Published in Nucleic Acids Res on April 10, 2013
Insights into the mechanism of inhibition of novel bacterial topoisomerase inhibitors from characterization of resistant mutants of Staphylococcus aureus. Antimicrob Agents Chemother (2015) 0.87
Distinct regions of the Escherichia coli ParC C-terminal domain are required for substrate discrimination by topoisomerase IV. J Mol Biol (2013) 0.83
Importance of disentanglement and entanglement during DNA replication and segregation: Comment on: "Disentangling DNA molecules" by Alexander Vologodskii. Phys Life Rev (2016) 0.83
Functional determinants of gate-DNA selection and cleavage by bacterial type II topoisomerases. Nucleic Acids Res (2013) 0.82
The Localization and Action of Topoisomerase IV in Escherichia coli Chromosome Segregation Is Coordinated by the SMC Complex, MukBEF. Cell Rep (2015) 0.82
Topoisomerase II minimizes DNA entanglements by proofreading DNA topology after DNA strand passage. Nucleic Acids Res (2013) 0.81
The Dynamic Interplay Between DNA Topoisomerases and DNA Topology. Biophys Rev (2016) 0.81
E. coli Gyrase Fails to Negatively Supercoil Diaminopurine-Substituted DNA. J Mol Biol (2015) 0.78
How topoisomerase IV can efficiently unknot and decatenate negatively supercoiled DNA molecules without causing their torsional relaxation. Nucleic Acids Res (2016) 0.78
Structure of a quinolone-stabilized cleavage complex of topoisomerase IV from Klebsiella pneumoniae and comparison with a related Streptococcus pneumoniae complex. Acta Crystallogr D Struct Biol (2016) 0.76
Supercoiling biases the formation of loops involved in gene regulation. Biophys Rev (2016) 0.75
Exploring the active site of the Streptococcus pneumoniae topoisomerase IV-DNA cleavage complex with novel 7,8-bridged fluoroquinolones. Open Biol (2016) 0.75
Structural snapshots of Xer recombination reveal activation by synaptic complex remodeling and DNA bending. Elife (2016) 0.75
The dynamic interplay between DNA topoisomerases and DNA topology. Biophys Rev (2016) 0.75
Recovery of the poisoned topoisomerase II for DNA religation: coordinated motion of the cleavage core revealed with the microsecond atomistic simulation. Nucleic Acids Res (2015) 0.75
The tail that wags the dog: topoisomerase IV ParC C-terminal domain controls strand passage activity through multipartite topology-dependent interactions with DNA. J Mol Biol (2013) 0.75
Interlinked DNA nano-circles for measuring topoisomerase II activity at the level of single decatenation events. Nucleic Acids Res (2017) 0.75
NIH Image to ImageJ: 25 years of image analysis. Nat Methods (2012) 84.41
Nalidixic acid resistance: a second genetic character involved in DNA gyrase activity. Proc Natl Acad Sci U S A (1977) 18.37
DNA gyrase and the supercoiling of DNA. Science (1980) 7.28
DNA gyrase: subunit structure and ATPase activity of the purified enzyme. Proc Natl Acad Sci U S A (1978) 5.60
Crystal structure of an IHF-DNA complex: a protein-induced DNA U-turn. Cell (1996) 5.38
Initiation and re-initiation of DNA unwinding by the Escherichia coli Rep helicase. Nature (2002) 5.13
Structure and mechanism of DNA topoisomerase II. Nature (1996) 4.56
GHKL, an emergent ATPase/kinase superfamily. Trends Biochem Sci (2000) 4.20
Crystal structure of the breakage-reunion domain of DNA gyrase. Nature (1997) 4.10
Crystal structure of an N-terminal fragment of the DNA gyrase B protein. Nature (1991) 3.93
DNA gyrase action involves the introduction of transient double-strand breaks into DNA. Proc Natl Acad Sci U S A (1980) 3.87
Type II DNA topoisomerases: enzymes that can unknot a topologically knotted DNA molecule via a reversible double-strand break. Cell (1980) 3.83
Type IIA topoisomerase inhibition by a new class of antibacterial agents. Nature (2010) 3.58
DNA topoisomerases: harnessing and constraining energy to govern chromosome topology. Q Rev Biophys (2008) 3.50
Site-specific cleavage of DNA by E. coli DNA gyrase. Cell (1979) 3.45
Covalent bonds between protein and DNA. Formation of phosphotyrosine linkage between certain DNA topoisomerases and DNA. J Biol Chem (1980) 3.31
Simplification of DNA topology below equilibrium values by type II topoisomerases. Science (1997) 3.05
Roles of topoisomerase IV and DNA gyrase in DNA unlinking during replication in Escherichia coli. Genes Dev (1995) 3.01
Toprim--a conserved catalytic domain in type IA and II topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins. Nucleic Acids Res (1998) 2.82
Structural basis for gate-DNA recognition and bending by type IIA topoisomerases. Nature (2007) 2.79
All tangled up: how cells direct, manage and exploit topoisomerase function. Nat Rev Mol Cell Biol (2011) 2.66
