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Stacking-unstacking of the dinucleoside monophosphate guanylyl-3',5'-uridine studied with molecular dynamics
1994
Biophysical Journal
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ABSIRACT Mocuar dynamic simaton were caied out on tw conformatdions of th dinudeoside guany1yl-3',5'-uridline (GpU) in aqueous soluion with one sockwn counterion. ...
One staked conf in and one with the C3'-3'-P-0' trsion angle twisted 180°to crate an unstacked confoma We observed a relatively stable behavior of the smacked cnformato, whch retaied Sed throughout the ...
Guschlbaer for discussion of earUier work on the dinucleotide GpU and Dr. T. Kulinsi and Pro£ R Rigler for experimental results. ...
doi:10.1016/s0006-3495(94)80541-7
pmid:7948694
pmcid:PMC1225424
fatcat:ud7l4zcoindr3n2jhmdgbqccfq
The orientation of eosin-5-maleimide on human erythrocyte band 3 measured by fluorescence polarization microscopy
1996
Biophysical Journal
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We have employed polarized fluorescence confocal microscopy to measure the orientation of eosin-5-maleimide covalently reacted with Lys-430 of human erythrocyte band 3. ...
Delayed fluorescence and phosphorescence anisotropy decays of control and trypsin-treated band 3 in ghosts, analyzed as multiple uniaxially rotating populations using the amplitudes predicted by confocal ...
DWP is a Beckman Young Investigator of the Arnold and Mabel Beckman Foundation. SMB is supported by National Institutes of Health training grant T32 GM07347. ...
doi:10.1016/s0006-3495(96)79216-0
pmid:8804603
pmcid:PMC1233471
fatcat:kainfqpky5b55egfsjzakokqry
Potent Inhibition of Mammalian Ribonucleases by 3′,5′-Pyrophosphate-linked Nucleotides
1999
Journal of Biological Chemistry
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The most potent of them, 5-phospho-2-deoxyuridine 3-pyrophosphate, P 3 5-ester with adenosine 3-phosphate (pdUp-pAp), binds to RNase A with K i values of 27 and 220 nM at pH 5.9 and 7, respectively. ...
Molecular modeling based on the crystal structure of the complex of bovine pancreatic RNase A with the inhibitor 5-diphosphoadenosine 3-phosphate (ppAp) (Leonidas, D. D., Shapiro, R., Irons, L. ...
James for providing the atomic coordinates of human RNase-2. ...
doi:10.1074/jbc.274.21.14902
pmid:10329690
fatcat:46abghyoc5gzzcf2i3csibafha
Synthesis and Properties of Energetic Hydrazinium 5-Nitro-3-dinitromethyl-2H-pyrazole by Unexpected Isomerization of N-Nitropyrazole
2019
ACS Omega
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A new energetic salt, hydrazinium 5-nitro-3-dinitromethyl-2H-pyrazole, was synthesized using 1-nitro-3-trinitromethylpyrazole and hydrazine as raw materials and fully characterized by IR and NMR spectroscopy ...
The salt has good density, high positive enthalpy of formation superior to those of the RDX and HMX, and good detonation properties comparable to those of RDX. ...
■ ACKNOWLEDGMENTS The authors acknowledge financial support from the National Natural Science Foundation of China (21576026, U153062, and 21805222). ...
doi:10.1021/acsomega.9b01910
pmid:31763523
pmcid:PMC6868590
fatcat:sowb46uwbba7rervpmc74xfcle
Preparation, Spectrochemical, and Computational Analysis of L-Carnosine (2-[(3-Aminopropanoyl)amino]-3-(1H-imidazol-5-yl)propanoic Acid) and Its Ruthenium (II) Coordination Complexes in Aqueous Solution
2011
Molecules
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This study reports the synthesis and characterization of novel ruthenium (II) complexes with the polydentate dipeptide, L-carnosine (2-[(3-aminopropanoyl)amino]-3-(1H-imidazol-5-yl)propanoic acid). ...
with equimolar amounts of ruthenium chloride (black-alpha form) at 60 °C for 36 h. ...
