Site-specific effect of thymine dimer formation on dAn.dTn tract bending and its biological implications.

Abstract:

:dAn.dTn sequences, otherwise known as A tracts, are hotspots for cis-syn thymine dimer formation and deletion mutations induced by UV light. Such A tracts are also known to bend DNA, suggesting that some biological effects of UV light might be related to the distinctive structure and properties of cis-syn dimer-containing A tracts. To investigate the effect of thymine dimer formation on A-tract bending multimers of all possible dimer monoadducts of a dA6.dT6-containing decamer known to bend DNA were prepared along with multimers of a dimer-containing 21-mer of heterogeneous sequence. The characteristic anomalous electrophoretic behavior of the phased A-tract multimers was essentially abolished by dimer formation at the center of the A tract and was only slightly reduced by dimer formation at the ends. These effects are attributed to disruption of the A-tract structure at the site of the dimer, resulting in intact A tracts of reduced length and, hence, reduced bending. This model was suggested by the ability to formulate the estimated bend angles of the dimer-containing A tracts as approximately equal to the sum of the bend angles induced by the dimer and the remaining intact portion of the A tract. Contrary to a previous experimental study that concluded that the thymine dimer bends DNA by approximately 30 degrees, the dimer was determined to bend DNA by only approximately 7 degrees. Reduction of the bending of a DNA sequence by dimer formation may have a number of unpredicted and important biological consequences.

authors

Wang CI,Taylor JS

doi

10.1073/pnas.88.20.9072

subject

Has Abstract

pub_date

1991-10-15 00:00:00

pages

9072-6

issue

20

eissn

0027-8424

issn

1091-6490

journal_volume

88

pub_type

杂志文章
  • F901318 represents a novel class of antifungal drug that inhibits dihydroorotate dehydrogenase.

    abstract::There is an important medical need for new antifungal agents with novel mechanisms of action to treat the increasing number of patients with life-threatening systemic fungal disease and to overcome the growing problem of resistance to current therapies. F901318, the leading representative of a novel class of drug, the...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1608304113

    authors: Oliver JD,Sibley GEM,Beckmann N,Dobb KS,Slater MJ,McEntee L,du Pré S,Livermore J,Bromley MJ,Wiederhold NP,Hope WW,Kennedy AJ,Law D,Birch M

    更新日期:2016-11-08 00:00:00

  • Completion of DNA replication in Escherichia coli.

    abstract::The mechanism by which cells recognize and complete replicated regions at their precise doubling point must be remarkably efficient, occurring thousands of times per cell division along the chromosomes of humans. However, this process remains poorly understood. Here we show that, in Escherichia coli, the completion of...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1415025111

    authors: Wendel BM,Courcelle CT,Courcelle J

    更新日期:2014-11-18 00:00:00

  • Formation of an RNA primer for initiation of replication of ColE1 DNA by ribonuclease H.

    abstract::A plasmid that consists of an 812-base-pair segment containing the replication origin of plasmid ColE1 and of a 1240-base-pair segment containing a beta-lactamase gene has been constructed. The plasmid DNA has three principal sites where transcription is initiated in vitro. One is located in the ColE1 segment 555 nucl...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.77.5.2450

    authors: Itoh T,Tomizawa J

    更新日期:1980-05-01 00:00:00

  • Random phase detection in multidimensional NMR.

    abstract::Despite advances in resolution accompanying the development of high-field superconducting magnets, biomolecular applications of NMR require multiple dimensions in order to resolve individual resonances, and the achievable resolution is typically limited by practical constraints on measuring time. In addition to the ne...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1103723108

    authors: Maciejewski MW,Fenwick M,Schuyler AD,Stern AS,Gorbatyuk V,Hoch JC

    更新日期:2011-10-04 00:00:00

  • Azatryptophans endow proteins with intrinsic blue fluorescence.

    abstract::Our long-term goal is the in vivo expression of intrinsically colored proteins without the need for further posttranslational modification or chemical functionalization by externally added reagents. Biocompatible (Aza)Indoles (Inds)/(Aza)Tryptophans (Trp) as optical probes represent almost ideal isosteric substitutes ...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.0802804105

    authors: Lepthien S,Hoesl MG,Merkel L,Budisa N

    更新日期:2008-10-21 00:00:00

  • Dysregulation of Kruppel-like factor 4 during brain development leads to hydrocephalus in mice.

