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Welcome to the Pubget Medical Subject Headings (MESH) browser. Click on a topic or subtopic below to explore related papers. In the gold box is the most recent paper about the current MESH term, and below are 20 related papers.
Nucleotides (1):
Recent article
Nucleotides
Abstract
In recent developments in chemistry and genetic engineering, the humble researcher dealing with the origin of life finds her(him)self in a grey area of tackling something that even does not yet have a clear definition agreed upon. A series of chemical steps is described to be conside...
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PMID: 21641557
PDF is available here.
PDF is available here.
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Abstract
We studied how nucleotides bind to PAN. Although PAN has six identical subunits, it binds ATPs in pairs, and its subunits exhibit three conformational states with high, low, or no affinity for ATP. When PAN binds two ATPγS molecules or two ATPγS plus two ADP molecules, it is maximally active in bi...
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PMID: 21335235
PDF is available here.
PDF is available here.
Journal of Molecular Biology (405)3 2011
Abstract
We report a fluorescence-based assay for measuring the real-time kinetics of single-nucleotide incorporation during transcription elongation. The fluorescent adenine analogue 2-aminopurine was incorporated at various single positions in the template or the nontemplate strand of the promoter-free elo...
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PMID: 21035457
PDF is available here.
PDF is available here.
Abstract
We have recently demonstrated that the T. brucei telomere structure plays an essential role in regulation of surface antigen gene expression, which is critical for T. brucei pathogenesis. However, T. brucei telomere structure has not been extensively studied due to the limitation of methods for anal...
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PMID: 21307825
PDF is available here.
PDF is available here.
Abstract
We employed the use of hydrophilic interaction liquid chromatography-mass spectrometry (HILIC-MS) in a focused metabolomic study of sugar-nucleotides relevant to the biosynthesis of highly novel carbohydrate modifications on the flagellin of Campylobacter sp. We exploited the unique selectivity of t...
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PMID: 19882128
PDF is available here.
PDF is available here.
Cancer Science (101)11 2010
Abstract
We showed that the overexpression of full-length PGK-1 in Lewis lung carcinoma (LLC-1) can reduce tumor growth in vivo by downregulation of COX-2 expression. Phosphoglycerate kinase 1 has two functional domains: a catalytic domain (CD); and a nucleotide-binding domain (NBD). To identify the function...
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PMID: 20731664
PDF is available here.
PDF is available here.
Abstract
We succeeded in the synthesis of triplex-forming oligonucleotides (TFOs) that contain a deoxyribonucleotide (Py) bearing a 2-pyridine nucleobase or the 2',4'-BNA congener (Py(B)). By UV melting experiments, it was found that 2-pyridine was a very promising nucleobase for the sequence-selective recog...
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PMID: 20648389
PDF is available here.
PDF is available here.
Abstract
The strain-promoted "double-click" (SPDC) reaction using Sondheimer diyne, a novel convergent method conjugating three molecules spontaneously, has enabled us to readily modify an azido-biomolecule with a small reporter azido-molecule.
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PMID: 20657923
PDF is available here.
PDF is available here.
Kidney International (78)10 2010
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Kidney International (78)10 2010
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Kidney International (67) 2010
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Kidney International (78)10 2010
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Kidney International (78)10 2010
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Kidney International (78)10 2010
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Kidney International (78)10 2010
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Kidney International (78)10 2010
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Kidney International (78)10 2010
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Kidney International (76) 2010
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Kidney International (78)10 2010
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Kidney International (78)10 2010
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Kidney International (78)10 2010
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Kidney International (78)10 2010
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Kidney International (78)10 2010
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Kidney International (78)10 2010
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Journal of Chromatography A (1217)34 2010
Abstract
An ion-pairing reversed-phase liquid chromatography-mass spectrometry (IP-RP-LC-MS) was developed for the determination of nucleotides, nucleosides and their transformation products in Cordyceps. Perfluorinated carboxylic acid, namely pentadecafluorooctanoic acid (PDFOA, 0.25mM), was used as volatil...
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PMID: 20637470
PDF is available here.
PDF is available here.
