Stability effects of mutations and protein evolvability.

No abstract is available for this paper.

• Publication year

  2009

• Venue

  Current Opinion in Structural Biology

• Publication date

  2009-10-01

• Fields of study

  Biology, Medicine, Chemistry

• Identifiers
  DOI 10.1016/j.sbi.2009.08.003PMID 19765975
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

• Directed evolution of serum paraoxonase PON3 by family shuffling and ancestor/consensus mutagenesis, and its biochemical characterization.

  2009cited by this paper
• Do viral proteins possess unique biophysical features?

  2009influential reference
• Knowledge-guided laboratory evolution of protein thermolability.

  2009cited by this paper
• Chaperonin overexpression promotes genetic variation and enzyme evolution

  2009cited by this paper
• Potential role of phenotypic mutations in the evolution of protein expression and stability

  2009cited by this paper
• Lethal Mutagenesis in Viruses and Bacteria

  2009cited by this paper
• Analysis of the fitness effect of compensatory mutations

  2009cited by this paper
• Protein Dynamism and Evolvability

  2009cited by this paper
• In the Light of Evolution III: Two Centuries of Darwin Sackler Colloquium: In the light of directed evolution: Pathways of adaptive protein evolution

  2009cited by this paper
• Invivo folding efficiencies for mutants of the P22 tailspike beta-helix protein correlate with predicted stability changes.

  2009cited by this paper
• SPROUTS: a database for the evaluation of protein stability upon point mutation

  2008cited by this paper
• Thermostable variants constructed via the structure-guided consensus method also show increased stability in salts solutions and homogeneous aqueous-organic media.

  2008cited by this paper
• Towards quantitative predictions in cell biology using chemical properties of proteins.

  2008cited by this paper
• Palaeotemperature trend for Precambrian life inferred from resurrected proteins

  2008cited by this paper
• Intense neutral drifts yield robust and evolvable consensus proteins.

  2008cited by this paper
• Mistranslation-induced protein misfolding as a dominant constraint on coding-sequence evolution.

  2008cited by this paper
• How Protein Stability and New Functions Trade Off

  2008cited by this paper
• Protein stability imposes limits on organism complexity and speed of molecular evolution

  2007cited by this paper
• Genetic Constraints on Protein Evolution

  2007cited by this paper
• iPTREE-STAB: interpretable decision tree based method for predicting protein stability changes upon mutations

  2007cited by this paper
• The highly cooperative folding of small naturally occurring proteins is likely the result of natural selection.

  2007cited by this paper
• The stability effects of protein mutations appear to be universally distributed.

  2007cited by this paper
• Crystal Structure of an Ancient Protein: Evolution by Conformational Epistasis

  2007cited by this paper
• Correlation of levels of folded recombinant p53 in escherichia coli with thermodynamic stability in vitro.

  2007cited by this paper
• Stability for function trade-offs in the enolase superfamily "catalytic module".

  2007cited by this paper
• Designing thermostable proteins: ancestral mutants of 3-isopropylmalate dehydrogenase designed by using a phylogenetic tree.

  2006cited by this paper
• Protein stability promotes evolvability.

  2006cited by this paper
• Identification and analysis of deleterious human SNPs.

  2006cited by this paper
• Using Model Proteins to Quantify the Effects of Pathogenic Mutations in Ig-like Proteins*♦

  2006cited by this paper
• Genetic selection for critical residues in ribonucleases.

  2006cited by this paper
• CUPSAT: prediction of protein stability upon point mutations

  2006cited by this paper
• Robustness–epistasis link shapes the fitness landscape of a randomly drifting protein

  2006cited by this paper
• An integrated view of protein evolution

  2006cited by this paper
• Assessing the Accuracy of Ancestral Protein Reconstruction Methods

  2006cited by this paper
• Darwinian Evolution Can Follow Only Very Few Mutational Paths to Fitter Proteins

  2006cited by this paper
• Direct Demonstration of an Adaptive Constraint

  2006cited by this paper
• Loss of protein structure stability as a major causative factor in monogenic disease.

  2005cited by this paper
• PERSPECTIVE: SIGN EPISTASIS AND GENETIC COSTRAINT ON EVOLUTIONARY TRAJECTORIES

  2005cited by this paper
• I-Mutant2.0: predicting stability changes upon mutation from the protein sequence or structure

  2005cited by this paper
• Robustness and Evolvability in Living Systems

  2005cited by this paper
• Missense meanderings in sequence space: a biophysical view of protein evolution

  2005cited by this paper
• Why highly expressed proteins evolve slowly.

  2005cited by this paper
• Predicting the tolerance of proteins to random amino acid substitution.

