Published in Protein Sci on February 01, 2002
Thermodynamic system drift in protein evolution. PLoS Biol (2014) 2.10
The folding of single domain proteins--have we reached a consensus? Curr Opin Struct Biol (2010) 1.42
Protein-DNA chimeras for single molecule mechanical folding studies with the optical tweezers. Eur Biophys J (2008) 1.29
Role of residual structure in the unfolded state of a thermophilic protein. Proc Natl Acad Sci U S A (2003) 1.27
Stabilizing salt-bridge enhances protein thermostability by reducing the heat capacity change of unfolding. PLoS One (2011) 1.16
Toward the physical basis of thermophilic proteins: linking of enriched polar interactions and reduced heat capacity of unfolding. Biophys J (2002) 1.01
Structure, stability, and folding of ribonuclease H1 from the moderately thermophilic Chlorobium tepidum: comparison with thermophilic and mesophilic homologues. Biochemistry (2009) 0.94
Identification of residual structure in the unfolded state of ribonuclease H1 from the moderately thermophilic Chlorobium tepidum: comparison with thermophilic and mesophilic homologues. Biochemistry (2010) 0.82
Engineering Archeal Surrogate Systems for the Development of Protein-Protein Interaction Inhibitors against Human RAD51. J Mol Biol (2016) 0.76
Autonomously folding protein fragments reveal differences in the energy landscapes of homologous RNases H. PLoS One (2015) 0.76
The CCP4 suite: programs for protein crystallography. Acta Crystallogr D Biol Crystallogr (1994) 187.88
Crystallography & NMR system: A new software suite for macromolecular structure determination. Acta Crystallogr D Biol Crystallogr (1998) 169.28
Refinement of macromolecular structures by the maximum-likelihood method. Acta Crystallogr D Biol Crystallogr (1997) 137.43
Improved methods for building protein models in electron density maps and the location of errors in these models. Acta Crystallogr A (1991) 119.63
Solvent content of protein crystals. J Mol Biol (1968) 106.07
Denaturant m values and heat capacity changes: relation to changes in accessible surface areas of protein unfolding. Protein Sci (1995) 9.23
Unfolding free energy changes determined by the linear extrapolation method. 1. Unfolding of phenylmethanesulfonyl alpha-chymotrypsin using different denaturants. Biochemistry (1988) 9.18
Protein stability curves. Biopolymers (1987) 4.89
Detection of rare partially folded molecules in equilibrium with the native conformation of RNaseH. Nat Struct Biol (1996) 2.96
Contribution to the thermodynamics of protein folding from the reduction in water-accessible nonpolar surface area. Biochemistry (1991) 2.83
The kinetic folding intermediate of ribonuclease H resembles the acid molten globule and partially unfolded molecules detected under native conditions. Nat Struct Biol (1997) 1.90
A new method for determining the heat capacity change for protein folding. Biochemistry (1989) 1.71
A thermodynamic comparison of mesophilic and thermophilic ribonucleases H. Biochemistry (1999) 1.58
Crystal structure of ribonuclease H from Thermus thermophilus HB8 refined at 2.8 A resolution. J Mol Biol (1993) 1.57
Equilibrium unfolding of Escherichia coli ribonuclease H: characterization of a partially folded state. Protein Sci (1994) 1.36
On the computation of the fast rotation function. Acta Crystallogr D Biol Crystallogr (1993) 1.30
Structural distribution of stability in a thermophilic enzyme. Proc Natl Acad Sci U S A (1999) 1.22
A rapid test for identification of autonomous folding units in proteins. J Mol Biol (2000) 1.09
Divalent metal cofactor binding in the kinetic folding trajectory of Escherichia coli ribonuclease HI. Protein Sci (2000) 1.07
Folding of an isolated ribonuclease H core fragment. Protein Sci (1999) 1.00
Major differences in stability and dimerization properties of two chimeric mutants of human stefins. Proteins (2001) 0.83
Studies on interdomain interaction of 3-isopropylmalate dehydrogenase from an extreme thermophile, Thermus thermophilus, by constructing chimeric enzymes. Extremophiles (1999) 0.79
Formation of MacroH2A-containing senescence-associated heterochromatin foci and senescence driven by ASF1a and HIRA. Dev Cell (2005) 4.83