The capture of a DNA double helix by an ATP-dependent protein clamp: a key step in DNA transport by type II DNA topoisomerases. Cell (1992) 2.48
A topoisomerase from Escherichia coli related to DNA gyrase. Proc Natl Acad Sci U S A (1979) 2.29
Flexible DNA bending in HU-DNA cocrystal structures. EMBO J (2003) 2.15
DNA topoisomerase II from Drosophila melanogaster. Relaxation of supercoiled DNA. J Biol Chem (1983) 2.14
Yeast DNA topoisomerase II. An ATP-dependent type II topoisomerase that catalyzes the catenation, decatenation, unknotting, and relaxation of double-stranded DNA rings. J Biol Chem (1982) 2.09
The structural basis for substrate specificity in DNA topoisomerase IV. J Mol Biol (2005) 2.08
Application of fluorescence energy transfer and polarization to monitor Escherichia coli cAMP receptor protein and lac promoter interaction. Proc Natl Acad Sci U S A (1990) 2.05
Structural insight into the quinolone-DNA cleavage complex of type IIA topoisomerases. Nat Struct Mol Biol (2009) 2.05
DNA transport by a type II DNA topoisomerase: evidence in favor of a two-gate mechanism. Cell (1994) 2.04
Preferential relaxation of positively supercoiled DNA by E. coli topoisomerase IV in single-molecule and ensemble measurements. Genes Dev (2000) 1.94
Origin and evolution of DNA topoisomerases. Biochimie (2007) 1.94
Decatenation activity of topoisomerase IV during oriC and pBR322 DNA replication in vitro. Proc Natl Acad Sci U S A (1993) 1.91
Mechanism of topology simplification by type II DNA topoisomerases. Proc Natl Acad Sci U S A (2001) 1.87
Structural basis of type II topoisomerase inhibition by the anticancer drug etoposide. Science (2011) 1.83
DNA transport by a type II topoisomerase: direct evidence for a two-gate mechanism. Proc Natl Acad Sci U S A (1996) 1.77
A model for the mechanism of strand passage by DNA gyrase. Proc Natl Acad Sci U S A (1999) 1.74
DNA gyrase subunit stoichiometry and the covalent attachment of subunit A to DNA during DNA cleavage. Nucleic Acids Res (1980) 1.69
Characterization of the ATP binding site on Escherichia coli DNA gyrase. Affinity labeling of Lys-103 and Lys-110 of the B subunit by pyridoxal 5'-diphospho-5'-adenosine. J Biol Chem (1990) 1.68
A novel and unified two-metal mechanism for DNA cleavage by type II and IA topoisomerases. Nature (2010) 1.59
On the coupling between ATP usage and DNA transport by yeast DNA topoisomerase II. J Biol Chem (1993) 1.56
Calcium-promoted DNA cleavage by eukaryotic topoisomerase II: trapping the covalent enzyme-DNA complex in an active form. Biochemistry (1987) 1.50
Eukaryotic topoisomerase II. Characterization of enzyme turnover. J Biol Chem (1986) 1.46
Structural basis of quinolone inhibition of type IIA topoisomerases and target-mediated resistance. Nat Struct Mol Biol (2010) 1.45
Structural basis of gate-DNA breakage and resealing by type II topoisomerases. PLoS One (2010) 1.45
The interaction of Escherichia coli topoisomerase IV with DNA. J Biol Chem (1995) 1.45
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
DNA disentangling by type-2 topoisomerases. J Mol Biol (2004) 1.31
Topoisomerase IV catalysis and the mechanism of quinolone action. J Biol Chem (1998) 1.17
Studies of a positive supercoiling machine. Nucleotide hydrolysis and a multifunctional "latch" in the mechanism of reverse gyrase. J Biol Chem (2002) 1.15
Probing the two-gate mechanism of DNA gyrase using cysteine cross-linking. Biochemistry (1999) 1.12
Direct measurement of DNA bending by type IIA topoisomerases: implications for non-equilibrium topology simplification. Nucleic Acids Res (2011) 1.10
Structure of a topoisomerase II-DNA-nucleotide complex reveals a new control mechanism for ATPase activity. Nat Struct Mol Biol (2012) 1.09
Pre-steady-state analysis of ATP hydrolysis by Saccharomyces cerevisiae DNA topoisomerase II. 2. Kinetic mechanism for the sequential hydrolysis of two ATP. Biochemistry (1998) 1.09
DNA cleavage and opening reactions of human topoisomerase IIα are regulated via Mg2+-mediated dynamic bending of gate-DNA. Proc Natl Acad Sci U S A (2012) 0.99
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
Gyrase . DNA complexes visualized as looped structures by electron microscopy. J Biol Chem (1983) 0.97
DNA topoisomerase II selects DNA cleavage sites based on reactivity rather than binding affinity. Nucleic Acids Res (2007) 0.92
Communication between the ATPase and cleavage/religation domains of human topoisomerase IIalpha. J Biol Chem (2000) 0.88
Resolution of DNA molecules by one-dimensional agarose-gel electrophoresis. Methods Mol Biol (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
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
