Published in Protein Eng Des Sel on December 19, 2007
SDM--a server for predicting effects of mutations on protein stability and malfunction. Nucleic Acids Res (2011) 2.28
Evolutionary biochemistry: revealing the historical and physical causes of protein properties. Nat Rev Genet (2013) 1.76
A comprehensive, high-resolution map of a gene's fitness landscape. Mol Biol Evol (2014) 1.36
Protein folding in the cell: challenges and progress. Curr Opin Struct Biol (2010) 1.32
Evolutionary fates within a microbial population highlight an essential role for protein folding during natural selection. Mol Syst Biol (2010) 1.14
Functional and metabolic effects of adaptive glycerol kinase (GLPK) mutants in Escherichia coli. J Biol Chem (2011) 0.97
Experimental evolution of adenylate kinase reveals contrasting strategies toward protein thermostability. Biophys J (2010) 0.89
Fuzzy oil drop model to interpret the structure of antifreeze proteins and their mutants. J Mol Model (2011) 0.86
Structure and biochemical characterization of an adenylate kinase originating from the psychrophilic organism Marinibacillus marinus. Acta Crystallogr Sect F Struct Biol Cryst Commun (2009) 0.86
Mutations in global regulators lead to metabolic selection during adaptation to complex environments. PLoS Genet (2014) 0.85
Evolution of a single gene highlights the complexity underlying molecular descriptions of fitness. Chaos (2010) 0.80
Using Evolution to Guide Protein Engineering: The Devil IS in the Details. Biophys J (2016) 0.76
A RuBisCO-mediated carbon metabolic pathway in methanogenic archaea. Nat Commun (2017) 0.75
Enzyme efficiency but not thermostability drives cefotaxime resistance evolution in TEM-1 β-lactamase. Mol Biol Evol (2017) 0.75
Genetic basis for in vivo daptomycin resistance in enterococci. N Engl J Med (2011) 3.20
Crowded, cell-like environment induces shape changes in aspherical protein. Proc Natl Acad Sci U S A (2008) 1.95
Protein folding: defining a "standard" set of experimental conditions and a preliminary kinetic data set of two-state proteins. Protein Sci (2005) 1.91
Structural and thermodynamic analysis of human PCNA with peptides derived from DNA polymerase-delta p66 subunit and flap endonuclease-1. Structure (2004) 1.79
Molecular crowding enhances native structure and stability of alpha/beta protein flavodoxin. Proc Natl Acad Sci U S A (2007) 1.75
In vivo molecular evolution reveals biophysical origins of organismal fitness. Mol Cell (2006) 1.49
Daptomycin-resistant Enterococcus faecalis diverts the antibiotic molecule from the division septum and remodels cell membrane phospholipids. MBio (2013) 1.35
Complex of calmodulin with a ryanodine receptor target reveals a novel, flexible binding mode. Structure (2006) 1.27
Whole-genome analysis of a daptomycin-susceptible enterococcus faecium strain and its daptomycin-resistant variant arising during therapy. Antimicrob Agents Chemother (2012) 1.25
Daptomycin resistance in enterococci is associated with distinct alterations of cell membrane phospholipid content. PLoS One (2012) 1.23
A hyperthermophilic plant-type [2Fe-2S] ferredoxin from Aquifex aeolicus is stabilized by a disulfide bond. Biochemistry (2002) 1.19
Adaptation of Enterococcus faecalis to daptomycin reveals an ordered progression to resistance. Antimicrob Agents Chemother (2013) 1.18
Macromolecular crowding modulates folding mechanism of alpha/beta protein apoflavodoxin. Biophys J (2009) 1.16
Mechanisms of protein oligomerization: inhibitor of functional amyloids templates α-synuclein fibrillation. J Am Chem Soc (2012) 1.15
Evolutionary fates within a microbial population highlight an essential role for protein folding during natural selection. Mol Syst Biol (2010) 1.14