Abstract
We describe a standardized approach for searching potent and selective inhibitors of glycosyltransferases by high throughput quantitative MALDI-TOFMS-based screening of focused compound libraries constructed by 1,3-dipolar cycloaddition of the desired azidosugar nucleotides with various alkynes. An...
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PMID: 20684602
PDF is available here.
PDF is available here.
Journal of Biological Chemistry (285)33 2010
Abstract
The nucleotide state of actin (ATP, ADP-P(i), or ADP) is known to impact its interactions with other actin molecules upon polymerization as well as with multiple actin binding proteins both in the monomeric and filamentous states of actin. Recently, molecular dynamics simulations predicted that a se...
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PMID: 20530485
PDF is available here.
PDF is available here.
Abstract
RNA interference pathways can involve amplification of secondary siRNAs by RNA-dependent RNA polymerases. In plants, RDR6-dependent secondary siRNAs arise from transcripts targeted by some microRNAs (miRNAs). Here, Arabidopsis thaliana secondary siRNAs from mRNA as well as trans-acti...
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PMID: 20562854
PDF is available here.
PDF is available here.
Abstract
We report that two methyltransferases, RsmB and RsmF, are responsible for all four 5-methylcytidine (m(5)C) modifications in 16S rRNA of Thermus thermophilus. Like Escherichia coli RsmB, T. thermophilus RsmB produces m(5)C967. In contrast to E. coli RsmF, which introduces a single m(5)C1407 modifica...
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PMID: 20558545
PDF is available here.
PDF is available here.
Abstract
We use an algorithm now commonly used in microbial ecology, UniFrac, to cluster 175 genomes spanning all three domains of life based on the phylogenetic relationships among their complete tRNA pools. We find that the overall pattern of similarities and differences in the tRNA pools recaptures univer...
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PMID: 20558546
PDF is available here.
PDF is available here.
Abstract
We previously confirmed that they conferred GCV resistance to recombinant baculoviruses (Nakano et al., J. Virol. Methods 161:223-230, 2009). Six characterized mutations, including a previously reported one that encodes a GCV-sensitive kinase-activity mutant (Isegawa et al., J. Clin. Virol. 44:15-19...
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PMID: 20083192
PDF is available here.
PDF is available here.
Abstract
We have recently shown that the nucleotide accessibility in double-stranded DNA molecules strongly depends on sequence context and can be predicted using neighbor information. In this work, we investigate statistics, neighbor-dependence and predictability of nucleotide solvent accessibility for vari...
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PMID: 20470873
PDF is available here.
PDF is available here.
Abstract
We have established a strategy to produce and purify recombinant farnesylated guanylate-binding protein 1 (hGBP1), a dynamin-related large GTPase. Our system is based on the coexpression of hGBP1 with the two subunits of human farnesyltransferase in Escherichia coli and a chromatographic separation...
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PMID: 20348589
PDF is available here.
PDF is available here.
Abstract
We characterize the integrated response of a rat host to the liver fluke Fasciola hepatica using a combination of (1)H nuclear magnetic resonance spectroscopic profiles (liver, kidney, intestine, brain, spleen, plasma, urine, feces) and multiplex cytokine markers of systemic inflammation. Multivaria...
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PMID: 20664642
PDF is available here.
PDF is available here.
Journal of Biological Chemistry (285)30 2010
Abstract
We have previously shown that the mutagenic potential of DinB is regulated by the DNA damage response protein UmuD(2). In the current study, we employ a pre-steady-state fluorescence approach to gain a mechanistic understanding of DinB regulation by UmuD(2). Our results suggest that DinB, like its m...
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PMID: 20467052
PDF is available here.
PDF is available here.
Bioinformatics (26)14 2010
Iterative Correction of Reference Nucleotides (iCORN) using second generation sequencing technology.
Abstract
We describe a novel algorithm (Iterative Correction of Reference Nucleotides) that iteratively aligns deep coverage of short sequencing reads to correct errors in reference genome sequences and evaluate their accuracy.
Using Plasmodium falciparum (81% A + T content) as an extreme exa...
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PMID: 20562415
PDF is available here.
PDF is available here.
