2-Methyl-5-tert-butylthiophenol—An Odorless Deprotecting Reagent Useful in Synthesis of Oligonucleotides and Their Analogs

Abstract

A solution of 2-methyl-5-tert-butylthiophenol and triethylamine in acetonitrile efficiently removed the methyl protecting groups from phosphate and phosphorothioate triesters and yielded oligonucleotides of high quality. This inexpensive odorless liquid is not toxic and is a suitable replacement for hazardous thiophenol and other reagents often used for this purpose.      

Synthesis of 2′-Substituted Inosine Analogs via Unusual Masking of the 6-Hydroxyl Group

2′-Modified inosine analogs have been synthesized from 6-chloropurine riboside via 6-dimethylaminopurine or 6-benzyloxypurine intermediates. The dimethylaminopurine intermediate was obtained via an unusually facile dimethylamine transfer from dimethylformamide.

Graphical Abstract:      

Conformationally Restricted 2-Substituted Wyosine Derivatives. 1H, 13C,and 15N NMR Study

Abstract

It was found by ¹H, ¹³C and ¹⁵N NMR study that substitution of 4,9-dihydro-4, 6-dimethyl-9-oxo-3-(2′,3′,5′-tri-O-acetyl-β-D-ribofuranosyl) imidazo [1,2-a]purine (wyosine triacetate, 1) at C2 position with electronegative groups CH₃O and C₆H₅CH₂O results in a noticeable electron distribution disturbance in the “left-hand” imidazole ring and a significant increase in the North conformer population of the sugar moiety.     

Estimates of ϕ and ψ torsion angles in proteins from one-, two- and three-bond nuclear spin-spin couplings: Application to staphylococcal nuclease

Summary Calculated coupling constants (³J_H ^N _H , ¹J_{C H} , ²J_CH , ¹J_{C N} and ²J_{C N}) from our accompanying paper [Edison, A.S. et al. (1994) J. Biomol. NMR, 4, 519–542] have been used to generate error surfaces that can provide estimates of the and angles in proteins. We have used experimental coupling data [³J_H ^N _H : Kay, L.E. et al. (1989) J. Am. Chem. Soc., 111, 5488–5490; ¹J_{C H} : Vuister, G.W. et al. (1993) J. Biomol. NMR, 3, 67–80; ²J_CH : Vuister, G.W. and Bax, A. (1992) J. Biomol. NMR, 2, 401–405; ¹J_{C N} and ²J_{C N}: Delaglio, F. et al. (1991) J. Biomol. NMR, 1, 439–446] to create error surfaces for selected residues of the protein staphylococcal nuclease. The residues were chosen to include all those with five experimental couplings, as well as some with four experimental couplings, to demonstrate the relative importance of ³J_H ^N _H and ¹J_{C H} . For most of the cases, we obtained good agreement between the X-ray structure [Loll, P.J. and Lattman, E.E. (1989) Protein Struct. Funct. Genet., 5, 183–201] and the NMR data.Abbreviations CUPID Contin Uous ProbabIlity Distribution analysis of rotamers - ⁿJ_AB single-bond (n=1), geminal (n=2), or vicinal (n=3) coupling constant between nuclei A and B - NOE nuclear Overhauser enhancement - r² correlation coefficient     

Methylation of a Mesoionic Tricyclic Nucleoside Related to Wyosine

Abstract

4-Desmethylwyosine/2/, a formal precursor of a hyper-modified nucleoside wyosine /1/ was modified by N-1 benzylation. Mesoionic character of the resulting compound 3b, despite the similarities to wyosine in electron density distribution as shown by 13c NMR, does not enforce the change of methylation direction towards the desired N-4 position.     

MOLECULAR MODELLING OF 2′-OH MEDIATED HYDROGEN BONDING IN RIBONUCLEOS(T)IDES BY NMR CONSTRAINED AM1 AND MMX CALCULATIONS

The intra- and intermolecular hydrogen bonding (ΔGº_298K ≈ 2, kcal mol^?1) of 2′-OH in nucleos(t)ides has been reported by the temperature- and concentration-dependent NMR study in conjunction with dihedral dependence of the NMR derived both endo (³ J _H,H)- and exocyclic (³ JH,OH) coupling constants, nOe contacts and lineshape analyses of hydroxyl protons for EtpA (1), 3′-dA (2), rA (3), 2′-dA (4) [Fig. 1] in DMSO-d ₆ at 500 MHz.