Evolutionary relationships and structural mechanisms of AAA+ proteins. Annu Rev Biophys Biomol Struct (2006) 4.74
Direct observation of the three-state folding of a single protein molecule. Science (2005) 4.48
A robust and scalable microfluidic metering method that allows protein crystal growth by free interface diffusion. Proc Natl Acad Sci U S A (2002) 4.16
DNA topoisomerases: harnessing and constraining energy to govern chromosome topology. Q Rev Biophys (2008) 3.50
Running in reverse: the structural basis for translocation polarity in hexameric helicases. Cell (2009) 3.38
Structure, molecular mechanisms, and evolutionary relationships in DNA topoisomerases. Annu Rev Biophys Biomol Struct (2004) 3.37
Structure of the Rho transcription terminator: mechanism of mRNA recognition and helicase loading. Cell (2003) 3.00
DNA replication initiation: mechanisms and regulation in bacteria. Nat Rev Microbiol (2007) 2.96
The structural basis for MCM2-7 helicase activation by GINS and Cdc45. Nat Struct Mol Biol (2011) 2.93
Structural basis for gate-DNA recognition and bending by type IIA topoisomerases. Nature (2007) 2.79
Structural basis for ATP-dependent DnaA assembly and replication-origin remodeling. Nat Struct Mol Biol (2006) 2.73
The protective antigen component of anthrax toxin forms functional octameric complexes. J Mol Biol (2009) 2.69
All tangled up: how cells direct, manage and exploit topoisomerase function. Nat Rev Mol Cell Biol (2011) 2.66
Activation of the DExD/H-box protein Dbp5 by the nuclear-pore protein Gle1 and its coactivator InsP6 is required for mRNA export. Nat Cell Biol (2006) 2.58
Identification, function and structure of the mycobacterial sulfotransferase that initiates sulfolipid-1 biosynthesis. Nat Struct Mol Biol (2004) 2.25
Pulse proteolysis: a simple method for quantitative determination of protein stability and ligand binding. Nat Methods (2005) 2.18
Replication origin recognition and deformation by a heterodimeric archaeal Orc1 complex. Science (2007) 2.10
The structural basis for substrate specificity in DNA topoisomerase IV. J Mol Biol (2005) 2.08
Structure and function of the conserved core of histone deposition protein Asf1. Curr Biol (2003) 2.02
The structure of bacterial DnaA: implications for general mechanisms underlying DNA replication initiation. EMBO J (2002) 1.98
Structure of human cGAS reveals a conserved family of second-messenger enzymes in innate immunity. Cell Rep (2013) 1.96
The C-terminal domain of DNA gyrase A adopts a DNA-bending beta-pinwheel fold. Proc Natl Acad Sci U S A (2004) 1.93
Protein folding: defining a "standard" set of experimental conditions and a preliminary kinetic data set of two-state proteins. Protein Sci (2005) 1.91
The X-ray structure of the papillomavirus helicase in complex with its molecular matchmaker E2. Genes Dev (2004) 1.90
The structure of DNA-bound human topoisomerase II alpha: conformational mechanisms for coordinating inter-subunit interactions with DNA cleavage. J Mol Biol (2012) 1.87
Nucleotide-dependent conformational changes in the DnaA-like core of the origin recognition complex. Nat Struct Mol Biol (2006) 1.80
Identification of residues in yeast Spo11p critical for meiotic DNA double-strand break formation. Mol Cell Biol (2002) 1.77
The folding cooperativity of a protein is controlled by its chain topology. Nature (2010) 1.76
Suite of three protein crystallography beamlines with single superconducting bend magnet as the source. J Synchrotron Radiat (2004) 1.70
A conserved mechanism of DEAD-box ATPase activation by nucleoporins and InsP6 in mRNA export. Nature (2011) 1.70
A microfluidic device for kinetic optimization of protein crystallization and in situ structure determination. J Am Chem Soc (2006) 1.65
Binding mechanism of metal⋅NTP substrates and stringent-response alarmones to bacterial DnaG-type primases. Structure (2012) 1.64
The N-terminal domain of Nup159 forms a beta-propeller that functions in mRNA export by tethering the helicase Dbp5 to the nuclear pore. Mol Cell (2004) 1.59
A novel and unified two-metal mechanism for DNA cleavage by type II and IA topoisomerases. Nature (2010) 1.59