K11-linked polyubiquitination in cell cycle control revealed by a K11 linkage-specific antibody. Mol Cell (2010) 2.52
Identification, function and structure of the mycobacterial sulfotransferase that initiates sulfolipid-1 biosynthesis. Nat Struct Mol Biol (2004) 2.25
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
Engineering and structural characterization of a linear polyubiquitin-specific antibody. J Mol Biol (2011) 1.93
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
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
DNA stretching by bacterial initiators promotes replication origin opening. Nature (2011) 1.55
Structural synergy and molecular crosstalk between bacterial helicase loaders and replication initiators. Cell (2008) 1.51
Recognition of UbcH5c and the nucleosome by the Bmi1/Ring1b ubiquitin ligase complex. EMBO J (2011) 1.48
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
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
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
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
Structure of the topoisomerase VI-B subunit: implications for type II topoisomerase mechanism and evolution. EMBO J (2003) 1.18
Structural and computational characterization of the SHV-1 beta-lactamase-beta-lactamase inhibitor protein interface. J Biol Chem (2006) 1.16
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
Structural frameworks for considering microbial protein- and nucleic acid-dependent motor ATPases. Mol Microbiol (2008) 1.07
Molecular basis for G protein control of the prokaryotic ATP sulfurylase. Mol Cell (2006) 1.07
The ancestral role of ATP hydrolysis in type II topoisomerases: prevention of DNA double-strand breaks. Nucleic Acids Res (2011) 1.07
A structural framework for replication origin opening by AAA+ initiation factors. Curr Opin Struct Biol (2012) 1.06
Structural dissection of ATP turnover in the prototypical GHL ATPase TopoVI. Structure (2005) 1.06
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
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
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
Contributions of folding cores to the thermostabilities of two ribonucleases H. Protein Sci (2002) 0.99
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
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
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
The crystal structure of the hinge domain of the Escherichia coli structural maintenance of chromosomes protein MukB. J Mol Biol (2009) 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
SnapShot: nucleic acid helicases and translocases. Cell (2008) 0.92
Two surfaces on the histone chaperone Rtt106 mediate histone binding, replication, and silencing. Proc Natl Acad Sci U S A (2011) 0.92
Structure of the C-terminus of the mRNA export factor Dbp5 reveals the interaction surface for the ATPase activator Gle1. Proc Natl Acad Sci U S A (2009) 0.92
Narrowing substrate specificity in a directly evolved enzyme: the A293D mutant of aspartate aminotransferase. Biochemistry (2004) 0.91
Nanoscale protein assemblies from a circular permutant of the tobacco mosaic virus. Nano Lett (2010) 0.89
Structure of the nuclease domain of ribonuclease III from M. tuberculosis at 2.1 A. Protein Sci (2005) 0.89
Structural basis for topoisomerase VI inhibition by the anti-Hsp90 drug radicicol. Nucleic Acids Res (2006) 0.88
Structural basis for the MukB-topoisomerase IV interaction and its functional implications in vivo. EMBO J (2013) 0.87
FASTDXL: a generalized screen to trap disulfide-stabilized complexes for use in structural studies. Structure (2007) 0.87
Structure of the ATP-binding domain of Plasmodium falciparum Hsp90. Proteins (2010) 0.87
Emerging roles for plant topoisomerase VI. Chem Biol (2003) 0.86
A Meier-Gorlin syndrome mutation in a conserved C-terminal helix of Orc6 impedes origin recognition complex formation. Elife (2013) 0.83
Hyperthermophilic Aquifex aeolicus initiates primer synthesis on a limited set of trinucleotides comprised of cytosines and guanines. Nucleic Acids Res (2008) 0.83
Distinct regions of the Escherichia coli ParC C-terminal domain are required for substrate discrimination by topoisomerase IV. J Mol Biol (2013) 0.83
Bypassing fluoroquinolone resistance with quinazolinediones: studies of drug-gyrase-DNA complexes having implications for drug design. ACS Chem Biol (2014) 0.83
Unraveling the early steps of prokaryotic replication. Curr Opin Struct Biol (2005) 0.83
Real-time detection of DNA topological changes with a fluorescently labeled cruciform. Nucleic Acids Res (2013) 0.81
Crystallization and X-ray structure determination of an RNA-dependent hexameric helicase. Methods Enzymol (2012) 0.79