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*  Intramolecular synapsis of duplex DNA by vaccinia topoisomerase | The EMBO Journal
... bound DNA by catalytic amounts of wild‐type topoisomerase (Figure 5). Eight or more superhelical turns were introduced per DNA ... Shuman S (1991) Site‐specific interaction of vaccinia virus DNA topoisomerase I with duplex DNA: minimal DNA substrate for ... Electron microscopy of topoisomerase-DNA complexes. (A) Linear pBluescript plasmid DNA. (B) Topoisomerase-DNA complexes formed ... Madden KR, Stewart L and Champoux JJ (1995) Preferential binding of human topoisomerase I to superhelical DNA. EMBO J, 14, 5399 ...
http://emboj.embopress.org/content/16/21/6584.print
*  Conformational changes induced by salt in complexes of histones and superhelical nuclear DNA | Journal of Cell Science
Both have a higher affinity for superhelical DNA than they do for relaxed DNA. The binding of ethidium is measured ... Conformational changes induced by salt in complexes of histones and superhelical nuclear DNA ... Conformational changes induced by salt in complexes of histones and superhelical nuclear DNA ... Conformational changes induced by salt in complexes of histones and superhelical nuclear DNA ...
http://jcs.biologists.org/content/50/1/199
*  Determination of the number of superhelical turns in simian virus 40 DNA by gel electrophoresis | PNAS
Closed-circular, superhelical DNA from simian virus 40 (SV40 DNA I) was treated with an excess of DNA-relaxing enzyme in the ... DNA topology, not DNA sequence, is a critical determinant for Drosophila ORC-DNA binding ... 2 of superhelical versus relaxed DNA implies an unwinding of the DNA helix by 26-28 degree upon intercalation of one molecule ... Determination of the number of superhelical turns in simian virus 40 DNA by gel electrophoresis. W Keller ...
http://www.pnas.org/content/72/12/4876
*  Human mitochondrial mTERF wraps around DNA through a left-handed superhelical tandem repeat
... Nat Struct Mol Biol.17(7):891-3 ... Human mitochondrial mTERF wraps around DNA through a left-handed superhelical tandem repeat. Nereida Jiménez-Menéndez1,2, Pablo ... Role for RNA:DNA hibrids in origin-independent replication priming in a eukaryotic system. DNA replication initiates at defined ... Human mitochondrial mTERF wraps around DNA through a left-handed superhelical tandem repeat ...
http://www.sebbm.es/web/en/science-for-society/article-of-the-month/701-human-mitochondrial-mterf-wraps-around-dna-through-a-left-handed-superhelical-tandem-repeat
*  Twisted Elastic Rings and the Rediscoveries of Michell's Instability | SpringerLink
This fundamental instability plays an important role in the modeling of DNA mechanics and in cable engineering. In 1962, Zajac ... Schlick, T.: Modeling superhelical DNA: Recent analytical and dynamical approaches. Curr. Opin. Struct. Biol. 5, 245-262 (1995) ... Han, W., Lindsay, S.M., Dlakic, M., Harrington, R.E.: Kinked DNA. Nature 386, 563 (1997)CrossRefADSGoogle Scholar ... Yang, Y., Tobias, I., Olson, W.K.: Finite element analysis of DNA supercoiling. J. Chem. Phys. 98, 1673-1686 (1993)CrossRefADS ...
https://link.springer.com/article/10.1007%2Fs10659-006-9055-3
*  Structural Biology and Functional Genomics | SpringerLink
Superhelical DNA Studied by Solution Scattering and Computer Models Jörg Langowski, Markus Hammermann, Konstantin Klenin, ... Topics included are chromosome and chromatin organisation, novel DNA and RNA structures, DNA flexibility, supercoiling, ... Mechanisms of Separation of the Complementary Strands of DNA During Replication A. I. Alexandrov, N. R. Cozzarelli, V. F. ... Histone-DNA Contacts in Structure/Function Relationships of Nucleosomes as Revealed by Crosslinking ...
https://link.springer.com/book/10.1007%2F978-94-011-4631-9
*  DNA supercoil - Wikipedia
Å of DNA length. Wr, called "writhe", is the number of superhelical twists. Since biological circular DNA is usually underwound ... DNA supercoiling is important for DNA packaging within all cells. Because the length of DNA can be thousands of times that of a ... Negative supercoiling is also thought to favour the transition between B-DNA and Z-DNA, and moderate the interactions of DNA ... Supercoiling is also required for DNA/RNA synthesis. Because DNA must be unwound for DNA/RNA polymerase action, supercoils will ...
https://en.wikipedia.org/wiki/DNA_supercoil
*  Influence of lineage-specific amino acid dimorphisms in GyrA on Mycobacterium tuberculosis resistance to fluoroquinolones.
