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DNA, Z-Form (0):
Recent article
DNA, Z-Form
Abstract
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Chemical Communications (46)38 2010
Abstract
Herein we report that Aβ aggregates, not Aβ monomer, can convert Z-DNA back to B-form, and curcumin, a well-known Aβ aggregation inhibitor, can stop DNA Z-B transition studied by means of biophysical and biochemical methods.
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PMID: 20820525
PDF is available here.
PDF is available here.
Abstract
We have sought homology-dependent structural phenomena based on topological relaxation. Using two-dimensional electrophoresis, we demonstrate a structural transition in supercoiled plasmid molecules containing homologous segments. Atomic force microscopy (AFM) reveals a dumbbell structure in molecul...
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PMID: 20616051
PDF is available here.
PDF is available here.
Abstract
The left-handed Z-DNA form of the short unmodified alternating guanine-cytosine oligonucleotides, 5'-(dGdC)(24) and 5'-(dGdC)(18), was selectively detected under physiological ionic strength and pH conditions using the anionic nickel(II) porphyrin, NiTPPS. No spectroscopic signal was observed for Ni...
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PMID: 20510880
PDF is available here.
PDF is available here.
Abstract
We describe the three-dimensional structure of a Z-Z junction stabilized by Zalpha, the Z-DNA binding domain of the RNA editing enzyme ADAR1. We show that the junction structure consists of a single base pair and leads to partial or full disruption of the helical stacking. The junction region allows...
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PMID: 20439751
PDF is available here.
PDF is available here.
Current Drug Targets (11)3 2010
Abstract
We present an overview of Z-DNA and known ZBPs as drug targets, and summarize recent progress in the structure-based identification of ZBP inhibitors....
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PMID: 20210758
PDF is available here.
PDF is available here.
ChemPhysChem (11)3 2010
Abstract
These results suggest that metal-mediated Hoogsteen base pairing, as previously proposed for a right-handed DNA duplex, can also occur in a double-stranded left-handed DNA....
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PMID: 20029882
PDF is available here.
PDF is available here.
ChemPhysChem (11)3 2010
Abstract
These results suggest that metal-mediated Hoogsteen base pairing, as previously proposed for a right-handed DNA duplex, can also occur in a double-stranded left-handed DNA....
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PMID: 20029882
PDF is available here.
PDF is available here.
ChemPhysChem (11)3 2010
Abstract
These results suggest that metal-mediated Hoogsteen base pairing, as previously proposed for a right-handed DNA duplex, can also occur in a double-stranded left-handed DNA....
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PMID: 20029882
PDF is available here.
PDF is available here.
ChemPhysChem (11)3 2010
Abstract
These results suggest that metal-mediated Hoogsteen base pairing, as previously proposed for a right-handed DNA duplex, can also occur in a double-stranded left-handed DNA....
|
PMID: 20029882
PDF is available here.
PDF is available here.
ChemPhysChem (11)3 2010
Abstract
These results suggest that metal-mediated Hoogsteen base pairing, as previously proposed for a right-handed DNA duplex, can also occur in a double-stranded left-handed DNA....
|
PMID: 20029882
PDF is available here.
PDF is available here.
ChemPhysChem (11)3 2010
Abstract
These results suggest that metal-mediated Hoogsteen base pairing, as previously proposed for a right-handed DNA duplex, can also occur in a double-stranded left-handed DNA....
|
PMID: 20029882
PDF is available here.
PDF is available here.
ChemPhysChem (11)3 2010
Abstract
These results suggest that metal-mediated Hoogsteen base pairing, as previously proposed for a right-handed DNA duplex, can also occur in a double-stranded left-handed DNA....
|
PMID: 20029882
PDF is available here.
PDF is available here.
ChemPhysChem (11)3 2010
Abstract
These results suggest that metal-mediated Hoogsteen base pairing, as previously proposed for a right-handed DNA duplex, can also occur in a double-stranded left-handed DNA....
|
PMID: 20029882
PDF is available here.
PDF is available here.
ChemPhysChem (11)3 2010
Abstract
These results suggest that metal-mediated Hoogsteen base pairing, as previously proposed for a right-handed DNA duplex, can also occur in a double-stranded left-handed DNA....
|
PMID: 20029882
PDF is available here.
PDF is available here.
ChemPhysChem (11)3 2010
Abstract
These results suggest that metal-mediated Hoogsteen base pairing, as previously proposed for a right-handed DNA duplex, can also occur in a double-stranded left-handed DNA....
|
PMID: 20029882
PDF is available here.
PDF is available here.
