Closing the ring: links between SMC proteins and chromosome partitioning, condensation, and supercoiling.

PubWeight™: 2.14‹?› | Rank: Top 2%

🔗 View Article (PMC 34294)

Published in Proc Natl Acad Sci U S A on February 15, 2000

Authors

V F Holmes1, N R Cozzarelli

Author Affiliations

1: Department of Molecular Biology, University of California, Berkeley, CA 94720-3204, USA.

Articles citing this

Genome of a low-salinity ammonia-oxidizing archaeon determined by single-cell and metagenomic analysis. PLoS One (2011) 4.04

Topological domain structure of the Escherichia coli chromosome. Genes Dev (2004) 3.30

C. elegans condensin promotes mitotic chromosome architecture, centromere organization, and sister chromatid segregation during mitosis and meiosis. Genes Dev (2002) 3.13

Probing allostery through DNA. Science (2013) 2.92

Entropy-driven spatial organization of highly confined polymers: lessons for the bacterial chromosome. Proc Natl Acad Sci U S A (2006) 2.50

H-NS mediated compaction of DNA visualised by atomic force microscopy. Nucleic Acids Res (2000) 2.35

Mutation of YCS4, a budding yeast condensin subunit, affects mitotic and nonmitotic chromosome behavior. Mol Biol Cell (2002) 2.26

Spatial patterns of transcriptional activity in the chromosome of Escherichia coli. Genome Biol (2004) 2.15

Cryoelectron microscopy of lambda phage DNA condensates in vitreous ice: the fine structure of DNA toroids. Proc Natl Acad Sci U S A (2001) 2.13

Topological challenges to DNA replication: conformations at the fork. Proc Natl Acad Sci U S A (2001) 2.11

A moving DNA replication factory in Caulobacter crescentus. EMBO J (2001) 1.94

Organization and segregation of bacterial chromosomes. Nat Rev Genet (2013) 1.76

Rickettsia phylogenomics: unwinding the intricacies of obligate intracellular life. PLoS One (2008) 1.67

Surfing biological surfaces: exploiting the nucleoid for partition and transport in bacteria. Mol Microbiol (2012) 1.55

Organization of supercoil domains and their reorganization by transcription. Mol Microbiol (2005) 1.55

Entropy as the driver of chromosome segregation. Nat Rev Microbiol (2010) 1.52

Escherichia coli sister chromosome separation includes an abrupt global transition with concomitant release of late-splitting intersister snaps. Proc Natl Acad Sci U S A (2011) 1.49

The challenge of developing robust drugs to overcome resistance. Drug Discov Today (2011) 1.43

DNA reshaping by MukB. Right-handed knotting, left-handed supercoiling. J Biol Chem (2005) 1.40

Interlinked sister chromosomes arise in the absence of condensin during fast replication in B. subtilis. Curr Biol (2014) 1.39

Selection for chromosome architecture in bacteria. J Mol Evol (2006) 1.36

A role of topoisomerase II in linking DNA replication to chromosome condensation. J Cell Biol (2003) 1.35

Escherichia coli cell cycle control genes affect chromosome superhelicity. EMBO Rep (2000) 1.33

Antagonistic interactions of kleisins and DNA with bacterial Condensin MukB. J Biol Chem (2006) 1.26

The MukF subunit of Escherichia coli condensin: architecture and functional relationship to kleisins. EMBO J (2005) 1.24

A-tract clusters may facilitate DNA packaging in bacterial nucleoid. Nucleic Acids Res (2005) 1.21

Generic features of tertiary chromatin structure as detected in natural chromosomes. Mol Cell Biol (2004) 1.19

Chromosome condensation in the absence of the non-SMC subunits of MukBEF. J Bacteriol (2006) 1.17

Structural maintenance of chromosomes protein of Bacillus subtilis affects supercoiling in vivo. J Bacteriol (2002) 1.14

Rates of gyrase supercoiling and transcription elongation control supercoil density in a bacterial chromosome. PLoS Genet (2012) 1.14

Segregation of the replication terminus of the two Vibrio cholerae chromosomes. J Bacteriol (2006) 1.14