  2005cited by this paper
• Robustness, evolvability, and neutrality

  2005cited by this paper
• Predicting protein stability changes from sequences using support vector machines

  2005cited by this paper
• Prediction of protein stability changes for single‐site mutations using support vector machines

  2005cited by this paper
• The Selective Cause of an Ancient Adaptation

  2005cited by this paper
• Investigating the Effects of Mutations on Protein Aggregation in the Cell*

  2005cited by this paper
• A stability pattern of protein hydrophobic mutations that reflects evolutionary structural optimization.

  2005cited by this paper
• PERSPECTIVE:SIGN EPISTASIS AND GENETIC CONSTRAINT ON EVOLUTIONARY TRAJECTORIES

  2005cited by this paper
• Thermodynamic prediction of protein neutrality.

  2004cited by this paper
• SNPeffect: a database mapping molecular phenotypic effects of human non-synonymous coding SNPs

  2004cited by this paper
• Between genotype and phenotype: protein chaperones and evolvability

  2003cited by this paper
• EVOLUTION AND DETECTION OF GENETIC ROBUSTNESS

  2003cited by this paper
• Predicting changes in the stability of proteins and protein complexes: a study of more than 1000 mutations.

  2002cited by this paper
• Evolution of an antibiotic resistance enzyme constrained by stability and activity trade-offs.

  2002cited by this paper
• Corresponding authors:

  2002influential reference
• Energy estimation in protein design.

  2002cited by this paper
• Designability of lattice model heteropolymers.

  2001cited by this paper
• Engineering proteins for thermostability: the use of sequence alignments versus rational design and directed evolution.

  2001cited by this paper
• PoPMuSiC, an algorithm for predicting protein mutant stability changes: application to prion proteins.

  2000cited by this paper
• The consensus concept for thermostability engineering of proteins.

  2000cited by this paper
• How are model protein structures distributed in sequence space?

  1997cited by this paper
• Double-mutant cycles: a powerful tool for analyzing protein structure and function.

  1996cited by this paper
• A relationship between protein stability and protein function.

  1995cited by this paper
• Additivity of mutational effects in proteins.

  1990cited by this paper

• Chronic Granulomatous Disease: Clinical and Molecular Characterization of Brazilian Patients

  2026cites this paper
• Deconvolving mutation effects on protein stability and function with disentangled protein language models

  2026cites this paper
• Integration of Evolutionary Analysis With RFdiffusion for De Novo Design of Aggregation-Resistant Frataxin.

  2026cites this paper
• Comparing the evolvability of an ancestrally reconstructed and modern adenylate kinase

  2026cites this paper
• Beyond the Mutation Abyss: Revisiting SARS-CoV-2 Receptor-Binding Domain Evolution from ACE2 Binding Optimization to Immune Epitope Remodeling

  2026cites this paper
• Selective control of ligand binding through a distal mutation that alters the protein native ensemble.

  2026cites this paper
• Evolutionary causes and consequences of gene duplication.

  2026cites this paper
• Topological metrics as evolutionary and dynamical descriptors of conformational landscapes within protein families.

  2026cites this paper
• Lessons learned on how to reengineer enzymes for improved performance in ionic liquids: insights from BSLA saturation mutagenesis library

  2026cites this paper
• Dynamic signature of activity-stability tradeoff in lactamase evolution

  2026cites this paper
• Gim3 buffers and potentiates de novo mutations that affect fluconazole susceptibility in yeast.

  2026cites this paper
• Computational Design of a Highly Stable Dicopper Catechol Oxidase.

  2026cites this paper
• AFToolkit: a framework for molecular modeling of proteins with AlphaFold-derived representations

  2025cites this paper
• Multifaceted microbial enzyme nattokinase: a comprehensive review on therapeutics applications, production technologies and intellectual property landscape

  2025cites this paper
• Enhancing Functional Protein Design Using Heuristic Optimization and Deep Learning for Anti‐Inflammatory and Gene Therapy Applications

  2025cites this paper
• Functionally constrained human proteins are less prone to mutational instability from single amino acid substitutions

  2025cites this paper
• Mutant Strain of Aspergillus aculeatinus Boosts Total Phenolic Compounds and Sugar Recovery from Coffee Residues via Enzyme-Assisted Extraction

  2025cites this paper
• Entropy-driven zero-shot deep learning model selection for viral proteins

  2025cites this paper
• Directed Evolution of a Modular Polyketide Synthase Thioesterase for Generation of a Hybrid Macrocyclic Ring System.

  2025cites this paper
• Integration of protein stability and AlphaMissense scores improves bioinformatic impact prediction for p53 missense and in-frame amino acid deletion variants.

  2025cites this paper
• Influence of the ACE2, TMPRSS2, TYK2, SLC6A20, and IFNAR2 gene variants on susceptibility to SARS-CoV-2 infection

  2025cites this paper
• Decoding the effects of mutation on protein interactions using machine learning.