ChemPhysChem (11)3 2010
Abstract
These results suggest that metal-mediated Hoogsteen base pairing, as previously proposed for a right-handed DNA duplex, can also occur in a double-stranded left-handed DNA....
|
PMID: 20029882
PDF is available here.
PDF is available here.
ChemPhysChem (11)3 2010
Abstract
These results suggest that metal-mediated Hoogsteen base pairing, as previously proposed for a right-handed DNA duplex, can also occur in a double-stranded left-handed DNA....
|
PMID: 20029882
PDF is available here.
PDF is available here.
ChemPhysChem (11)3 2010
Abstract
These results suggest that metal-mediated Hoogsteen base pairing, as previously proposed for a right-handed DNA duplex, can also occur in a double-stranded left-handed DNA....
|
PMID: 20029882
PDF is available here.
PDF is available here.
ChemPhysChem (11)3 2010
Abstract
These results suggest that metal-mediated Hoogsteen base pairing, as previously proposed for a right-handed DNA duplex, can also occur in a double-stranded left-handed DNA....
|
PMID: 20029882
PDF is available here.
PDF is available here.
ChemPhysChem (11)3 2010
Abstract
These results suggest that metal-mediated Hoogsteen base pairing, as previously proposed for a right-handed DNA duplex, can also occur in a double-stranded left-handed DNA....
|
PMID: 20029882
PDF is available here.
PDF is available here.
ChemPhysChem (11)3 2010
Abstract
These results suggest that metal-mediated Hoogsteen base pairing, as previously proposed for a right-handed DNA duplex, can also occur in a double-stranded left-handed DNA....
|
PMID: 20029882
PDF is available here.
PDF is available here.
ChemPhysChem (11)3 2010
Abstract
These results suggest that metal-mediated Hoogsteen base pairing, as previously proposed for a right-handed DNA duplex, can also occur in a double-stranded left-handed DNA....
|
PMID: 20029882
PDF is available here.
PDF is available here.
ChemPhysChem (11)3 2010
Abstract
These results suggest that metal-mediated Hoogsteen base pairing, as previously proposed for a right-handed DNA duplex, can also occur in a double-stranded left-handed DNA....
|
PMID: 20029882
PDF is available here.
PDF is available here.
ChemPhysChem (11)3 2010
Abstract
These results suggest that metal-mediated Hoogsteen base pairing, as previously proposed for a right-handed DNA duplex, can also occur in a double-stranded left-handed DNA....
|
PMID: 20029882
PDF is available here.
PDF is available here.
ChemPhysChem (11)3 2010
Abstract
These results suggest that metal-mediated Hoogsteen base pairing, as previously proposed for a right-handed DNA duplex, can also occur in a double-stranded left-handed DNA....
|
PMID: 20029882
PDF is available here.
PDF is available here.
ChemPhysChem (11)3 2009
Abstract
These results suggest that metal-mediated Hoogsteen base pairing, as previously proposed for a right-handed DNA duplex, can also occur in a double-stranded left-handed DNA....
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PMID: 20029882
PDF is available here.
PDF is available here.
Abstract
We performed circular dichroism (CD) and NMR experiments with complexes of Zalpha(ADAR1) bound to d(CGCGCG)(2) (referred to as CG6) produced at a variety of protein-to-DNA molar ratios. From this study, we identified the intermediate states of the CG6-Z alpha(ADAR1) complex and calculated their rela...
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PMID: 19637911
PDF is available here.
PDF is available here.
Nucleic Acids Research (37)8 2009
Abstract
We present a first human genome map of most stable Z-DNA segments obtained with A549 tumor cells. We used the Z-DNA binding domain, Z alpha, of the RNA editing enzyme ADAR1 as probe in conjunction with a novel chromatin affinity precipitation strategy. By applying stringent selection criteria, we id...
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PMID: 19276205
PDF is available here.
PDF is available here.
Abstract
Abstract
Mammalian DAI (DNA-dependent activator of IFN-regulatory factors), an activator of the innate immune response, senses cytosolic DNA by using 2 N-terminal Z-DNA binding domains (ZBDs) and a third putative DNA binding domain located next to the second ZBD. Compared with other previously known ZBDs, th...
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PMID: 19095800
PDF is available here.
PDF is available here.
Abstract
We developed a novel mouse model system using the naturally occurring H-DNA structure that deviate from the familiar right-handed helical B form found at the breakage hotspot in the human c-MYC promoter and a Z-DNA-forming CG repeat to test this idea directly. Large-scale chromosomal deletions and/o...
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PMID: 19066276
PDF is available here.
PDF is available here.