Functional characterisation of mycobacterial DNA gyrase: an efficient decatenase. Nucleic Acids Res (2002) 1.13

Compatible bacterial plasmids are targeted to independent cellular locations in Escherichia coli. EMBO J (2002) 1.10

DNA gyrase is involved in chloroplast nucleoid partitioning. Plant Cell (2004) 1.09

The ancestral role of ATP hydrolysis in type II topoisomerases: prevention of DNA double-strand breaks. Nucleic Acids Res (2011) 1.07

Mechanics of DNA bridging by bacterial condensin MukBEF in vitro and in singulo. EMBO J (2010) 1.04

Localization of replication forks in wild-type and mukB mutant cells of Escherichia coli. Mol Genet Genomics (2005) 1.03

Hot-spot consensus of fluoroquinolone-mediated DNA cleavage by Gram-negative and Gram-positive type II DNA topoisomerases. Nucleic Acids Res (2007) 1.02

Partitioning of chromosomal DNA during establishment of cellular asymmetry in Bacillus subtilis. J Bacteriol (2002) 0.98

Growth rate toxicity phenotypes and homeostatic supercoil control differentiate Escherichia coli from Salmonella enterica serovar Typhimurium. J Bacteriol (2007) 0.98

Internal structure and dynamics of isolated Escherichia coli nucleoids assessed by fluorescence correlation spectroscopy. Biophys J (2007) 0.98

MukEF Is required for stable association of MukB with the chromosome. J Bacteriol (2007) 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

Wavelet Analysis of DNA Bending Profiles reveals Structural Constraints on the Evolution of Genomic Sequences. J Biol Phys (2004) 0.95

The Escherichia coli SMC complex, MukBEF, shapes nucleoid organization independently of DNA replication. J Bacteriol (2012) 0.93

Role of RNA polymerase and transcription in the organization of the bacterial nucleoid. Chem Rev (2013) 0.92

Spatio-temporal organization of replication in bacteria and eukaryotes (nucleoids and nuclei). Cold Spring Harb Perspect Biol (2012) 0.91

Cell-cycle-regulated expression and subcellular localization of the Caulobacter crescentus SMC chromosome structural protein. J Bacteriol (2003) 0.90

Chromosome segregation in Eubacteria. Curr Opin Microbiol (2003) 0.90

Depletion of RNase HI activity in Escherichia coli lacking DNA topoisomerase I leads to defects in DNA supercoiling and segregation. Mol Microbiol (2008) 0.90

The Deinococcus radiodurans SMC protein is dispensable for cell viability yet plays a role in DNA folding. Extremophiles (2009) 0.87

Disentangling DNA during replication: a tale of two strands. Philos Trans R Soc Lond B Biol Sci (2004) 0.86

Binding of phage Phi29 architectural protein p6 to the viral genome: evidence for topological restriction of the phage linear DNA. Nucleic Acids Res (2004) 0.86

Polymer modeling of the E. coli genome reveals the involvement of locus positioning and macrodomain structuring for the control of chromosome conformation and segregation. Nucleic Acids Res (2013) 0.84

New genes with old modus operandi. The connection between supercoiling and partitioning of DNA in Escherichia coli. EMBO Rep (2000) 0.84

Genome wide, supercoiling-dependent in vivo binding of a viral protein involved in DNA replication and transcriptional control. Nucleic Acids Res (2004) 0.83

Escherichia coli and Salmonella 2000: the view from here. Microbiol Mol Biol Rev (2001) 0.83

Interplay between type 1A topoisomerases and gyrase in chromosome segregation in Escherichia coli. J Bacteriol (2013) 0.82

Current theoretical models fail to predict the topological complexity of the human genome. Front Mol Biosci (2015) 0.81

The precarious prokaryotic chromosome. J Bacteriol (2014) 0.81

The chromosome cycle of prokaryotes. Mol Microbiol (2013) 0.80

The condensin complexes play distinct roles to ensure normal chromosome morphogenesis during meiotic division in Arabidopsis. Plant J (2014) 0.78