FASEB Journal (24)7 2010
Abstract
We have capitalized on this phenomenon of nature to identify new gamma-secretase inhibitors. Here we show that 2-hydroxy naphthyl derivatives, a previously identified subclass of NAD(+) analog inhibitors of sirtuin 2 (SIRT2), are direct gamma-secretase inhibitors. Subsequent structure-activity relat...
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PMID: 20237298
PDF is available here.
PDF is available here.
Abstract
We investigated whether nucleotide-induced cardiovascular collapse as provoked by systemic infusion of adenosine, ADP, ATP, UTP and nitric oxide affected the haemostatic system as assessed by whole blood thromboelastography (TEG) analysis. Ten pigs received a randomized infusion of adenosine, ADP, A...
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PMID: 20389237
PDF is available here.
PDF is available here.
Plant Physiology (153)3 2010
Abstract
We report a large-scale phosphoproteome analysis in the model monocot rice (Oryza sativa japonica 'Nipponbare'), an economically important crop. Using unfractionated whole-cell lysates of rice cells, we identified 6,919 phosphopeptides from 3,393 proteins. To investigate the conservation of phosphop...
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PMID: 20466843
PDF is available here.
PDF is available here.
New Phytologist (187)2 2010
Abstract
We examine the role of Globosa (GLO)-like genes, members of the B-class MADS box gene lineage, in the evolution of floral development within the monocot order Zingiberales. *We assessed changes in perianth and stamen whorl morphology in a phylogenetic framework. We identified GLO homologs (ZinGLO1-4...
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PMID: 20456055
PDF is available here.
PDF is available here.
Abstract
CMX157 is a lipid (1-0-hexadecyloxypropyl) conjugate of the acyclic nucleotide analog tenofovir (TFV) with activity against both wild-type and antiretroviral drug-resistant HIV strains, including multidrug nucleoside/nucleotide analog-resistant viruses. CMX157 was consistently >300-f...
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PMID: 20439609
PDF is available here.
PDF is available here.
Biochimica et Biophysica Acta (1804)7 2010
Abstract
We have cloned, expressed and characterised a cysteine desulphurase (SufS) from Haloferax volcanii and demonstrated that this protein is able to reconstitute the [Fe-S] cluster of halophilic ferredoxin.
Copyright (c) 2010 Elsevier B.V. All rights reserved....
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PMID: 20226884
PDF is available here.
PDF is available here.
Abstract
We have solved the structure of a member of this family, the human mitochondrial transcriptional terminator MTERF1, bound to dsDNA containing the termination sequence. The structure indicates that upon sequence recognition MTERF1 unwinds the DNA molecule, promoting eversion of three nucleotides. Bas...
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PMID: 20550934
PDF is available here.
PDF is available here.
Abstract
We applied liquid chromatography/tandem mass spectrometry-based metabolite profiling to survey>350 small molecules in 44 fasting subjects with ESRD, before and after hemodialysis, and in 10 age-matched, at-risk fasting control subjects. At baseline, increased levels of polar analytes and decreased l...
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PMID: 20378825
PDF is available here.
PDF is available here.
Zhonghua gan zang bing za zhi = Zhonghua ganzangbing zazhi = Chinese journal of hepatology (18)6 2010
Abstract
Abstract
The syntheses of new N-polysubstituted imidazo[4,5-b]pyridine-7-one (IP, 5 and 8a-8f) and indazole-4,7-dione (ID, 9 and 10) derivatives are described. The binding affinity of IP and ID towards the recombinant Nucleotide Binding Domain NBD1 of Cryptosporidium parvum CpABC3 was evaluated by intrinsic...
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PMID: 20207054
PDF is available here.
PDF is available here.
Abstract
We investigate a proposed origins of life scenario involving the clay montmorillonite and its catalytic role in forming oligonucleotides from activated mononucleotides. Clay and mineral surfaces are important for concentrating the reactants and for promoting nucleotide polymerization reactions. Usin...
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PMID: 20213159
PDF is available here.
PDF is available here.
Nucleic Acids Research (38)11 2010
Abstract
We investigated whether ligand chemical modularity is reflected in an underlying modularity of binding sites across unrelated proteins. We chose nucleotides as paradigmatic ligands, because they can be described as composed of well-defined fragments (nucleobase, ribose and phosphates) and are quite...