    abstract::Kruppel-like factor 4 (KLF4) is involved in self-renewal of embryonic stem cells and reprogramming of somatic cells to pluripotency. However, its role in lineage-committed stem cells remains largely unknown. Here, we show that KLF4 is expressed in neural stem cells (NSCs) and is down-regulated during neuronal differen...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1112351109

    authors: Qin S,Liu M,Niu W,Zhang CL

    更新日期:2011-12-27 00:00:00

  • Role of autophagy in histone deacetylase inhibitor-induced apoptotic and nonapoptotic cell death.

    abstract::Autophagy is a cellular catabolic pathway by which long-lived proteins and damaged organelles are targeted for degradation. Activation of autophagy enhances cellular tolerance to various stresses. Recent studies indicate that a class of anticancer agents, histone deacetylase (HDAC) inhibitors, can induce autophagy. On...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1204429109

    authors: Gammoh N,Lam D,Puente C,Ganley I,Marks PA,Jiang X

    更新日期:2012-04-24 00:00:00

  • Extensive but reversible depletion of ATP via adenylate cyclase in rat adipocytes.

    abstract::In adipocytes, adenylate cyclase is positively regulated by beta-adrenergic agents and negatively regulated by adenosine. Incubation of adipocytes with adenosine deaminase relieves the inhibition of adenylate cyclase by destroying the adenosine that the cells release into the medium. When adipocytes are incubated with...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.82.6.1614

    authors: Chung FZ,Weber HW,Appleman MM

    更新日期:1985-03-01 00:00:00

  • Primary cilia control glucose homeostasis via islet paracrine interactions.

    abstract::Pancreatic islets regulate glucose homeostasis through coordinated actions of hormone-secreting cells. What underlies the function of the islet as a unit is the close approximation and communication among heterogeneous cell populations, but the structural mediators of islet cellular cross talk remain incompletely char...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.2001936117

    authors: Hughes JW,Cho JH,Conway HE,DiGruccio MR,Ng XW,Roseman HF,Abreu D,Urano F,Piston DW

    更新日期:2020-04-21 00:00:00

  • CXCR4 utilization is sufficient to trigger CD4+ T cell depletion in HIV-1-infected human lymphoid tissue.

    abstract::The human chemokine receptors CCR5 and CXCR4 have emerged as the predominant cofactors, along with CD4, for cellular entry of HIV-1 in vivo whereas the contribution of other chemokine receptors to HIV disease has not been yet determined. CCR5-specific (R5) viruses predominate during primary HIV-1 infection whereas vir...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.96.2.663

    authors: Penn ML,Grivel JC,Schramm B,Goldsmith MA,Margolis L

    更新日期:1999-01-19 00:00:00

  • Biologically recycled continental iron is a major component in banded iron formations.

    abstract::Banded iron formations (BIFs) record a time of extensive Fe deposition in the Precambrian oceans, but the sources and pathways for metals in BIFs remain controversial. Here, we present Fe- and Nd-isotope data that indicate two sources of Fe for the large BIF units deposited 2.5 billion y ago. High-εNd and -δ(56)Fe sig...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1505515112

    authors: Li W,Beard BL,Johnson CM

    更新日期:2015-07-07 00:00:00

  • Sulfated glycosaminoglycans mediate prion-like behavior of p53 aggregates.

    abstract::Sulfated glycosaminoglycans (GAGs) such as heparan sulfate (HS) are heteropolysaccharides implicated in the pathology of protein aggregation diseases including localized and systemic forms of amyloidosis. Among subdomains of sulfated GAGs, highly sulfated domains of HS, called HS S-domains, have been highlighted as be...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.2009931117

    authors: Iwahashi N,Ikezaki M,Nishikawa T,Namba N,Ohgita T,Saito H,Ihara Y,Shimanouchi T,Ino K,Uchimura K,Nishitsuji K

    更新日期:2020-12-29 00:00:00

  • Fluorescence polarization and viscosities of membrane lipids of 3T3 cells.

    abstract::Studies of the fluorescence polarization of 1,6-diphenyl-1,3,5-hexatriene in membranes of normal, transformed, and revertant 3T3 cells allowed estimation of microviscosities (eta) of the lipid bilayers of these cells. Fluorescence polarization values observed with normal cells were significantly lower than those obser...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.72.9.3351

    authors: Fuchs P,Parola A,Robbins PW,Blout ER

    更新日期:1975-09-01 00:00:00

  • Comparison of nucleotide interactions in water, proteins, and vacuum: model for DNA polymerase fidelity.