Large-Scale Conformational Transitions in Supercoiled DNA Revealed by Coarse-Grained Simulation. Biophys J (2016) 0.75

Bridging chromosomal architecture and pathophysiology of Streptococcus pneumoniae. Genome Biol Evol (2017) 0.75

Species-specific supercoil dynamics of the bacterial nucleoid. Biophys Rev (2016) 0.75

Articles cited by this

Crystal structure of the nucleosome core particle at 2.8 A resolution. Nature (1997) 44.55

DNA topoisomerases. Annu Rev Biochem (1985) 13.01

New topoisomerase essential for chromosome segregation in E. coli. Cell (1990) 7.19

Localization of bacterial DNA polymerase: evidence for a factory model of replication. Science (1998) 5.77

A heterodimeric coiled-coil protein required for mitotic chromosome condensation in vitro. Cell (1994) 5.43

DNA condensation by multivalent cations. Biopolymers (1997) 4.49

Mitotic chromosome condensation. Annu Rev Cell Dev Biol (1996) 3.98

ATP-dependent positive supercoiling of DNA by 13S condensin: a biochemical implication for chromosome condensation. Cell (1997) 3.95

The role of topoisomerase IV in partitioning bacterial replicons and the structure of catenated intermediates in DNA replication. Cell (1992) 3.88

Fission yeast cut3 and cut14, members of a ubiquitous protein family, are required for chromosome condensation and segregation in mitosis. EMBO J (1994) 3.83

The symmetrical structure of structural maintenance of chromosomes (SMC) and MukB proteins: long, antiparallel coiled coils, folded at a flexible hinge. J Cell Biol (1998) 3.62

13S condensin actively reconfigures DNA by introducing global positive writhe: implications for chromosome condensation. Cell (1999) 3.24

Characterization of a prokaryotic SMC protein involved in chromosome partitioning. Genes Dev (1998) 3.13

Roles of topoisomerase IV and DNA gyrase in DNA unlinking during replication in Escherichia coli. Genes Dev (1995) 3.01

MIX-1: an essential component of the C. elegans mitotic machinery executes X chromosome dosage compensation. Cell (1998) 2.65

Conformational and thermodynamic properties of supercoiled DNA. Annu Rev Biophys Biomol Struct (1994) 2.59

DNA-membrane complex and nuclear segregation in bacteria. Cold Spring Harb Symp Quant Biol (1968) 2.43

Structure, dynamics, and function of chromatin in vitro. Annu Rev Biophys Biomol Struct (1998) 2.41

Chromosome and plasmid partition in Escherichia coli. Annu Rev Biochem (1992) 2.33

Suppression of chromosome segregation defects of Escherichia coli muk mutants by mutations in topoisomerase I. Proc Natl Acad Sci U S A (2000) 2.32

Gene organization in the region containing a new gene involved in chromosome partition in Escherichia coli. J Bacteriol (1988) 2.31

Topoisomerase IV, not gyrase, decatenates products of site-specific recombination in Escherichia coli. Genes Dev (1997) 2.12

Mutual suppression of mukB and seqA phenotypes might arise from their opposing influences on the Escherichia coli nucleoid structure. Mol Microbiol (1999) 1.70

The effect of ionic conditions on the conformations of supercoiled DNA. II. Equilibrium catenation. J Mol Biol (1997) 1.56

A cluster of genes that affects nucleoid segregation in Salmonella typhimurium. New Biol (1991) 1.43

Involvement of integration host factor (IHF) in maintenance of plasmid pSC101 in Escherichia coli: characterization of pSC101 mutants that replicate in the absence of IHF. J Bacteriol (1989) 1.30

Escherichia coli parA is an allele of the gyrB gene. Mol Gen Genet (1989) 1.26

Role of DNA superhelicity in partitioning of the pSC101 plasmid. Cell (1990) 1.25

Random diffusion can account for topA-dependent suppression of partition defects in low-copy-number plasmids. J Bacteriol (1992) 1.00

Articles by these authors

(truncated to the top 100)