... utilizing recombinant DNA gyrases, to elucidate the influence of the lineage-specific serine or threonine residue at position ... DNA Gyrase / genetics, metabolism*. DNA, Bacterial / genetics. DNA, Superhelical / genetics. Drug Resistance, Bacterial. Enzyme ... 0/DNA, Bacterial; 0/DNA, Superhelical; 0/Fluoroquinolones; 0/Recombinant Proteins; 56-45-1/Serine; 72-19-5/Threonine; EC 5.99.1 ... We conducted in vitro DNA supercoiling assays, utilizing recombinant DNA gyrases, to elucidate the influence of the lineage- ...
http://www.biomedsearch.com/nih/Influence-Lineage-Specific-Amino-Acid/22274162.html
*  Talks | Institute for Mathematics and its Applications
Sites of Superhelical DNA Duplex Destabilization Occur at Specific Regulatory Regions. Craig Benham (Mount Sinai School of ... Continuum Mechanics Computations of DNA Cyclization. Robert Manning (University of Maryland) Molecular Structure: Dynamics, ...
https://www.ima.umn.edu/talks/workshops/1-7-9.2004/willinger/willinger1.1_files/navigation_bar.html?title=&field_speakers_value=&order=field_time&sort=asc
*  Analysis of the topoisomer distribution in different ye | Open-i
DNA, Superhelical/chemistry*. *Histone Deacetylases/genetics/metabolism*. *Histones/chemistry/metabolism*. *Plasmids/chemistry* ... After electrophoresis, DNA samples were transferred to a nitrocellulose filter and hybridized with the probes specified. The ... After electrophoresis, DNA samples were transferred to a nitrocellulose filter and hybridized with the probes specified. The ... The increase in negative superhelical distribution for different plasmids ranged from 1.9- to 1.3-fold relative to WT. ...
https://openi.nlm.nih.gov/detailedresult.php?img=PMC1636471_gkl678f1&req=4
*  Reproduction of Papovaviruses | SpringerLink
An activity from mammalian cells that untwists superhelical DNA-A possible swivel for DNA replication. Proc. Natl. Acad. Sci. ... The number of superhelical turns in polyoma DNA, J. Mol. Biol. 33, 173.PubMedGoogle Scholar ... Beard, P., Morrow, J. F., and Berg, P., 1973, Cleavage of circular superhelical SV40 DNA to a linear duplex by S, nuclease, J. ... Kato, A. C., Bartok, K., Fraser, M. J., and Denhardt, D. T., 1973, Sensitivity of superhelical DNA to a single-strand specific ...
https://link.springer.com/chapter/10.1007/978-1-4684-2703-5_2
*  Novel designs for DNA substrates of model single-Y rela | Open-i
Novel designs for DNA substrates of model single-Y relaxases.(A) SDS-PAGE of MobAR_RSF1010 with its targets. 7 μM MobAR was ... pone.0152666.g003: Novel designs for DNA substrates of model single-Y relaxases.(A) SDS-PAGE of MobAR_RSF1010 with its targets ... pone.0152666.g003: Novel designs for DNA substrates of model single-Y relaxases.(A) SDS-PAGE of MobAR_RSF1010 with its targets ... Three widely different relaxases, which belong to MOBF, MOBQ and MOBP families, can properly cleave DNA sequences with permuted ...