Factors defining effects of macromolecular crowding on protein stability: an in vitro/in silico case study using cytochrome c. Biochemistry (2010) 1.13
Characterization of the folding landscape of monomeric lactose repressor: quantitative comparison of theory and experiment. Proc Natl Acad Sci U S A (2005) 1.12
Mapping the domain structure of the influenza A virus polymerase acidic protein (PA) and its interaction with the basic protein 1 (PB1) subunit. Virology (2008) 1.11
Thermodynamic stability and folding of proteins from hyperthermophilic organisms. FEBS J (2007) 1.10
Macromolecular crowding increases structural content of folded proteins. FEBS Lett (2007) 1.10
Folding, stability and shape of proteins in crowded environments: experimental and computational approaches. Int J Mol Sci (2009) 1.08
The largest protein observed to fold by two-state kinetic mechanism does not obey contact-order correlation. J Am Chem Soc (2003) 1.06
On the precision of experimentally determined protein folding rates and phi-values. Protein Sci (2006) 1.06
Biochemical characterization of cardiolipin synthase mutations associated with daptomycin resistance in enterococci. Antimicrob Agents Chemother (2012) 1.03
Role of cofactors in metalloprotein folding. Q Rev Biophys (2005) 1.02
Role of structural determinants in folding of the sandwich-like protein Pseudomonas aeruginosa azurin. Proc Natl Acad Sci U S A (2005) 1.02
Gold nanoparticles can induce the formation of protein-based aggregates at physiological pH. Nano Lett (2009) 1.01
Structure-based incorporation of 6-methyl-8-(2-deoxy-beta-ribofuranosyl)isoxanthopteridine into the human telomeric repeat DNA as a probe for UP1 binding and destabilization of G-tetrad structures. J Biol Chem (2003) 1.00
Cisplatin binds human copper chaperone Atox1 and promotes unfolding in vitro. Proc Natl Acad Sci U S A (2011) 1.00
Copper-transfer mechanism from the human chaperone Atox1 to a metal-binding domain of Wilson disease protein. J Phys Chem B (2010) 0.98
Human UP1 as a model for understanding purine recognition in the family of proteins containing the RNA recognition motif (RRM). J Mol Biol (2004) 0.98
Macromolecular crowding tunes folding landscape of parallel α/β protein, apoflavodoxin. J Am Chem Soc (2010) 0.96
Dissecting homo-heptamer thermodynamics by isothermal titration calorimetry: entropy-driven assembly of co-chaperonin protein 10. Biophys J (2005) 0.96
A 60-kilodalton protein component of the counting factor complex regulates group size in Dictyostelium discoideum. Eukaryot Cell (2006) 0.95
The experimental folding landscape of monomeric lactose repressor, a large two-domain protein, involves two kinetic intermediates. Proc Natl Acad Sci U S A (2005) 0.95
Mutation of E1-CONJUGATING ENZYME-RELATED1 decreases RELATED TO UBIQUITIN conjugation and alters auxin response and development. Plant Physiol (2007) 0.95
Direct observation of protein unfolded state compaction in the presence of macromolecular crowding. Biophys J (2013) 0.95
Phi-value analysis of apo-azurin folding: comparison between experiment and theory. Biochemistry (2006) 0.95
Establishing the entatic state in folding metallated Pseudomonas aeruginosa azurin. Proc Natl Acad Sci U S A (2007) 0.95
Folding and assembly pathways of co-chaperonin proteins 10: Origin of bacterial thermostability. Arch Biochem Biophys (2006) 0.93
Small changes in enzyme function can lead to surprisingly large fitness effects during adaptive evolution of antibiotic resistance. Proc Natl Acad Sci U S A (2012) 0.93
Approaching the speed limit for Greek Key beta-barrel formation: transition-state movement tunes folding rate of zinc-substituted azurin. Biochim Biophys Acta (2003) 0.92