Mechanism of action of nalidixic acid: purification of Escherichia coli nalA gene product and its relationship to DNA gyrase and a novel nicking-closing enzyme. Proc Natl Acad Sci U S A (1977) 14.75

A minute circular DNA from Escherichia coli 15. Proc Natl Acad Sci U S A (1968) 9.91

Enzymatic synthesis of deoxyribonucleic acid. XXXII. Replication of duplex deoxyribonucleic acid by polymerase at a single strand break. J Biol Chem (1970) 9.31

DNA gyrase and the supercoiling of DNA. Science (1980) 7.28

Energy coupling in DNA gyrase and the mechanism of action of novobiocin. Proc Natl Acad Sci U S A (1978) 6.33

The mechanism of action of inhibitors of DNA synthesis. Annu Rev Biochem (1977) 5.46

Purification of subunits of Escherichia coli DNA gyrase and reconstitution of enzymatic activity. Proc Natl Acad Sci U S A (1978) 5.33

Topoisomerase IV is a target of quinolones in Escherichia coli. Proc Natl Acad Sci U S A (1995) 4.68

Genetic control of L-alpha-glycerophosphate system in Escherichia coli. J Mol Biol (1968) 4.63

Escherichia coli mutants thermosensitive for deoxyribonucleic acid gyrase subunit A: effects on deoxyribonucleic acid replication, transcription, and bacteriophage growth. J Bacteriol (1979) 4.48

Growth stasis by accumulated L-alpha-glycerophosphate in Escherichia coli. J Bacteriol (1965) 4.01

The role of topoisomerase IV in partitioning bacterial replicons and the structure of catenated intermediates in DNA replication. Cell (1992) 3.88

Site-specific cleavage of DNA by E. coli DNA gyrase. Cell (1979) 3.45

Site-specific relaxation and recombination by the Tn3 resolvase: recognition of the DNA path between oriented res sites. Cell (1983) 3.34

A sign inversion mechanism for enzymatic supercoiling of DNA. Science (1979) 3.31

13S condensin actively reconfigures DNA by introducing global positive writhe: implications for chromosome condensation. Cell (1999) 3.24

Analysis of topoisomerase function in bacterial replication fork movement: use of DNA microarrays. Proc Natl Acad Sci U S A (2000) 3.08

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

Conformational and thermodynamic properties of supercoiled DNA. J Mol Biol (1992) 2.94

Use of site-specific recombination as a probe of DNA structure and metabolism in vivo. J Mol Biol (1987) 2.84

DNA microarray analysis of gene expression in response to physiological and genetic changes that affect tryptophan metabolism in Escherichia coli. Proc Natl Acad Sci U S A (2000) 2.83

Probability of DNA knotting and the effective diameter of the DNA double helix. Proc Natl Acad Sci U S A (1993) 2.79

Formation and resolution of DNA catenanes by DNA gyrase. Cell (1980) 2.68

Chromosomal location of the structural gene for glycerol kinase in Escherichia coli. J Bacteriol (1966) 2.67

Unfettered access to published results. Proc Natl Acad Sci U S A (2001) 2.60

Conformational and thermodynamic properties of supercoiled DNA. Annu Rev Biophys Biomol Struct (1994) 2.59

Roles of topoisomerases in maintaining steady-state DNA supercoiling in Escherichia coli. J Biol Chem (2000) 2.58

Structure of plectonemically supercoiled DNA. J Mol Biol (1990) 2.48

The intrinsic ATPase of DNA gyrase. J Biol Chem (1980) 2.41

Structure and activities of Escherichia coli DNA gyrase. Cold Spring Harb Symp Quant Biol (1979) 2.35

A topoisomerase from Escherichia coli related to DNA gyrase. Proc Natl Acad Sci U S A (1979) 2.29

Purified RNA polymerase III accurately and efficiently terminates transcription of 5S RNA genes. Cell (1983) 2.28

Positive torsional strain causes the formation of a four-way junction at replication forks. J Biol Chem (2000) 2.22

Escherichia coli type-1 topoisomerases: identification, mechanism, and role in recombination. Cold Spring Harb Symp Quant Biol (1983) 2.22