    abstract::We propose a model for DNA polymerase fidelity in which free energy differences, delta delta G, between matched and mismatched nucleotides are magnified at the enzyme's active site. Both hydrogen bonding and stacking components of the interaction energy are amplified, with the most profound effect being on the magnitu...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.83.6.1559

    authors: Petruska J,Sowers LC,Goodman MF

    更新日期:1986-03-01 00:00:00

  • Abscisic acid signal transduction in the barley aleurone is mediated by phospholipase D activity.

    abstract::The plant hormones abscisic acid (ABA) and gibberellic acid (GA) are important regulators of the dormancy and germination of seeds. In cereals, GA enhances the synthesis and secretion of enzymes (principally alpha-amylases) in the aleurone cells of the endosperm, which then mobilize the storage reserves that fuel germ...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.95.5.2697

    authors: Ritchie S,Gilroy S

    更新日期:1998-03-03 00:00:00

  • Communication between neocortex and hippocampus during sleep in rodents.

    abstract::Both neocortical and hippocampal networks organize the firing patterns of their neurons by prominent oscillations during sleep, but the functional role of these rhythms is not well understood. Here, we show a robust correlation of neuronal discharges between the somatosensory cortex and hippocampus on both slow and fi...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.0437938100

    authors: Sirota A,Csicsvari J,Buhl D,Buzsáki G

    更新日期:2003-02-18 00:00:00

  • Conformational changes in the intestinal brush border sodium-glucose cotransporter labeled with fluorescein isothiocyanate.

    abstract::Fluorescein isothiocyanate (FITC) was used to label the rabbit intestinal brush border Na+-glucose carrier, identify the carrier protein on sodium dodecyl sulfate/polyacrylamide gel electrophoresis, and monitor the effect of ions and substrates on fluorescence quenching. Enriched brush border preparations were employe...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.81.7.2223

    authors: Peerce BE,Wright EM

    更新日期:1984-04-01 00:00:00

  • Molecular mechanism of water reorientational slowing down in concentrated ionic solutions.

    abstract::Water dynamics in concentrated ionic solutions plays an important role in a number of material and energy conversion processes such as the charge transfer at the electrolyte-electrode interface in aqueous rechargeable ion batteries. One long-standing puzzle is that all electrolytes, regardless of their "structure-maki...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1707453114

    authors: Zhang Q,Wu T,Chen C,Mukamel S,Zhuang W

    更新日期:2017-09-19 00:00:00

  • Possible DNA-RNA tumor virus interaction in human lymphomas: expression of retroviral proteins in Ramos lymphoma lines is enhanced after conversion with Epstein-Barr virus.

    abstract::Epstein-Barr virus (EBV)-genome-negative human lymphoma lines, Ramos and BJAB, can be converted by EBV in vitro into EBV-genome-positive virus nonproducer lines. These cell lines have been used to identify surface antigens unique to EBV, with the expectation that such determinants might be related to the antigenic tar...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.81.1.33

    authors: Lasky RD,Troy FA

    更新日期:1984-01-01 00:00:00

  • Cell-type-specific receptors for alpha-fetoprotein in a mouse T-lymphoma cell line.

    abstract::Binding and uptake of alpha-fetoprotein (AFP) by mouse T-lymphoma YAC-1 cells exhibited the characteristics of receptor-mediated endocytosis. The binding saturation curve obtained by incubating YAC-1 cells at 4 degrees C with 125I-labeled AFP at different concentrations (50 ng/ml to 2.5 mg/ml) showed three saturation ...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.82.10.3301

    authors: Naval J,Villacampa MJ,Goguel AF,Uriel J

    更新日期:1985-05-01 00:00:00

  • Identification and evolution of fungal mitochondrial tyrosyl-tRNA synthetases with group I intron splicing activity.

    abstract::The bifunctional Neurospora crassa mitochondrial tyrosyl-tRNA synthetase (CYT-18 protein) both aminoacylates mitochondrial tRNA(Tyr) and acts as a structure-stabilizing splicing cofactor for group I introns. Previous studies showed that CYT-18 has distinct tRNA(Tyr) and group I intron-binding sites, with the latter fo...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.0801722105

    authors: Paukstelis PJ,Lambowitz AM

    更新日期:2008-04-22 00:00:00

  • Natural killer cells distinguish innocuous and destructive forms of pancreatic islet autoimmunity.

    abstract::In both human patients and murine models, the progression from insulitis to diabetes is neither immediate nor inevitable, as illustrated by the innocuous versus destructive infiltrates of BDC2.5 transgenic mice on the nonobese diabetic (NOD) versus C57BL/6.H-2g7 genetic backgrounds. Natural killer (NK)-cell-specific t...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.0402065101

    authors: Poirot L,Benoist C,Mathis D

    更新日期:2004-05-25 00:00:00

  • AthPEX10, a nuclear gene essential for peroxisome and storage organelle formation during Arabidopsis embryogenesis.