https://openi.nlm.nih.gov/detailedresult.php?img=PMC4814116_pone.0152666.g003&req=4
*  DNA Structure and Promoter Engineering | SpringerLink
Promoters are the regions of genomic DNA where transcription initiation machinery assembles and are generally... ... Bi C, Benham CJ (2004) WebSIDD: server for predicting stress-induced duplex destabilized (SIDD) sites in superhelical DNA. ... Promoter engineering DNA structural properties DNA duplex stability DNA bendability Intrinsic curvature NUCRADGEN Transcription ... Bolshoy A, McNamara P, Harrington RE, Trifonov EN (1991) Curved DNA without A-A: experimental estimation of all 16 DNA wedge ...
https://link.springer.com/chapter/10.1007/978-94-017-9514-2_13
*  Plus it
One is by way of the enzymatic activity of Top1, which relaxes DNA superhelical tension generated during transcription ( 1, 2, ... DNA damage, DNA repair, and mutagenesis. Introduction. DNA topoisomerase I (Top1) is biologically and pharmacologically ... Expression of human DNA topoisomerase I in yeast cells lacking yeast DNA topoisomerase I: restoration of sensitivity of the ... Camptothecin induces protein-linked DNA breaks via mammalian DNA topoisomerase I. J Biol Chem 1985; 260: 14873-8. ...
http://cancerres.aacrjournals.org/content/67/18/8752
*  About JBSD
Structures of Homopurine-Homopyrimidine Tract in Superhelical DNA. V. I. Lyamichev, S. M. Mirkin, and M. D. Frank-Kamenetskii, ... Dynamics of DNA Oligomers. B. Tidor, K. K. Irikura, B. R. Brooks, M. Karplus, J Biomol Struct Dyn 1, 231-252 (1983).. Times ... A Computer-Graphics Study of Sequence-Directed Bending in DNA. S. D. Levene and D. M. Crothers, J. Biomol Struct Dyn 1, 429-435 ... Tris (Phenanthroline) Metal-Complexes - Probes for DNA Helicity. J. K. Barton, J Biomol Struct Dyn 1, 621-632 (1983). Times ...
http://www.jbsdonline.com/c4291/about-jbsd-c4312.html
*  SIDD - Wikipedia
It is the melting of the DNA which is not induced by a promoter, but purely by the superhelical (also called topological) ... nature of the DNA. It is based on a statistical mechanics treatment of DNA made by Craig J. Benham and Richard M. Fye. This ... sites in superhelical DNA". Bioinformatics. 20 (9): 1477-1479. doi:10.1093/bioinformatics/bth304. PMID 15130924. [1]. ... "Activation of Gene Expression by a Novel DNA Structural Transmission Mechanism That Requires Supercoiling-induced DNA Duplex ...
https://en.wikipedia.org/wiki/SIDD
*  Tuberculosis, Multidrug-Resistant; Tuberculosis, Drug-Resistant
DNA, Superhelical. 1. + +. 304. Zidovudine. 1. + +. 305. Freund's Adjuvant. 1. + +. 306. Receptors, Pattern Recognition. 1. + + ... DNA-Binding Proteins. 1. + +. We do not evaluate or guarantee the accuracy of any content in this site. Click here for the full ...
https://lookfordiagnosis.com/results.php?symptoms=Tuberculosis%2C+Multidrug-Resistant%3B%20Tuberculosis%2C%20Drug-Resistant&lang=1&parent=%2F&mode=F&therapy_ap=1
*  DEK (gene) - Wikipedia
The protein binds to cruciform and superhelical DNA and induces positive supercoils into closed circular DNA. It is also ... Waldmann T, Eckerich C, Baack M, Gruss C (2002). "The ubiquitous chromatin protein DEK alters the structure of DNA by ... "Entrez Gene: DEK DEK oncogene (DNA binding)". Campillos M, García MA, Valdivieso F, Vázquez J (Mar 2003). "Transcriptional ... "The protein encoded by the proto-oncogene DEK changes the topology of chromatin and reduces the efficiency of DNA replication ...
https://en.wikipedia.org/wiki/DEK_(gene)
*  Cas1 requires Cas2 for robust protospacer integrationa, | Open-i
DNA, Superhelical/chemistry/genetics/metabolism. *Nucleic Acid Conformation. *Substrate Specificity. *Transposases/metabolism ... Protospacer DNA with free 3'-OH ends and supercoiled target DNA are required, and integration occurs preferentially at the ends ... Protospacer DNA with free 3'-OH ends and supercoiled target DNA are required, and integration occurs preferentially at the ends ... Consistent with product DNA resulting from covalent integration of protospacer DNA into the plasmid, the relaxed and linear ...