Acknowledgements The authors are grateful to the South African National Research Foundation (NRF), University of KwaZulu-Natal, and Durban University of Technology for financial support. ...
doi:10.3390/molecules161210269
pmid:22158629
pmcid:PMC6264669
fatcat:lwnhb5jkkbgeflobrbkfvfzguu
A Weak Fano Threefold Arising as a Blowup of a Curve of Genus 5 and Degree 8 on P^3
[article]
2018
arXiv
pre-print
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This article constructs a smooth weak Fano threefold of Picard number two with small anti-canonical morphism that arises as a blowup of a smooth curve of genus 5 and degree 8 in P^3. ...
and constructs the link in the style of ACM17. ...
In addition, we would like to thank all the organizers of the Workshop in Algebraic Geometry held on December 18-22, 2016, in Hanga Roa, Chile. ...
arXiv:1712.05295v2
fatcat:yycs2nlibbdencfetrbxgl4ope
Inhibition of cell movement and proliferation by cell–cell contact-induced interaction of Necl-5 with nectin-3
2005
Journal of Cell Biology
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In addition, Necl-5 heterophilically trans-interacts with nectin-3, a cell-cell adhesion molecule known to form adherens junctions in cooperation with cadherin. ...
We show here that Necl-5 was downregulated from cell surface upon cell-cell contacts in I NIH3T3 cells. ...
In the absence of this mAb-i, the amount of cell surface Necl-5 and the degree of DNA synthesis of NIH3T3 cells cultured at the higher density decreased in a roughly parallel manner (Fig. 5, A [b] and ...
doi:10.1083/jcb.200501090
pmid:16216929
pmcid:PMC2171219
fatcat:nrgmh7egzvbfnfy7r5nzloxh3i
Recognition of 5′-YpG-3′ Sequences by Coupled Stacking/Hydrogen Bonding Interactions with Amino Acid Residues
2004
Journal of Molecular Biology
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The 3 0 -base is recognized by canonical direct readout, while the 5 0 -base is recognized through a variation of indirect readout, whereby the conformational flexibility of the particular dinucleotide ...
step, namely a 5 0 -pyrimidinepurine-3 0 step, facilitates its recognition by the amino acid via cation-p interactions. ...
In contrast, only about 10% of 5 0 -YpG-3 0 steps in the free DNA structure database display this kind of unstacking, indicating that arginine-induced 5 0 -YpG-3 0 unstacking may be a common but not universal ...
doi:10.1016/j.jmb.2003.10.071
pmid:14672650
fatcat:a6endyiqsrdttp4pfznhgfvlbe
Cationic 5,10,15,20-Tetrakis(N-methylpyridinium-4-yl)porphyrin Fully Intercalates at 5'-CG-3' Steps of Duplex DNA in Solution†
1999
Biochemistry
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Intra-and intermolecular NOEs observed in the complex showed that the porphyrin intercalates at the central 5′-CG-3′ step of the DNA duplex without disrupting the flanking base pairs. ...
T4MPyP 4+ binding to [d(GCACGTGC)] 2 produced a single set of (mostly) upfield-shifted DNA resonances in slow exchange with the resonances of the free DNA. ...
Stephen Neidle (U.K.) for the crystallographic coordinates of T4MPyP 4+ , Dr. D. Y. Chen for assistance with NMR spectroscopy, and Pascal Auffinger for critical reading of the manuscript. ...
doi:10.1021/bi9913808
pmid:10569925
fatcat:ozlen55hgfe43og772e267yw4u
Pathological Society of Great Britain and Ireland 140th meeting; 3-5 January 1980, at the University of Oxford
1980
Journal of Pathology
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The relationship of cellular changes in the human breast to the phases of the Samples obtained from breast biopsies of menstrual cycle is poorly defined. ...
Intrahepatocytic copper granules were found in 13 cases (29.5 per cent.) of cirrhosis, irrespective of the degree of activity of the process, but in none of the non-cirrhosis forms. ...
All rabbits were initially immunised by 3 mg TG in Freund's complete adjuvant intramuscularly, followed after 14 days by 5 mg TG intravenously. ...
doi:10.1002/path.1711310307
fatcat:km2sjs5atnds5gxgdgyx6gkkye
Synthesis and reactivity of an unexpected highly sensitive 1-carboxymethyl-3-diazonio-5-nitrimino-1,2,4-triazole
2012
New Journal of Chemistry
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The thermal behavior of 2 and 3 was investigated using a Linseis PT10 differential scanning calorimeter with a heating View Article Online rate of 5 degrees per minute. 28 Unfortunately, 2 and 3 have ...
