal of Agricultural and …, 2023 - ACS Publications
Commercial food and l-amino acid industries rely on bioengineered d-amino acid oxidizing
enzymes to detect and remove d-amino acid contaminants. However, the bioengineering of …

Flexibility and Stability Trade-Off in Active Site of Cold-Adapted Pseudomonas mandelii Esterase EstK

N Truongvan, SH Jang, CW Lee - Biochemistry, 2016 - ACS Publications
Cold-adapted enzymes exhibit enhanced conformational flexibility, especially in their active
sites, as compared with their warmer-temperature counterparts. However, the mechanism by …

Crucial role of protein flexibility in formation of a stable reaction transition state in an α-amylase catalysis

T Kosugi, S Hayashi - Journal of the American Chemical Society, 2012 - ACS Publications
Conformational flexibility of proteins provides enzymes with high catalytic activity. Although
the conformational flexibility is known to be pivotal for the ligand binding and release, its role …

Dynamic properties of extremophilic subtilisin-like serine-proteases

M Tiberti, E Papaleo - Journal of Structural Biology, 2011 - Elsevier
The investigation of the structural determinants of enzymatic temperature adaptation is a
crucial pre-requisite both in terms of fundamental research and industrial applications to …

Molecular motions and free-energy landscape of serine proteinase K in relation to its cold-adaptation: A comparative molecular dynamics simulation study and the …

P Sang, X Du, LQ Yang, ZH Meng, SQ Liu - RSC advances, 2017 - pubs.rsc.org
The physicochemical bases for enzyme cold-adaptation remain elusive. The current view is
that psychrophilic enzymes are often characterized by enhanced flexibility at low …