Unfolding of heptameric co-chaperonin protein follows "fly casting" mechanism: observation of transient nonnative heptamer. J Am Chem Soc (2005) 0.92
Modulation of curli assembly and pellicle biofilm formation by chemical and protein chaperones. Chem Biol (2013) 0.92
Direct optical detection of aptamer conformational changes induced by target molecules. Anal Chem (2009) 0.91
FMN binding and unfolding of Desulfovibrio desulfuricans flavodoxin: "hidden" intermediates at low denaturant concentrations. Biochim Biophys Acta (2004) 0.90
Studies of Pseudomonas aeruginosa azurin mutants: cavities in beta-barrel do not affect refolding speed. Biophys J (2002) 0.90
Stability and ATP binding of the nucleotide-binding domain of the Wilson disease protein: effect of the common H1069Q mutation. J Mol Biol (2008) 0.90
In vitro unfolding of yeast multicopper oxidase Fet3p variants reveals unique role of each metal site. Proc Natl Acad Sci U S A (2008) 0.89
Unique complex between bacterial azurin and tumor-suppressor protein p53. Biochem Biophys Res Commun (2005) 0.89
Effect of Hofmeister ions on protein thermal stability: roles of ion hydration and peptide groups? Arch Biochem Biophys (2008) 0.89
Experimental evolution of adenylate kinase reveals contrasting strategies toward protein thermostability. Biophys J (2010) 0.89
Lysine-60 in copper chaperone Atox1 plays an essential role in adduct formation with a target Wilson disease domain. J Am Chem Soc (2009) 0.88
Gene replacement of adenylate kinase in the gram-positive thermophile Geobacillus stearothermophilus disrupts adenine nucleotide homeostasis and reduces cell viability. Extremophiles (2005) 0.88
Structure and enzymatic properties of a chimeric bacteriophage RB69 DNA polymerase and single-stranded DNA binding protein with increased processivity. Proteins (2006) 0.88
Crystal structure of a trimeric archaeal adenylate kinase from the mesophile Methanococcus maripaludis with an unusually broad functional range and thermal stability. Proteins (2010) 0.88
Folding of Desulfovibrio desulfuricans flavodoxin is accelerated by cofactor fly-casting. Arch Biochem Biophys (2006) 0.88
Role of copper in thermal stability of human ceruloplasmin. Biophys J (2007) 0.87
Kinetic folding and assembly mechanisms differ for two homologous heptamers. J Mol Biol (2006) 0.87
Impact of cofactor on stability of bacterial (CopZ) and human (Atox1) copper chaperones. Biochim Biophys Acta (2007) 0.87
Conserved residues modulate copper release in human copper chaperone Atox1. Proc Natl Acad Sci U S A (2008) 0.87
Interactions between DNA, transcriptional regulator Dreb2a and the Med25 mediator subunit from Arabidopsis thaliana involve conformational changes. Nucleic Acids Res (2012) 0.87
In vitro thermodynamic dissection of human copper transfer from chaperone to target protein. PLoS One (2012) 0.86
Buried water molecules contribute to cytochrome f stability. Arch Biochem Biophys (2002) 0.86
Location and flexibility of the unique C-terminal tail of Aquifex aeolicus co-chaperonin protein 10 as derived by cryo-electron microscopy and biophysical techniques. J Mol Biol (2008) 0.86
Methionine-121 coordination determines metal specificity in unfolded Pseudomonas aeruginosa azurin. J Biol Inorg Chem (2004) 0.86
Structure and biochemical characterization of an adenylate kinase originating from the psychrophilic organism Marinibacillus marinus. Acta Crystallogr Sect F Struct Biol Cryst Commun (2009) 0.86
Determinants for simultaneous binding of copper and platinum to human chaperone Atox1: hitchhiking not hijacking. PLoS One (2013) 0.85