Clinical Medicine (8)6 2008
Abstract
Abstract
Our results show that a realistic model of native DNA, bearing Z-tracts embedded in B-helixes, can be obtained upon binding of alkaline earth or transition metals....
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PMID: 18644405
PDF is available here.
PDF is available here.
Brain Research Reviews (58)1 2008
Abstract
We have focused on the possible mechanisms/hypothetical models of Z-DNA transition and its implications in AD. We propose that Z-DNA is formed in the promoter region of the APP, and Presenilin genes and Z-DNA may absorb the negative supercoils at that region. This decreases the supercoil density, al...
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PMID: 18342372
PDF is available here.
PDF is available here.
Nucleic Acids Research (36)10 2008
Abstract
We have investigated the effect of this (CG)(14) sequence on transcription with T7 RNA polymerase in vitro. We detected partial transcription blockage within the sequence; the blockage increased with negative supercoiling of the template DNA. This effect was not observed in a control self-complement...
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PMID: 18400779
PDF is available here.
PDF is available here.
Abstract
We hypothesized that genetically engineered E. coli are required to maintain the number of purine-pyrimidine repeats and reading frame when producing expression plasmids containing the Mig-7 sequence. Cloning Mig-7 sequence using E. coli genetically engineered to lack recombination and rearrangement...
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PMID: 18378409
PDF is available here.
PDF is available here.
Abstract
In crystals of complexes of thermine and d(CGCGCG)2 molecules grown at 4, 10, and 20 degrees C, the numbers of thermine molecules connected to the DNA molecule were dependent on the temperature of the crystallization. Two molecules of thermine and one Mg2+ ion were connected to DNA molecule when the...
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PMID: 18237544
PDF is available here.
PDF is available here.
Abstract
We proved that the synthesized polyamines bind to the minor groove of Z-DNA and stabilize the conformation under various conditions, by X-ray crystallographic study. These polyamines consist of a polyamine nano wire structure. The modes of the polyamine interaction were changed under different condi...
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PMID: 18023271
PDF is available here.
PDF is available here.
Abstract
The first alternative DNA structure--left-handed Z-DNA--was described back in 1979. The discoveries of the cruciform DNA structure, three-stranded H-DNA, four-stranded G-quartets and stably unwound DNA followed in the next decade. Each alternative structure was formed by a specific DNA sequence, whi...
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PMID: 17981612
PDF is available here.
PDF is available here.
Acta Crystallographica Section F (63)Pt 12 2007
Abstract
The hexamer duplex d(CGCGCA).d(TGCGCG) was crystallized with hexammineruthenium(III) ions in an orthorhombic space group; the crystals diffracted to 1.54 A resolution. Strong ion interactions with the adenine base induce a tautomeric shift from the amino to the imino form. Consequently, the A.T base...
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PMID: 18084080
PDF is available here.
PDF is available here.
Abstract
We surmised that cis-acting allelic polymorphisms may underlie heritable differences in SLC11A1 expression and phenotypic variation in disease risk. However, it is unclear what may underlie such variation in SLC11A1 allele expression. Here we show that hypoxia-inducible Factor 1 (HIF-1) regulates al...
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PMID: 17606764
PDF is available here.
PDF is available here.
Abstract
We have applied a comparative phylogenomic analysis to study the evolutionary relationships between GC content, CpG-dinucleotide content (CpGs), potential nuclear factor I (NFI) binding sites, and potential Z-DNA forming regions (ZDRs) as representative structural and functional GC-rich genomic elem...
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PMID: 17925442
PDF is available here.
PDF is available here.
Abstract
We studied the role of actin in the regulation of human CSF1 gene transcription. Our results showed that nuclear actin stimulates the activity of CSF1 promoter, and the role in augmenting CSF1 gene transcription requires the formation of chromatin and Z-DNA structure. The ATP binding motifs of nucle...
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PMID: 17393431
PDF is available here.
PDF is available here.
Biology of the Cell (99)9 2007
Abstract
Our results demonstrate that, in tomato, dormant nuclei splicing factors are stored in nucleolar Cajal bodies. In early germination, RNA polymerase I transcription is first activated, whereas mRNA transcription is fired later and is accompanied by a massive de-condensation of chromatin and accumulat...
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PMID: 17439404
PDF is available here.
PDF is available here.
Abstract
We present a continuous wave and pulse electron paramagnetic resonance study of the mononucleotide model system Cu(II)-guanosine 5'-monophosphate . Pulse EPR methods like electron-nuclear double resonance and hyperfine sublevel correlation spectroscopy provide unique information about the electronic...
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PMID: 17415596
PDF is available here.
