ArticleBiophysical journal2010
Thermo- and mesostabilizing protein interactions identified by temperature-dependent statistical potentials.
Article in Biophysical journal, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
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Who cites it
23 citing papers in PubMed.
- Molecular Cloning, Optimization of Expression and Functional Characterization of the Global Transcriptional Regulator MosR (Rv0348) of Mycobacterium tuberculosis.Applied biochemistry and biotechnology · 2025Article
- Neural network conditioned to produce thermophilic protein sequences can increase thermal stability.Scientific reports · 2025Article
- Comparison of enriched charge variants from different anti-CD3 bispecific antibodies reveals differential susceptibility of each bispecific arm to post-translational modification.Protein science : a publication of the Protein Society · 2025Article
- Thermal Adaptation of Cytosolic Malate Dehydrogenase Revealed by Deep Learning and Coevolutionary Analysis.Journal of chemical theory and computation · 2025Article
- Application of SUMO fusion technology for the enhancement of stability and activity of lysophospholipase from Pyrococcus abyssi.World journal of microbiology & biotechnology · 2024Article
- TemBERTure: advancing protein thermostability prediction with deep learning and attention mechanisms.Bioinformatics advances · 2024Article
- Expression and Molecular Modification of Chitin Deacetylase fromMolecules (Basel, Switzerland) · 2022Article
- Spatial organization of hydrophobic and charged residues affects protein thermal stability and binding affinity.Scientific reports · 2022Article
- Bispecific antibodies-effects of point mutations on CH3-CH3 interface stability.Protein engineering, design & selection : PEDS · 2022Article
- The Mutational Robustness of the Genetic Code and Codon Usage in Environmental Context: A Non-Extremophilic Preference?Life (Basel, Switzerland) · 2021Article
- Parallel molecular mechanisms for enzyme temperature adaptation.Science (New York, N.Y.) · 2021Article
- Structural and thermodynamic analysis of factors governing the stability and thermal folding/unfolding of SazCA.PloS one · 2021Article
- BRANEart: Identify Stability Strength and Weakness Regions in Membrane Proteins.Frontiers in bioinformatics · 2021Article
- Mesophilic Pyrophosphatase Function at High Temperature: A Molecular Dynamics Simulation Study.Biophysical journal · 2020Article
- Insights on protein thermal stability: a graph representation of molecular interactions.Bioinformatics (Oxford, England) · 2019Article
- Computational analysis of the amino acid interactions that promote or decrease protein solubility.Scientific reports · 2018Article
- Improved insights into protein thermal stability: from the molecular to the structurome scale.Philosophical transactions. Series A, Mathematical, physical, and engineering sciences · 2016Article
- Predicting protein thermal stability changes upon point mutations using statistical potentials: Introducing HoTMuSiC.Scientific reports · 2016Article
- The hydrophobic temperature dependence of amino acids directly calculated from protein structures.PLoS computational biology · 2015Article
- The fundamental tradeoff in genomes and proteomes of prokaryotes established by the genetic code, codon entropy, and physics of nucleic acids and proteins.Biology direct · 2014Article
Corrections and comments
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The goal of controlling protein thermostability is tackled here through establishing, by in silico analyses, the relative weight of residue-residue interactions in proteins as a function of temperature. We have designed for that purpose a (melting-) temperature-dependent, statistical distance potential, where the interresidue distances are computed between the side-chain geometric centers or their functional centers. Their separate derivation from proteins of either high or low thermal resistance reveals the interactions that contribute most to stability in different temperature ranges. Thermostabilizing interactions include salt bridges and cation-pi interactions (especially those involving arginine), aromatic interactions, and H-bonds between negatively charged and some aromatic residues. In contrast, H-bonds between two polar noncharged residues or between a polar noncharged residue and a negatively charged residue are relatively less stabilizing at high temperatures. An important observation is that it is necessary to consider both repulsive and attractive interactions in overall thermostabilization, as the degree of repulsion may also vary with temperature. These temperature-dependent potentials are not only useful for the identification of meso- and thermostabilizing pair interactions, but also exhibit predictive power, as illustrated by their ability to predict the melting temperature of a protein based on the melting temperature of homologous proteins.
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