https://openi.nlm.nih.gov/detailedresult.php?img=PMC4359072_nihms-656540-f0007&req=4
*  Polydnavirus - Wikipedia
Genomes are circular and segmented, composed of multiple segments of double-stranded, superhelical DNA packaged in capsid ... Polydnavirus DNA is Integrated in the DNA of Its Parasitoid Wasp Host-article from the Proceedings of the National Academy of ... "Polydnavirus DNA is integrated in the DNA of its parasitoid wasp host". Proceedings of the National Academy of Sciences. 88 (21 ... DNA-templated transcription is the method of transcription. The virus exits the host cell by nuclear pore export. Parasitoid ...
https://en.wikipedia.org/wiki/Polydnavirus
*  Template-Directed Replication of Nucleic Acids Mediated by Viscous Environments | Springer for Research & Development
Radding CM, Beattie KL, Holloman WK, Wiegand RC (1977) Uptake of homologous single-stranded fragments by superhelical DNA: IV. ... Panyutin IG, Hsieh P (1994) The kinetics of spontaneous DNA branch migration. Proc Natl Acad Sci USA 91(6):2021-2025CrossRef ... Portella G, Germann MW, Hud NV, Orozco M (2014) MD and NMR analyses of choline and TMA binding to duplex DNA: on the origins of ... Kausar A, McKay RD, Lam J, Bhogal RS, Tang AY, Gibbs-Davis JM (2011) Tuning DNA stability to achieve turnover in template for ...
https://rd.springer.com/chapter/10.1007%2F978-3-319-93584-3_7
*  Triple-stranded DNA - Wikipedia
"Structures of homopurine-homopyrimidine tract in superhelical DNA". Biomol Struct Dyn. 3 (667-669). CS1 maint: Multiple names: ... There are two different types of intramolecular triplex DNA: H-DNA and H*-DNA. Formation of H-DNA is stabilized under acidic ... Triple-stranded DNA is a DNA structure in which three oligonucleotides wind around each other and form a triple helix. In this ... Triple-stranded DNA was a common hypothesis in the 1950s when scientists were struggling to discover DNA's true structural form ...
https://en.wikipedia.org/wiki/Triple-stranded_DNA
*  Frontiers | Epigenome Engineering in Cancer: Fairytale or a Realistic Path to the Clinic? | Oncology
Epigenetic modifications such as histone post-transcriptional modifications and DNA methylation organize the DNA in the nucleus ... Epigenetic modifications such as histone post-transcriptional modifications and DNA methylation organize the DNA in the nucleus ... Approximately 147 bps of superhelical DNA is wrapped around dimers of histones H2A, H2B, H3, and H4 composing the nucleosome ... Indeed, DNA methylation was the first identified epigenetic mark (10). DNA methylation is catalyzed by DNA methyltransferase ...
https://www.frontiersin.org/articles/10.3389/fonc.2015.00022/full
*  Medline.ru - ?????????????? ?????? English Articles - Medline.ru
Features of changes of the superhelical dna of wole blood cells and immunity of the human in conditions of chronic overloads ... Nuclear regulation of mitochondrial dna biogenesis in mouse liver following X-ray irradiation Gubina N.E., Evdokimovsky E.V, ...
http://medline.ru/public/engvers.phtml?toms=13&ys=2012
*  Microbiology Society Journals | Environment-directed activation of the Escherichia coliflhDC operon by transposons
Hot spots for IS insertion correlate with positions of stress-induced DNA duplex destabilization (SIDD). We show that IS ... Zhabinskaya D, Madden S, Benham CJ. SIST: stress-induced structural transitions in superhelical DNA. Bioinformatics 2015;31:421 ... Bi C, Benham CJ. WebSIDD: server for predicting stress-induced duplex destabilized (SIDD) sites in superhelical DNA. ... Benham CJ. Duplex destabilization in superhelical DNA is predicted to occur at specific transcriptional regulatory regions. J ...
https://mic.microbiologyresearch.org/content/journal/micro/10.1099/mic.0.000426