  2025cites this paper
• Atomic density distributions in proteins: structural and functional implications.

  2025cites this paper
• Factors controlling protein evolvability—at the molecular scale

  2025cites this paper
• Pervasive Divergence in Protein Thermostability is Mediated by Both Structural Changes and Cellular Environments

  2025cites this paper
• Accurate prediction of protein stability changes from single mutations using self-distillation and antisymmetric constraint strategies

  2025cites this paper
• Discovery, expression, and characterization of highly tolerant superoxide dismutases from extremophiles for potential industrial applications.

  2025cites this paper
• Protein Catalysis Through Structural Dynamics: A Comprehensive Analysis of Energy Conversion in Enzymatic Systems and Its Computational Limitations

  2025cites this paper
• OrgNet: orientation-gnostic protein stability assessment using convolutional neural networks

  2025cites this paper
• Selective silencing of antibiotic-tethered ribosomes as a resistance mechanism against aminoglycosides

  2025cites this paper
• A methodology for calculating the rarity of diverse proteins based on functional specificity and thermodynamic stability

  2025influential citation
• From duplication to fusion: Expanding Dayhoff's model of protein evolution

  2025cites this paper
• Report of a missense TJP2 variant associated to PFIC4 with a pronounced phenotypic variability: Focus on the structural effects on the protein level

  2025cites this paper
• From traditional to AI-driven: The evolution of intelligent enzyme engineering for biocatalysis.

  2025cites this paper
• Interpretable Thermodynamic Score-based Classification of Relaxation Excursions

  2025cites this paper
• Accurate predictions of protein mutational effects accelerated with a hybrid-topology free energy protocol

  2025cites this paper
• Identification of Genes Related to Rapid Growth of Giant Grouper (Epinephelus lanceolatus) Based on Self-Cross Population of Hulong Hybrid Grouper (E. fuscoguttatus ♀ × E. lanceolatus ♂)

  2025cites this paper
• Exploring evolutionary trajectories of drug resistance.

  2025cites this paper
• “Cold” Orthogonal Translation: A Psychrophilic Pyrrolysyl-tRNA Synthetase Boosts Genetic Code Expansion in E. coli

  2025cites this paper
• Structural network comparison of domains across remote homologues arising from different domain architectures

  2025cites this paper
• Stabilizing mutations enhance evolvability of BlaC β-lactamase by widening the mutational landscape.

  2025cites this paper
• Recent advances in hydroxynitrile lyase discovery, evolutionary history, recombinant expression and applications

  2025cites this paper
• Meta-Learning for Cross-Task Generalization in Protein Mutation Property Prediction

  2025cites this paper
• Rewiring protein sequence and structure generative models to enhance protein stability prediction

  2025cites this paper
• Single-molecule observation of multi-scale dynamic heterogeneity in the molecular bearing of the bacterial flagellum

  2025cites this paper
• Increasing the Thermostability of Luciferase from Antarctic Krill by Rational Design for Biotechnological Applications

  2025cites this paper
• Enriching stabilizing mutations through automated analysis of molecular dynamics simulations using BoostMut

  2025cites this paper
• Accelerating protein engineering with fitness landscape modeling and reinforcement learning

  2025cites this paper
• Detecting signatures of episodic positive selection based on observed amino acids in hemagglutinin of H3N2 human influenza A virus

  2025cites this paper
• Dynamic Allostery: Evolution's Double-Edged Sword in Protein Function and Disease.

  2025cites this paper
• Fluidity and Predictability of Epistasis on an Intragenic Fitness Landscape

  2025cites this paper
• An ultra-rare missense variant in the KIF1B gene linked to autoinflammatory Menière’s disease

  2025cites this paper
• DGTN: Graph-Enhanced Transformer with Diffusive Attention Gating Mechanism for Enzyme DDG Prediction

  2025cites this paper
• Directed evolution of a TNA polymerase identifies independent paths to fidelity and catalysis

  2025influential citation
• Computation of Protein Thermostability and Epistasis

  2025cites this paper
• Phylogenetic Analysis of the Mpox Virus in Sub-Saharan Africa (2022–2024)

  2025cites this paper
• Ancestral Protein‐Based Lighting

  2025cites this paper
• Allostery is a widespread cause of loss-of-function variant pathogenicity

  2025cites this paper
• Reshaping of a Glycoside Hydrolase Active Site through Expression-Compensated Droplet-Based Microfluidic Screening Provides Useful Tools for Glycomics

  2025cites this paper
• A small molecule stabilizer rescues the surface expression of nearly all missense variants in a GPCR

  2025cites this paper
• Toward a thermodynamic theory of evolution: a theoretical perspective on information entropy reduction and the emergence of complexity

  2025cites this paper
• Effect of Mutations on the Evolution of Extended Spectrum β-lactamases (ESBL)

  2025cites this paper
• Deep mutational scanning of an S. pneumoniae FMN riboswitch reveals robustness during mouse infection but diverging adaptive landscapes in response to targeting antibiotics

  2025cites this paper
• Salidroside production through cascade biocatalysis with a thermostability-enhanced UDP-glycosyltransferase.

