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21.
Alexander S. Fridman Viktor Brabec Samvel G. Haroutiunian Roger M. Wartell Dmitri Y. Lando 《Journal of biomolecular structure & dynamics》2013,31(4):533-545
Abstract DNA interstrand cross-links are usually formed due to bidentate covalent or coordination binding of a cross-linking agent to nucleotides of different strands. However interstrand linkages can be also caused by any type of chemical modification that gives rise to a strong local stabilization of the double helix. These stabilized sites conserve their helical structure and prevent local and total strand separation at temperatures above the melting of ordinary AT and GC base pairs. This local stabilization makes DNA melting fully reversible and independent of strand concentration like ordinary covalent interstrand cross-links. The stabilization can be caused by all the types of chemical modifications (interstrand cross-links, intrastrand cross-links or monofunctional adducts) if they give rise to a strong enough local stabilization of the double helix. Our calculation demonstrates that an increase in stability by 25 to 30 kcal in the free energy of a single base pair of the double helix is sufficient for this “cross-linking effect” (i.e. conserving the helicity of this base pair and preventing strand separation after melting of ordinary base pairs). For the situation where there is more then one stabilized site in a DNA duplex (e.g., 1 stabilized site per 1000 bp), a lower stabilization per site is sufficient for the “cross-linking effect” (18–20 kcal). A substantial increase in DNA stability was found in various experimental studies for some metal-based anti-tumor compounds. These compounds may give rise to the effect described above. If ligand induced stabilization is distributed among several neighboring base pairs, a much lower minimum increase per stabilized base pair is sufficient to produce the cross-linking effect (1 bp- 24.4 kcal; 5 bp- 5.3 kcal; 10 bp- 2.9 kcal, 25 bp- 1.4 kcal; 50 bp- 1.0 kcal). The relatively weak non-covalent binding of histones or protamines that cover long regions of DNA (20–40 bp) can also cause this effect if the salt concentration of the solution is sufficiently low to cause strong local stabilization of the double helix. Stretches of GC pairs more than 25 bp in length inserted into poly(AT) DNA also exhibit properties of stabilizing interstrand cross-links. 相似文献
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Zhe Liang Viktor Demko Robert C. Wilson Kenneth A. Johnson Rafi Ahmad Pierre‐François Perroud Ralph Quatrano Sen Zhao Kamran Shalchian‐Tabrizi Marisa S. Otegui Odd‐Arne Olsen Wenche Johansen 《The Plant journal : for cell and molecular biology》2013,75(5):742-754
DEK1, the single calpain of land plants, is a member of the ancient membrane bound TML–CysPc–C2L calpain family that dates back 1.5 billion years. Here we show that the CysPc–C2L domains of land plant calpains form a separate sub‐clade in the DEK1 clade of the phylogenetic tree of plants. The charophycean alga Mesostigma viride DEK1‐like gene is clearly divergent from those in land plants, suggesting that a major evolutionary shift in DEK1 occurred during the transition to land plants. Based on genetic complementation of the Arabidopsis thaliana dek1‐3 mutant using CysPc–C2L domains of various origins, we show that these two domains have been functionally conserved within land plants for at least 450 million years. This conclusion is based on the observation that the CysPc–C2L domains of DEK1 from the moss Physcomitrella patens complements the A. thaliana dek1‐3 mutant phenotype. In contrast, neither the CysPc–C2L domains from M. viride nor chimeric animal–plant calpains complement this mutant. Co‐evolution analysis identified differences in the interactions between the CysPc–C2L residues of DEK1 and classical calpains, supporting the view that the two enzymes are regulated by fundamentally different mechanisms. Using the A. thaliana dek1‐3 complementation assay, we show that four conserved amino acid residues of two Ca2+‐binding sites in the CysPc domain of classical calpains are conserved in land plants and functionally essential in A. thaliana DEK1. 相似文献
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István?MártonEmail author Viktor?Ayadi Péter?Rácz Tomasz?Stefaniuk Piotr?Wróbel Péter?F?ldi Péter?Dombi 《Plasmonics (Norwell, Mass.)》2016,11(3):811-816
We demonstrate ultrafast plasmonic electron emission and acceleration from Ag nanolayers having different roughness. We obtained the spectrum of the electrons and found that the surface roughness deeply influences the properties of the electron spectra. Numerical simulations on propagating surface plasmons coupled to localized plasmons on surface grains support the observations. Applications related to ultrafast electron sources and ultrafast photocathodes are envisaged. 相似文献
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Relationships between wild bees,hoverflies and pollination success in apple orchards with different landscape contexts 下载免费PDF全文
Ádám Kőrösi László Somay Zoltán Elek Viktor Markó Miklós Sárospataki Réka Bakos Ákos Varga Katinka Nyisztor András Báldi 《Agricultural and Forest Entomology》2016,18(1):68-75
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Gene expression dynamics in deer antler: mesenchymal differentiation toward chondrogenesis 总被引:6,自引:0,他引:6
Gyurján I Molnár A Borsy A Stéger V Hackler L Zomborszky Z Papp P Duda E Deák F Lakatos P Puskás LG Orosz L 《Molecular genetics and genomics : MGG》2007,277(3):221-235
Annual re-growth of deer antler represents a unique example of complete organ regeneration. Because antler mesenchymal cells
retain their embryonic capacity to develop into cartilage or bone, studying antler development provides a natural system to
follow gene expression changes during mesenchymal differentiation toward chondrogenic/osteogenic lineage. To identify novel
genes involved either in early events of mesenchymal cell specialization or in robust bone development, we have introduced
a 3 K heterologous microarray set-up (deer cDNA versus mouse template). Fifteen genes were differentially expressed; genes
for housekeeping, regulatory functions (components of different signaling pathways, including FGF, TGFβ, Wnt), and genes encoding
members of the Polycomb group were represented. Expression dynamics for genes are visualized by an expression logo. The expression
profile of the gene C21orf70 of unknown function is described along with the effects when over-expressed; furthermore the nuclear localization of the
cognate protein is shown. In this report, we demonstrate the particular advantage of the velvet antler model in bone research
for: (1) identification of mesenchymal and precartilaginous genes and (2) targeting genes upregulated in robust cartilage
development.
Electronic supplementary material Supplementary material is available in the online version of this article at and is accessible for authorized users. 相似文献
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