Catenation of DNA rings by topoisomerases. Mechanism of control by spermidine. J Biol Chem (1982) 2.18

Biochemical topology: applications to DNA recombination and replication. Science (1986) 2.17

Interaction of bacteriophage T4 RNA and DNA ligases in joining of duplex DNA at base-paired ends. J Biol Chem (1977) 2.13

Topoisomerase IV, not gyrase, decatenates products of site-specific recombination in Escherichia coli. Genes Dev (1997) 2.12

Topological challenges to DNA replication: conformations at the fork. Proc Natl Acad Sci U S A (2001) 2.11

Enzymic synthesis of DNA. 33. Hydrolysis of a 5'-triphosphate-terminated polynucleotide in the active center of DNA polymerase. J Mol Biol (1969) 2.09

Bacteriophage T4 RNA ligase. Reaction intermediates and interaction of substrates. J Biol Chem (1977) 2.07

The stereostructure of knots and catenanes produced by phage lambda integrative recombination: implications for mechanism and DNA structure. Cell (1985) 2.03

Contacts between DNA gyrase and its binding site on DNA: features of symmetry and asymmetry revealed by protection from nucleases. Proc Natl Acad Sci U S A (1981) 2.02

Discovery of a predicted DNA knot substantiates a model for site-specific recombination. Science (1985) 2.01

Polynucleotide cellulose as a substrate for a polynucleotide ligase induced by phage T4. Biochem Biophys Res Commun (1967) 2.00

Effect of supercoiling on the juxtaposition and relative orientation of DNA sites. Biophys J (1996) 1.97

The mechanism of inhibition of topoisomerase IV by quinolone antibacterials. J Biol Chem (1998) 1.96

Preferential relaxation of positively supercoiled DNA by E. coli topoisomerase IV in single-molecule and ensemble measurements. Genes Dev (2000) 1.94

Catalysis of DNA joining by bacteriophage T4 RNA ligase. Biochem Biophys Res Commun (1976) 1.91

Duplex DNA knots produced by Escherichia coli topoisomerase I. Structure and requirements for formation. J Biol Chem (1985) 1.91

Purification and characterization of DNA polymerase III from Bacillus subtilis. J Biol Chem (1976) 1.90

Analysis of RNA polymerase III transcription complexes by gel filtration. J Biol Chem (1986) 1.90

Mechanism of topology simplification by type II DNA topoisomerases. Proc Natl Acad Sci U S A (2001) 1.87

Accumulation of toxic concentrations of methylglyoxal by wild-type Escherichia coli K-12. J Bacteriol (1974) 1.86

Interaction between DNA gyrase and its cleavage site on DNA. J Biol Chem (1980) 1.82

DNA topoisomerases. Cell (1980) 1.82

Further genetic and enzymological characterization of the three Bacillus subtilis deoxyribonucleic acid polymerases. J Biol Chem (1973) 1.79

The structure of supercoiled intermediates in DNA replication. Cell (1998) 1.75

Genetics and physiology of bacteriophage T4 3'-phosphatase: evidence for involvement of the enzyme in T4 DNA metabolism. J Virol (1974) 1.74

Gin-mediated DNA inversion: product structure and the mechanism of strand exchange. Proc Natl Acad Sci U S A (1988) 1.72

Second pyridine nucleotide-independent 1-alpha-glycerophosphate dehydrogenase in Escherichia coli K-12. J Bacteriol (1969) 1.72

Escherichia coli DNA gyrase. Methods Enzymol (1983) 1.70

DNA gyrase subunit stoichiometry and the covalent attachment of subunit A to DNA during DNA cleavage. Nucleic Acids Res (1980) 1.69

Characterization of a new class of deletions of the D region of the bacteriophage T4 genome. Virology (1975) 1.66

Processive recombination by the phage Mu Gin system: implications for the mechanisms of DNA strand exchange, DNA site alignment, and enhancer action. Cell (1990) 1.65

Contrasting enzymatic activities of topoisomerase IV and DNA gyrase from Escherichia coli. J Biol Chem (1996) 1.64