  2025cites this paper
• Dynamic energy conversion in protein catalysis: From brownian motion to enzymatic function

  2025cites this paper
• Design of cross-reactive antigens with machine learning and high-throughput experimental evaluation

  2025cites this paper
• Computational study of deleterious missense SNPs in the USH1G gene implicated in Usher syndrome.

  2025cites this paper
• Bright Thermo-resilient and Promiscuous Zombie Protein for Lighting Applications

  2025cites this paper
• Association Between FABP3 and FABP4 Genes with Changes in Milk Composition and Fatty Acid Profiles in the Native Southern Yellow Cattle Breed

  2025cites this paper
• The structure-based approaches to computing viral fitness.

  2025cites this paper
• Enhanced computational strategies for categorizing HER2 kinase domain variants of uncertain significance through structural and functional analysis

  2025cites this paper
• Environmental surveillance of wastewater in Delhi reveals a resilient TEM β-lactamase variant in multidrug-resistant bacteria: A sentinel for environmental AMR hazard

  2025cites this paper
• Microdroplet screening rapidly profiles a biocatalyst to enable its AI-assisted engineering

  2025cites this paper
• A closely related pair of superoxide dismutase isozymes from Staphylococcus aureus show distinct stabilities and proton-exchange dynamics

  2025cites this paper
• Predicting protein stability changes upon mutations with dual-view ensemble learning from single sequence

  2025cites this paper
• Epistatic drift in protein evolution.

  2025cites this paper
• Protein Structural Phylogenetics

  2025cites this paper
• Decoding fold robustness and thermostability in Thermococcus AMP phosphorylase and its DPBB domains.

  2025cites this paper
• Directed evolution of a beta‐lactamase samples a wide variety of conformational states

  2025cites this paper
• Hydrogen‐deuterium exchange reveals catalytically linked protein flexibility in myoglobin‐mediated intramolecular C(sp3)‐H activation

  2025cites this paper
• New insights into exploring new functional enzymes through the enzyme promiscuity.

  2025cites this paper
• Impact of frequent ARID1A mutations on protein stability provides insights into cancer pathogenesis

  2025cites this paper
• Decoding Cattle (Bos taurus) Diacylglycerol Acyltransferase (DGAT) Gene Families: A Pathway to Functional Understanding.

  2025cites this paper
• gapTrick—structural characterization of protein–protein interactions using AlphaFold

  2025cites this paper
• Mutational scanning of TnpB reveals latent activity for genome editing

  2025cites this paper
• TP53: the unluckiest of genes?

  2024cites this paper
• Deciphering the conformational changes induced by high-risk nsSNPs in β-lactoglobulin

  2024cites this paper
• Enhanced Disease Resistance Mechanism of the CmoAP2/ERF Transcription Factor in Pumpkin through Genetic Mutations

  2024cites this paper
• Discovery and characterization of temperature adaptation modules by mining L-glutamate decarboxylase derived from psychrophilic microorganisms.

  2024cites this paper
• An outmoded in vitro-inferred mechanism for chaperonin-accelerated protein refolding is confirmed in cells by cryo-electron tomography

  2024cites this paper
• How to select the best zero-shot model for the viral proteins?

  2024cites this paper
• The lack of trade-off between conformational stability and binding affinity in a nanobody with therapeutic potential for a misfolding disease

  2024cites this paper
• Determinants of Unfolding Cooperativity and Binding Are Decoupled in a DNA Binding Domain.

  2024cites this paper
• Deep mutational scanning of CYP2C19 in human cells reveals a substrate specificity-abundance tradeoff.

  2024cites this paper
• Functionally constrained human proteins are less prone to mutational instability caused by single amino acid substitutions

  2024cites this paper
• Sophisticated natural products as antibiotics

  2024cites this paper
• High-resolution double vision of the allosteric phosphatase PTP1B

  2024cites this paper
• Temperature sensitivity of bat antibodies links metabolic state of bats with antigen-recognition diversity

  2024cites this paper
• The ribosome lowers the entropic penalty of protein folding

  2024cites this paper
• Phylogenetic variations in a novel family of hyperstable apple snail egg proteins: insights into structural stability and functional trends.

  2024cites this paper