Low stability for monomeric human chaperonin protein 10: interprotein interactions contribute majority of oligomer stability. Arch Biochem Biophys (2002) 0.85
Snapshots of a dynamic folding nucleus in zinc-substituted Pseudomonas aeruginosa azurin. Biochemistry (2005) 0.85
Macromolecular crowding extended to a heptameric system: the Co-chaperonin protein 10. Biochemistry (2011) 0.84
Crystal structure of Bacteroides thetaiotaomicron TetX2: a tetracycline degrading monooxygenase at 2.8 Å resolution. Proteins (2011) 0.84
Structure and dynamics of Cu(I) binding in copper chaperones Atox1 and CopZ: a computer simulation study. J Phys Chem B (2008) 0.84
Solvation of the folding-transition state in Pseudomonas aeruginosa azurin is modulated by metal: Solvation of azurin's folding nucleus. Protein Sci (2006) 0.83
Role of metal in folding and stability of copper proteins in vitro. Biochim Biophys Acta (2012) 0.83
Non-linear effects of macromolecular crowding on enzymatic activity of multi-copper oxidase. Biochim Biophys Acta (2009) 0.83
Reversible assembly of stacked membrane nanodiscs with reduced dimensionality and variable periodicity. J Am Chem Soc (2013) 0.83
Effect of inorganic phosphate on FMN binding and loop flexibility in Desulfovibrio desulfuricans apo-flavodoxin. J Mol Biol (2005) 0.83
Thermal unfolding of Apo and Holo Desulfovibrio desulfuricans flavodoxin: cofactor stabilizes folded and intermediate states. Biochemistry (2004) 0.83
Presence of the cofactor speeds up folding of Desulfovibrio desulfuricans flavodoxin. Protein Sci (2002) 0.82
Differential effects of alcohols on conformational switchovers in alpha-helical and beta-sheet protein models. Biochemistry (2006) 0.82
Folding of an unfolded protein by macromolecular crowding in vitro. Biochemistry (2014) 0.82
An Isc-type extremely thermostable [2Fe-2S] ferredoxin from Aquifex aeolicus. Biochemical, spectroscopic, and unfolding studies. Biochemistry (2003) 0.82
Comparison of chemical and thermal protein denaturation by combination of computational and experimental approaches. II. J Chem Phys (2011) 0.82
Modulation of α-synuclein fibrillization by ring-fused 2-pyridones: templation and inhibition involve oligomers with different structure. Arch Biochem Biophys (2013) 0.82
Effects of macromolecular crowding on burst phase kinetics of cytochrome c folding. Biochemistry (2012) 0.82
Biochemical characterization of interactions between DNA polymerase and single-stranded DNA-binding protein in bacteriophage RB69. J Biol Chem (2002) 0.82
T versus D in the MTCXXC motif of copper transport proteins plays a role in directional metal transport. J Biol Inorg Chem (2014) 0.81
Role of copper in folding and stability of cupredoxin-like copper-carrier protein CopC. Arch Biochem Biophys (2007) 0.81
Quantification of excluded volume effects on the folding landscape of Pseudomonas aeruginosa apoazurin in vitro. Biophys J (2013) 0.81
Discrete roles of copper ions in chemical unfolding of human ceruloplasmin. Biochemistry (2007) 0.81
Conformational dynamics of metal-binding domains in Wilson disease protein: molecular insights into selective copper transfer. Biochemistry (2009) 0.81
Discovery of ligands for ADP-ribosyltransferases via docking-based virtual screening. J Med Chem (2012) 0.81
Role of the unique peptide tail in hyperthermostable Aquifex aeolicus cochaperonin protein 10. Biochemistry (2005) 0.81
Pseudosymmetry, high copy number and twinning complicate the structure determination of Desulfovibrio desulfuricans (ATCC 29577) flavodoxin. Acta Crystallogr D Biol Crystallogr (2009) 0.80
Correlation between protein stability cores and protein folding kinetics: a case study on Pseudomonas aeruginosa apo-azurin. Structure (2006) 0.80