    abstract::In yeasts and mammals, PEX10 encodes an integral membrane protein with a C3HC4 RING finger motif in its C-terminal domain and is required for peroxisome biogenesis and matrix protein import. In humans, its dysfunction in peroxisome biogenesis leads to severe Zellweger Syndrome and infantile Refsum disease. Here we sho...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1633697100

    authors: Schumann U,Wanner G,Veenhuis M,Schmid M,Gietl C

    更新日期:2003-08-05 00:00:00

  • Skp1-Cullin-F-box (SCF)-type ubiquitin ligase FBXW7 negatively regulates spermatogonial stem cell self-renewal.

    abstract::Spermatogonial stem cells (SSCs) undergo self-renewal divisions to support spermatogenesis throughout life. Although several positive regulators of SSC self-renewal have been discovered, little is known about the negative regulators. Here, we report that F-box and WD-40 domain protein 7 (FBXW7), a component of the Skp...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1401837111

    authors: Kanatsu-Shinohara M,Onoyama I,Nakayama KI,Shinohara T

    更新日期:2014-06-17 00:00:00

  • Quantitative determination of transformed cells in a mixed population by stimultaneous fluorescence analysis of cell surface and DNA an individual cells.

    abstract::Cell-surface labeling with fluorescamine indicates that the fluorescence of Balb 3T3 A31 cells in considerably decreased after both viral and chemical transformation. This phenomenon, coupled with the technique of flow microfluorometry, enabled nontransformed and transformed cells to be distinguished. A second fluroes...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.74.4.1626

    authors: Hawkes SP,Bartholomew JC

    更新日期:1977-04-01 00:00:00

  • Pol31 and Pol32 subunits of yeast DNA polymerase δ are also essential subunits of DNA polymerase ζ.

    abstract::Replication through a diverse array of DNA lesions occurs by the sequential action of two translesion synthesis (TLS) DNA polymerases (Pols), in which one inserts the nucleotide opposite the lesion and the other carries out the subsequent extension. By extending from the nucleotide inserted by another Pol, Polζ plays ...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1206052109

    authors: Johnson RE,Prakash L,Prakash S

    更新日期:2012-07-31 00:00:00

  • Differential ability of T cell subsets to undergo activation-induced cell death.

    abstract::Human T cell clones were analyzed for their susceptibility to activation-induced cell death (AICD) in response to CD3/T cell receptor ligation. AICD was observed only in Th1 clones and was Fas-mediated, whereas Th2 clones resisted AICD. Analysis of a panel of Th0 clones, characterized by their ability to secrete both ...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.94.11.5778

    authors: Varadhachary AS,Perdow SN,Hu C,Ramanarayanan M,Salgame P

    更新日期:1997-05-27 00:00:00

  • Transverse fields to tune an Ising-nematic quantum phase transition.

    abstract::The paradigmatic example of a continuous quantum phase transition is the transverse field Ising ferromagnet. In contrast to classical critical systems, whose properties depend only on symmetry and the dimension of space, the nature of a quantum phase transition also depends on the dynamics. In the transverse field Isi...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1712533114

    authors: Maharaj AV,Rosenberg EW,Hristov AT,Berg E,Fernandes RM,Fisher IR,Kivelson SA

    更新日期:2017-12-19 00:00:00

  • Structured clustering of the glycosphingolipid GM1 is required for membrane curvature induced by cholera toxin.

    abstract::AB5 bacterial toxins and polyomaviruses induce membrane curvature as a mechanism to facilitate their entry into host cells. How membrane bending is accomplished is not yet fully understood but has been linked to the simultaneous binding of the pentameric B subunit to multiple copies of glycosphingolipid receptors. Her...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.2001119117

    authors: Kabbani AM,Raghunathan K,Lencer WI,Kenworthy AK,Kelly CV

    更新日期:2020-06-30 00:00:00

  • Breakdown of the brain's functional network modularity with awareness.

    abstract::Neurobiological theories of awareness propose divergent accounts of the spatial extent of brain changes that support conscious perception. Whereas focal theories posit mostly local regional changes, global theories propose that awareness emerges from the propagation of neural signals across a broad extent of sensory a...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1414466112

    authors: Godwin D,Barry RL,Marois R

    更新日期:2015-03-24 00:00:00