PDF is available here.
Abstract
We have found that spermidine, a natural polyamine, is connected to the minor groove of left-handed Z-DNA of d(CGCGCG)(2) molecule in a crystalline complex grown at 10 degrees C. The electron density of the DNA molecule was clear enough to determine that the spermidine was connected in the minor gro...
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PMID: 17467661
PDF is available here.
PDF is available here.
Abstract
Abstract
These results suggest that sequences with high histone affinity could control transgene expression from plasmids in vivo....
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PMID: 17382286
PDF is available here.
PDF is available here.
Abstract
We demonstrate that the d(CG)9 repeat sequence stimulates gene activity by forming a Z-DNA secondary structure. Furthermore, the extent of transcriptional enhancement by Z-DNA is promoter-specific and determined by its separation distance relative to the TATA box. The stimulatory effect exerted by p...
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PMID: 17284586
PDF is available here.
PDF is available here.
Abstract
We describe the first discovery of small molecules that bind to the Z-DNA binding domain of human ADAR1 (Adenosine Deaminase Acting on RNA 1) by structure-based virtual screening of chemical database. These molecules bind to Z-DNA binding domain to inhibit the interaction with the Z-DNA. Many viruse...
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PMID: 17268113
PDF is available here.
PDF is available here.
Abstract
We discuss the properties of Z-DNA, proteins that are known to bind specifically to Z-DNA, and potential biological functions of this non-canonical DNA structure....
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PMID: 17485386
PDF is available here.
PDF is available here.
Abstract
The left-handed Z-DNA has been identified as a gene regulating element. Therefore the generation of Z-DNA through metal complexes might be an innovative way for the regulation of gene expression. Use of the new dinuclear complex N,N,N',N'-tetrakis-[2-(3,5-dimethylpyrazol-1-yl)ethyl]-1,3-propylenedia...
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PMID: 17516605
PDF is available here.
PDF is available here.
Nucleic Acids Research (35)22 2007
Abstract
We have investigated the Z-DNA-binding behavior of five representative Z alpha domains from poxviruses. Using surface plasmon resonance (SPR), we have demonstrated that these viral Z alpha domains bind Z-DNA tightly. Ability of Z alpha(E3L) converting B-DNA to Z-DNA was measured by circular dichrois...
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PMID: 17984076
PDF is available here.
PDF is available here.
Abstract
We use CD spectra and x-ray crystal data to compare structures of d(CGCGCG)-BP, which is d(CGCGCG) modified on 2-amino group of guanine by (+)7R,8S-dihydroxy-9S,10R-expoxy-7,8,9,10-tetra hydroBenzo(a)Pyrene (7R-BPDE), with the d(TA)6 dodecamer which with increasing ionic strength of the buffer adopt...
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PMID: 18029692
PDF is available here.
PDF is available here.
Journal of Physical Chemistry B (110)49 2006
Abstract
We describe a coarse-grained model for Z-DNA that mimics the DNA shape with a relatively small number of repulsive interaction sites. In addition, negative charges are placed at the phosphate positions. The ionic atmosphere around this grooved Z-DNA model is then investigated with Monte Carlo simula...
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PMID: 17149933
PDF is available here.
PDF is available here.
Abstract
These results thus demonstrate that BRG1, through the facilitation of Z-DNA formation and subsequent recruitment of RNA polymerase II, is critical in Nrf2-mediated inducible expression of HO-1....
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PMID: 16923960
PDF is available here.
PDF is available here.
Biophysical Journal (91)8 2006
Abstract
We report simulations of this transition for the 3'-(CGCGCG)-5' hexamer duplex using targeted molecular dynamics with the GROMOS96 force field in explicit water under different ionic-strength conditions. The results suggest that for this oligomer length and sequence, the transition mechanism involve...
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PMID: 16998239
PDF is available here.
PDF is available here.
Abstract
We succeeded in the crystallization of d(CGCGCG)2 and methylamine Complex. The crystal was clear and of sufficient size to collect the X-ray crystallographic data up to 1.0 A resolution using synchrotron radiation. As a result of X-ray crystallographic analysis of 2Fo-Fc map was much clear and easil...
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PMID: 16901466
PDF is available here.
PDF is available here.
Abstract
We investigated the subcellular distribution of human ZBP1, which harbors the N-terminal Z-DNA binding domains, Zalpha and Zbeta. ZBP1 was distributed primarily in the cytoplasm and occasionally as nuclear foci in interferon (IFN)-treated primary hepatocellular carcinoma cells, and in several other...
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PMID: 16876127
PDF is available here.
PDF is available here.