DNA-joining enzymes: a review. Methods Enzymol (1979) 1.63

The binding of gyrase to DNA: analysis by retention by nitrocellulose filters. Nucleic Acids Res (1982) 1.57

The effect of ionic conditions on the conformations of supercoiled DNA. II. Equilibrium catenation. J Mol Biol (1997) 1.56

Catenation and knotting of duplex DNA by type 1 topoisomerases: a mechanistic parallel with type 2 topoisomerases. Proc Natl Acad Sci U S A (1981) 1.55

Bacteriophage T4 RNA ligase is gene 63 product, the protein that promotes tail fiber attachment to the baseplate. Proc Natl Acad Sci U S A (1977) 1.54

Lambda transducing phages for the nalA gene of Escherichia coli and conditional lethal nalA mutations. Mol Gen Genet (1978) 1.54

Inhibition of a DNA polymerase from Bacillus subtilis by hydroxyphenylazopyrimidines. Proc Natl Acad Sci U S A (1973) 1.53

Mutational alteration of Bacillus subtilis DNA polymerase 3 to hydroxyphenylazopyrimidine resistance: polymerase 3 is necessary for DNA replication. Biochem Biophys Res Commun (1973) 1.48

Recombination site selection by Tn3 resolvase: topological tests of a tracking mechanism. Cell (1985) 1.46

Processive recombination by wild-type gin and an enhancer-independent mutant. Insight into the mechanisms of recombination selectivity and strand exchange. J Mol Biol (1994) 1.45

Cre-lox recombination in Escherichia coli cells. Mechanistic differences from the in vitro reaction. J Mol Biol (1992) 1.45

The mechanism of type IA topoisomerases. Proc Natl Acad Sci U S A (2002) 1.43

Isolation and characterization of the Tn3 resolvase synaptic intermediate. EMBO J (1988) 1.41

The effect of ionic conditions on DNA helical repeat, effective diameter and free energy of supercoiling. Nucleic Acids Res (1997) 1.39

The absence of supercoiling in kinetoplast DNA minicircles. EMBO J (1993) 1.37

The topological mechanism of phage lambda integrase. J Mol Biol (1999) 1.36

The effect of ionic conditions on the conformations of supercoiled DNA. I. Sedimentation analysis. J Mol Biol (1997) 1.35

Induction of specific transcription by RNA polymerase III in transformed cells. Mol Cell Biol (1986) 1.34

Determination of the absolute handedness of knots and catenanes of DNA. Nature (1983) 1.29

Supercoiled DNA-directed knotting by T4 topoisomerase. J Biol Chem (1991) 1.29

A topological treatment of recombination and topoisomerases. Cold Spring Harb Symp Quant Biol (1984) 1.26

The topology of the kinetoplast DNA network. Cell (1995) 1.23

Monte Carlo analysis of the conformation of DNA catenanes. J Mol Biol (1993) 1.20

Altered deoxyribonucleic acid polymerase activity in a methyl methanesulfonate-sensitive mutant of Bacillus subtilis. J Bacteriol (1971) 1.18

Analysis of strand exchange and DNA binding of enhancer-independent Gin recombinase mutants. EMBO J (1993) 1.15

Knot what we thought before: the twisted story of replication. Bioessays (1999) 1.13

Equilibrium distributions of topological states in circular DNA: interplay of supercoiling and knotting. Proc Natl Acad Sci U S A (1999) 1.12

The helical repeat of double-stranded DNA varies as a function of catenation and supercoiling. Nature (1988) 1.11

Comparison of recombination in vitro and in E. coli cells: measure of the effective concentration of DNA in vivo. Cell (1995) 1.10

Bacteriophage T4-directed DNA synthesis in toluene-treated cells. J Virol (1973) 1.10

Gin-mediated recombination of catenated and knotted DNA substrates: implications for the mechanism of interaction between cis-acting sites. Cell (1989) 1.08

Helical repeat and linking number of surface-wrapped DNA. Science (1988) 1.07

Mechanism of strand passage by Escherichia coli topoisomerase I. The role of the required nick in catenation and knotting of duplex DNA. J Biol Chem (1985) 1.07