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PMID: 20185567
PDF is available here.
PDF is available here.
Abstract
We will discuss some of the principles for substrate specificity of enzymes in human nucleotide metabolism illustrated by a selected set of enzyme families where a detailed understanding of the structural determinants for specificity is now emerging.
2010. Published by Elsevier Inc....
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PMID: 20494131
PDF is available here.
PDF is available here.
Abstract
In this study, a number of 2',4'-BNA- and 2',4'-BNA(NC)-modified siRNAs were designed and synthesized. Their thermal stability, nuclease resistance and gene silencing properties against cultured mammalian cells were evaluated and compared with those of natural siRNAs. The 2',4'-BNA- and 2',4'-BNA(NC...
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PMID: 20427190
PDF is available here.
PDF is available here.
Abstract
We performed a detailed examination of the representative PBZ-containing protein involved in the DNA damage response, aprataxin polynucleotide-kinase-like factor (APLF), which possesses two tandem PBZ domains. Here we present structural and biochemical studies that identify Y381/Y386 and Y423/Y428 r...
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PMID: 20439749
PDF is available here.
PDF is available here.
Journal of Physical Chemistry B (114)16 2010
Abstract
We focused our attention on the consequences of ATP hydrolysis in the NBDs, especially on the structural changes that occur during this process. For that, we use molecular dynamics simulation techniques taking as a starting point the X-ray structure of the MJ0796 dimer from Methanococcus jannaschii....
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PMID: 20369870
PDF is available here.
PDF is available here.
Abstract
We used a combination of approaches, including model-based inference of population structure, isolation-with-migration models, and recent theoretical results on the effect of introgression on the geographic distribution of diversity. In contrast to the three other species, each of which was predomin...
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PMID: 20031927
PDF is available here.
PDF is available here.
Abstract
Escherichia coli (E. coli) is a versatile organism for making nucleotides labeled with stable isotopes ((13)C, (15)N, and/or (2)H) for structural and molecular dynamics characterizations. Growth of a mutant E. coli strain deficient in the pentose phosphate pathway enzyme glucose-6-phosphate dehydrog...
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PMID: 20309608
PDF is available here.
PDF is available here.
Abstract
We set out to synthesize what is currently known about Mos1 insertion sites, and to define the characteristics of Mos1 insertion sequences in vitro and in vivo. Statistical analysis can be used to identify the TA dinucleotides that are non-randomly targeted for transposon integration. In vitro, no s...
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PMID: 19629719
PDF is available here.
PDF is available here.
Abstract
We examined three enzymes, APH(3')-IIIa, APH(2'')-Ib, and MPH(2')-I, using a competitive assay that mimics in vivo nucleotide triphosphate (NTP) concentrations and usage by each enzyme. Downstream analysis of reaction products by high-performance liquid chromatography enabled the determination of pa...
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PMID: 20231391
PDF is available here.
PDF is available here.
Abstract
We demonstrated that during many of these gating cycles, NBD1 is constantly occupied by a stably bound ATP or 8-N(3)-ATP molecule for tens of seconds. We provided evidence that this tightly bound ATP or 8-N(3)-ATP also interacts with residues in the signature sequence of NBD2, a telltale sign for an...
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PMID: 20421370
PDF is available here.
PDF is available here.
Journal of Cell Science (123)Pt 9 2010
Abstract
We have reconstituted membrane insertion of TA proteins from recombinant Asna1/TA protein complexes and ER-derived membranes. Our data show that Asna1 can mediate membrane insertion of RAMP4 and Sec61beta without the participation of other cytosolic proteins by a mechanism that depends on the presen...
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PMID: 20375064
PDF is available here.
PDF is available here.
Nanotechnology (21)16 2010
Abstract
We investigate the adsorption of the nucleic acid bases-adenine (A), guanine (G), cytosine (C), thymine (T) and uracil (U)-on the outer wall of a high curvature semiconducting single-walled boron nitride nanotube (BNNT) by first-principles density functional theory calculations. The calculated bindi...
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PMID: 20351402
PDF is available here.
PDF is available here.