After recrystalli zation from water yellow crystals suitable for X ray analysis were formed. Yield: 85%. Mp: 125 1C (dec., DSC, 5 K min À1 ); 1 Fig. 3 3 Molecular unit of 2. ...
After release of dinitrogen 1 carboxymethyl 3 azido 5 nitrimino 1,2,4 triazole (3) was formed which shows lower sensitivity values, but also in the range of primary explosives. ...
doi:10.1039/c2nj40044h
fatcat:pcwbesnaozckvng3buhsved74a
Structural Basis for the High-Affinity Inhibition of Mammalian Membranous Adenylyl Cyclase by 2',3'-O-(N-Methylanthraniloyl)-Inosine 5'-Triphosphate
2011
Molecular Pharmacology
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2Ј,3Ј-O-(N-Methylanthraniloyl)-ITP (MANT-ITP) is the most potent inhibitor of mammalian membranous adenylyl cyclase (mAC) 5 (AC5, K i , 1 nM) yet discovered and surpasses the potency of MANT-GTP by 55- ...
AC5 inhibitors may be valuable drugs for treatment of heart failure. The aim of this study was to elucidate the structural basis for the high-affinity inhibition of mAC by MANT-ITP. ...
Wrote or contributed to the writing of the manuscript: Hü bner, Dixit, Mou, Lushington, Pinto, Gille, Geduhn, König, Sprang, and Seifert. ...
doi:10.1124/mol.111.071894
pmid:21498658
pmcid:PMC3127541
fatcat:mx4tuxxnpzb23n4uklrnxkeqmu
Beneficial Metabolic Effects of 2′,3′,5′-tri-acetyl-N6- (3-Hydroxylaniline) Adenosine in the Liver and Plasma of Hyperlipidemic Hamsters
2012
PLoS ONE
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Methodology/Principal Findings: As a new way, we performed 1 H NMR-based metabonomics to evaluate the beneficial effects of 29,39,59-tri-acetyl-N 6 -(3-hydroxylaniline) adenosine (WS070117) on plasma and ...
As a result, metabonomics-based findings such as the PCA and OPLS-DA plotting of metabolic state and analysis of potential biomarkers in plasma and liver correlated well to the assessment of biochemical ...
Juan Lv of Bruker Corporation in Germany.
Author Contributions ...
doi:10.1371/journal.pone.0032115
pmid:22470419
pmcid:PMC3314636
fatcat:3zbpspwxtffqpbkdgq7r3sofmy
Mapping of the epitope/paratope interactions of a monoclonal antibody directed against adenosine 3′,5′-monophosphate
1992
Biochemical Journal
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A series of systematically modified cyclic AMP (cAMP) analogues, including newly synthesized benzimidazole riboturanosyl 3',5'-monophosphates was used to map the essential molecular interactions between ...
The ribose phosphate moiety is recognized by a combination of charge interactions and H-bonds to the exocyclic and the 5'-oxygen atoms and a hydrophobic interaction at the 2'-position. ...
Klein for critical discussion of the manuscript. ...
doi:10.1042/bj2850129
pmid:1379038
pmcid:PMC1132755
fatcat:3ijfzssjyzcfnetuicyfxkt37a
Specificity and Reactivity in Menaquinone Biosynthesis: The Structure of Escherichia coli MenD (2-Succinyl-5-Enolpyruvyl-6-Hydroxy-3-Cyclohexadiene-1-Carboxylate Synthase)
2008
Journal of Molecular Biology
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The thiamine diphosphate (ThDP) and metal-ion-dependent enzyme 2-succinyl-5-enolpyruvyl-6hydroxy-3-cyclohexadiene-1-carboxylate synthase, or MenD, catalyze the Stetter-like conjugate addition of α-ketoglutarate ...
These features, formed by highly conserved amino acids, match well to the chemical properties of the substrates. ...
It consists of a narrow cavity having a width and length of approximately 8 and 15 Å, respectively, and the distance from the surface of the protein to ThDP C2 is nearly 20 Å (Fig. 7) . ...
doi:10.1016/j.jmb.2008.10.048
pmid:18983854
pmcid:PMC3656419
fatcat:naz4ieo74rhczgbb3gdsvkq4w4
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