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253.279 Aktuelle Fachpublikationen zum Thema Darmerkrankungen


Experimental mapping of DNA duplex shape enabled by global lineshape analyses of a nucleotide-independent nitroxide probe

01.02.2015 | Yuan Ding; Xiaojun Zhang; Kenneth W. Tham; Peter Z. Qin, Nucleic Acids Research, 2015

Sequence-dependent variation in structure and dynamics of a DNA duplex, collectively referred to as ‘DNA shape’, critically impacts interactions between DNA and proteins. Here, a method based on the technique of site-directed spin labeling was developed to experimentally map shapes of two DNA ...


Mechanism of allosteric inhibition of HIV-1 reverse transcriptase revealed by single-molecule and ensemble fluorescence

01.02.2015 | Grant D. Schauer; Kelly D. Huber; Sanford H. Leuba; Nicolas Sluis-Cremer, Nucleic Acids Research, 2015

Non-nucleoside reverse transcriptase (RT) inhibitors (NNRTIs) are routinely used to treat HIV-1 infection, yet their mechanism of action remains unclear despite intensive investigation. In this study, we developed complementary single-molecule fluorescence and ensemble fluorescence anisotropy ...


Strong DNA deformation required for extremely slow DNA threading intercalation by a binuclear ruthenium complex

01.02.2015 | Ali A. Almaqwashi; Thayaparan Paramanathan; Per Lincoln; Ioulia Rouzina; Fredrik Westerlund; Mark C. Williams, Nucleic Acids Research, 2015

DNA intercalation by threading is expected to yield high affinity and slow dissociation, properties desirable for DNA-targeted therapeutics. To measure these properties, we utilize single molecule DNA stretching to quantify both the binding affinity and the force-dependent threading intercalation ...


The cytoplasmic poly(A) polymerases GLD-2 and GLD-4 promote general gene expression via distinct mechanisms

01.02.2015 | Marco Nousch; Assa Yeroslaviz; Bianca Habermann; Christian R. Eckmann, Nucleic Acids Research, 2015

Post-transcriptional gene regulation mechanisms decide on cellular mRNA activities. Essential gatekeepers of post-transcriptional mRNA regulation are broadly conserved mRNA-modifying enzymes, such as cytoplasmic poly(A) polymerases (cytoPAPs). Although these non-canonical nucleotidyltransferases ...


The multidrug ABC transporter BmrC/BmrD of Bacillus subtilis is regulated via a ribosome-mediated transcriptional attenuation mechanism

01.02.2015 | Ewoud Reilman; Ruben A. T. Mars; Jan Maarten van Dijl; Emma L. Denham, Nucleic Acids Research, 2015

Expression of particular drug transporters in response to antibiotic pressure is a critical element in the development of bacterial multidrug resistance, and represents a serious concern for human health. To obtain a better understanding of underlying regulatory mechanisms, we have dissected the ...


Single-molecule analysis uncovers the difference between the kinetics of DNA decatenation by bacterial topoisomerases I and III

01.02.2015 | Ksenia Terekhova; John F. Marko; Alfonso Mondragón, Nucleic Acids Research, 2015

Escherichia coli topoisomerases I and III can decatenate double-stranded DNA (dsDNA) molecules containing single-stranded DNA regions or nicks as well as relax negatively supercoiled DNA. Although the proteins share a mechanism of action and have similar structures, they participate in different ...


The RIG-I ATPase core has evolved a functional requirement for allosteric stabilization by the Pincer domain

01.02.2015 | David C. Rawling; Andrew S. Kohlway; Dahai Luo; Steve C. Ding; Anna Marie Pyle, Nucleic Acids Research, 2015

Retinoic acid-inducible gene I (RIG-I) is a pattern recognition receptor expressed in metazoan cells that is responsible for eliciting the production of type I interferons and pro-inflammatory cytokines upon detection of intracellular, non-self RNA. Structural studies of RIG-I have identified a ...


sPARTA: a parallelized pipeline for integrated analysis of plant miRNA and cleaved mRNA data sets, including new miRNA target-identification software

01.02.2015 | Atul Kakrana; Reza Hammond; Parth Patel; Mayumi Nakano; Blake C. Meyers, Nucleic Acids Research, 2015

Parallel analysis of RNA ends (PARE) is a technique utilizing high-throughput sequencing to profile uncapped, mRNA cleavage or decay products on a genome-wide basis. Tools currently available to validate miRNA targets using PARE data employ only annotated genes, whereas important targets may be ...


Simultaneous binding to the tracking strand, displaced strand and the duplex of a DNA fork enhances unwinding by Dda helicase

01.02.2015 | Suja Aarattuthodiyil; Alicia K. Byrd; Kevin D. Raney, Nucleic Acids Research, 2015

Interactions between helicases and the tracking strand of a DNA substrate are well-characterized; however, the role of the displaced strand is a less understood characteristic of DNA unwinding. Dda helicase exhibited greater processivity when unwinding a DNA fork compared to a ss/ds DNA junction ...


Unraveling the sequence-dependent polymorphic behavior of d(CpG) steps in B-DNA

01.02.2015 | Pablo Daniel Dans; Ignacio Faustino; Federica Battistini; Krystyna Zakrzewska; Richard Lavery; Modesto Orozco, Nucleic Acids Research, 2015

We have made a detailed study of one of the most surprising sources of polymorphism in B-DNA: the high twist/low twist (HT/LT) conformational change in the d(CpG) base pair step. Using extensive computations, complemented with database analysis, we were able to characterize the twist polymorphism ...


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