Structural insights into RNA-dependent ring closure and ATPase activation by the Rho termination factor. Cell (2006) 1.58
Crosstalk between primase subunits can act to regulate primer synthesis in trans. Mol Cell (2005) 1.57
A Ras-induced conformational switch in the Ras activator Son of sevenless. Proc Natl Acad Sci U S A (2006) 1.57
DNA stretching by bacterial initiators promotes replication origin opening. Nature (2011) 1.55
Probing the high energy states in proteins by proteolysis. J Mol Biol (2004) 1.51
Structural synergy and molecular crosstalk between bacterial helicase loaders and replication initiators. Cell (2008) 1.51
Structure of the topoisomerase II ATPase region and its mechanism of inhibition by the chemotherapeutic agent ICRF-187. Proc Natl Acad Sci U S A (2003) 1.44
The nuts and bolts of ring-translocase structure and mechanism. Curr Opin Struct Biol (2011) 1.44
Identification of a DNA primase template tracking site redefines the geometry of primer synthesis. Nat Struct Mol Biol (2008) 1.42
Escherichia coli condensin MukB stimulates topoisomerase IV activity by a direct physical interaction. Proc Natl Acad Sci U S A (2010) 1.41
Function and structure of a prokaryotic formylglycine-generating enzyme. J Biol Chem (2008) 1.35
Structure of the yeast histone H3-ASF1 interaction: implications for chaperone mechanism, species-specific interactions, and epigenetics. BMC Struct Biol (2006) 1.34
Stepwise protein folding at near amino acid resolution by hydrogen exchange and mass spectrometry. Proc Natl Acad Sci U S A (2013) 1.34
Crystal structure and nonhomologous end-joining function of the ligase component of Mycobacterium DNA ligase D. J Biol Chem (2006) 1.31
AAA+ ATPases in the initiation of DNA replication. Crit Rev Biochem Mol Biol (2008) 1.29
Protein-DNA chimeras for single molecule mechanical folding studies with the optical tweezers. Eur Biophys J (2008) 1.29
Mechanisms for initiating cellular DNA replication. Annu Rev Biochem (2013) 1.28
THAP proteins target specific DNA sites through bipartite recognition of adjacent major and minor grooves. Nat Struct Mol Biol (2009) 1.27
Role of residual structure in the unfolded state of a thermophilic protein. Proc Natl Acad Sci U S A (2003) 1.27
The MukF subunit of Escherichia coli condensin: architecture and functional relationship to kleisins. EMBO J (2005) 1.24
ATP-dependent conformational dynamics underlie the functional asymmetry of the replicative helicase from a minimalist eukaryote. Proc Natl Acad Sci U S A (2012) 1.21
Exploring subdomain cooperativity in T4 lysozyme II: uncovering the C-terminal subdomain as a hidden intermediate in the kinetic folding pathway. Protein Sci (2007) 1.21
Destabilization of the Escherichia coli RNase H kinetic intermediate: switching between a two-state and three-state folding mechanism. J Mol Biol (2004) 1.19
Structure of the topoisomerase VI-B subunit: implications for type II topoisomerase mechanism and evolution. EMBO J (2003) 1.18
Exploring subdomain cooperativity in T4 lysozyme I: structural and energetic studies of a circular permutant and protein fragment. Protein Sci (2007) 1.17
Structural and computational characterization of the SHV-1 beta-lactamase-beta-lactamase inhibitor protein interface. J Biol Chem (2006) 1.16
Energetics-based protein profiling on a proteomic scale: identification of proteins resistant to proteolysis. J Mol Biol (2007) 1.15
Energetic evidence for formation of a pH-dependent hydrophobic cluster in the denatured state of Thermus thermophilus ribonuclease H. J Mol Biol (2003) 1.15
The bacterial DnaC helicase loader is a DnaB ring breaker. Cell (2013) 1.14
Regulation of bacterial priming and daughter strand synthesis through helicase-primase interactions. Nucleic Acids Res (2006) 1.13
Structure of M11L: A myxoma virus structural homolog of the apoptosis inhibitor, Bcl-2. Protein Sci (2007) 1.11
Origin remodeling and opening in bacteria rely on distinct assembly states of the DnaA initiator. J Biol Chem (2010) 1.10
A domain insertion in Escherichia coli GyrB adopts a novel fold that plays a critical role in gyrase function. Nucleic Acids Res (2010) 1.09
Structure of a topoisomerase II-DNA-nucleotide complex reveals a new control mechanism for ATPase activity. Nat Struct Mol Biol (2012) 1.09
Fluoroquinolone-gyrase-DNA complexes: two modes of drug binding. J Biol Chem (2014) 1.08
Biochemical characterization of Cdc6/Orc1 binding to the replication origin of the euryarchaeon Methanothermobacter thermoautotrophicus. Nucleic Acids Res (2004) 1.08
Molecular basis for G protein control of the prokaryotic ATP sulfurylase. Mol Cell (2006) 1.07
The molten globule state is unusually deformable under mechanical force. Proc Natl Acad Sci U S A (2012) 1.07
Quantitative determination of protein stability and ligand binding by pulse proteolysis. Curr Protoc Protein Sci (2006) 1.07
Structural frameworks for considering microbial protein- and nucleic acid-dependent motor ATPases. Mol Microbiol (2008) 1.07
The ancestral role of ATP hydrolysis in type II topoisomerases: prevention of DNA double-strand breaks. Nucleic Acids Res (2011) 1.07
Structural dissection of ATP turnover in the prototypical GHL ATPase TopoVI. Structure (2005) 1.06
A structural framework for replication origin opening by AAA+ initiation factors. Curr Opin Struct Biol (2012) 1.06
On the precision of experimentally determined protein folding rates and phi-values. Protein Sci (2006) 1.06
Experimental evaluation of topological parameters determining protein-folding rates. Proc Natl Acad Sci U S A (2002) 1.05
Direct observation of a force-induced switch in the anisotropic mechanical unfolding pathway of a protein. Proc Natl Acad Sci U S A (2012) 1.05
Asf1-like structure of the conserved Yaf9 YEATS domain and role in H2A.Z deposition and acetylation. Proc Natl Acad Sci U S A (2009) 1.05
Differences between the prion protein and its homolog Doppel: a partially structured state with implications for scrapie formation. J Mol Biol (2002) 1.04
Computational redesign of the SHV-1 beta-lactamase/beta-lactamase inhibitor protein interface. J Mol Biol (2008) 1.03
Crystal structure of the DNA gyrase GyrA N-terminal domain from Mycobacterium tuberculosis. Proteins (2010) 1.03
Holoenzyme assembly and ATP-mediated conformational dynamics of topoisomerase VI. Nat Struct Mol Biol (2007) 1.02
Comparison of the folding processes of T. thermophilus and E. coli ribonucleases H. J Mol Biol (2002) 1.01
Limitations of constant-force-feedback experiments. Biophys J (2012) 1.01
Mechanisms for defining supercoiling set point of DNA gyrase orthologs: II. The shape of the GyrA subunit C-terminal domain (CTD) is not a sole determinant for controlling supercoiling efficiency. J Biol Chem (2012) 1.01
Molecular determinants of origin discrimination by Orc1 initiators in archaea. Nucleic Acids Res (2011) 0.98
How do type II topoisomerases use ATP hydrolysis to simplify DNA topology beyond equilibrium? Investigating the relaxation reaction of nonsupercoiling type II topoisomerases. J Mol Biol (2008) 0.98
The role of DNA bending in type IIA topoisomerase function. Nucleic Acids Res (2013) 0.98
Mechanisms for defining supercoiling set point of DNA gyrase orthologs: I. A nonconserved acidic C-terminal tail modulates Escherichia coli gyrase activity. J Biol Chem (2012) 0.97
Structural mechanism of inhibition of the Rho transcription termination factor by the antibiotic bicyclomycin. Structure (2005) 0.97
ATP binding controls distinct structural transitions of Escherichia coli DNA gyrase in complex with DNA. Nat Struct Mol Biol (2012) 0.97
Comparison of proteolytic susceptibility in phosphoglycerate kinases from yeast and E. coli: modulation of conformational ensembles without altering structure or stability. J Mol Biol (2007) 0.97
The crystal structure of the hinge domain of the Escherichia coli structural maintenance of chromosomes protein MukB. J Mol Biol (2009) 0.97
A naturally chimeric type IIA topoisomerase in Aquifex aeolicus highlights an evolutionary path for the emergence of functional paralogs. Proc Natl Acad Sci U S A (2010) 0.97
Macro-to-micro structural proteomics: native source proteins for high-throughput crystallization. PLoS One (2012) 0.96
Structural and biochemical characterization of the interaction between KPC-2 beta-lactamase and beta-lactamase inhibitor protein. Biochemistry (2009) 0.96