MOLECULAR MODELLING OF 2′-OH MEDIATED HYDROGEN BONDING IN RIBONUCLEOS(T)IDES BY NMR CONSTRAINED AM1 AND MMX CALCULATIONS

All authors

Parag Acharya, Irina Velikian, Sandipta Acharya & Jyoti Chattopadhyaya

https://doi.org/10.1081/NCN-100002521

Published online:

07 February 2007

Figure 1. The schematic representation of the bias of the dymanic two-state pseudorotational equilibrium between the North-type (N, C2′-exo -C3′-endo) and the South-type (S, C3′-exo-C2′-endo) [3a] Thibaudeau, C. and Chattopadhyaya, J. 1999. Stereoelectronic Effects in Nucleosides and Nucleotides and their Structural Implications Sweden: (ISBN 91-506-1351-0), Department of Bioorganic Chemistry, Uppsala University Press (fax: +4618554495). For review see: and references therein [Google Scholar] pseudorotamers of the sugar moeity for EtpA (1), 3′-dA (2), rA (3), 2′-dA (4) and torsion (Φ) around C2′/3′-O bond viz. Φ₁ = Φ_{H2′?C2′?O?H} and Φ₂ = Φ_{H3′?C3′?O?H} except in 1 where the torsion across C3′-O3′ bond is actually ?^? [C4′-C3′-O3′-P].     

10.

Conformational dependence of the vicinal proton coupling constant for the Cα?Cβ bond in peptides     

M. T. Cung  M. Marraud 《Biopolymers》1982,21(5):953-967

We use the nmr data concerning the C^αH? C^βH fragment in eight peptides with rigid side chains to parametrize a Karplus correlation between the vicinal proton J_αβ coupling constant and the dihedral angle θ. When considering molecules containing the fragment C^αH^α? C^βH^βH^β′, the three-dimensional structure of the model peptides does not need to be known with accurate precision, since each set of J_αβ and J_αβ′ coupling constants is then related to the coefficients of the Karplus equation. A good correlation is observed with the Karplus equation, which is in substantial agreement with the J_αβ coupling constants reported for rigid as well as rotating C^α? C^β bonds in peptides.     

11.

Solid Phase Synthesis of Phosphorothioate Oligonucleotides Utilizing Diethyldithiocarbonate Disulfide (DDD) as an Efficient Sulfur Transfer Reagent     

《Nucleosides, nucleotides & nucleic acids》2013,32(4):461-468

Abstract

Diethyldithiodicarbonate (DDD), a cheap and easily prepared compound, is found to be a rapid and efficient sulfurizing reagent in solid phase synthesis of phosphorothioate oligodeoxyribonucleotides via the phosphoramidite approach. Product yield and quality based on IP-LC-MS compares well with high quality oligonucleotides synthesized using phenylacetyl disulfide (PADS) which is being used for manufacture of our antisense drugs.      

12.

Synthesis of 3′-Amino-3′-Deoxyguanosine and 3′-Amino-3′-Deoxyxyloguanosine Monophosphate Hepdirect Prodrugs from Guanosine     

Brett C. Bookser  Nicholas B. Raffaele  K. Raja Reddy  Kevin Fan  Wenjian Huang  Mark D. Erion 《Nucleosides, nucleotides & nucleic acids》2013,32(10):969-986

     

13.

The J-coupling Restrained Molecular Mechanics (JrMM) Protocol - An Efficient Alternative for Deriving DNA Endocyclic Torsion Angle Constraints Part I: Correlation of Endocyclic Torsion Angles and Vicinal Torsion Angle φ1′2′     

Sik Lok Lam  Steve C. F. Au-Yeung 《Journal of biomolecular structure & dynamics》2013,31(5):803-814

Abstract

An efficient alternative which makes use of the reliable ³J_1′2′. value to derive the endocyclic torsion angle constraints is proposed in this study. Based on the information embedded in the two plots, (i) the vicinal proton-proton J-couplings, ³J_1′2′., ³J_1′2″., ³J_2′3′., ³J_2”3′ and ³J_3′4′ against the pseudorotation phase angle, and (ii) ³J_1′2″, ³J_2′3′., ³J_2″3′ and ³J_3′4′ against ³J_1′2′; using the calculated J-couplings obtained for a range of sugar geometries of deoxyribose ring in nucleosides and nucleotides encountered along the pseudorotation itinerary [J. van Wijk, B.D. Huckriede, J.H. Ippel and C. Altona, Methods Enzymol. 211, 286–306 (1992)], it is suggested that the vicinal ³J_1′2′ possesses structural information other than the vicinal torsion angle φ_1′2′. This study is divided into two parts. In Part I, a correlation diagram between the endocyclic torsion angles v_i (i=0,1,2,3,4) and the restrained vicinal torsion angle φ_1′2′ is obtained through the use of the J-coupling restrained molecular mechanics (JrMM) protocol. The established φ_1′2′.-v_i correlation shows v_i can be deduced from the reliable ³J_1′2′. value and it forms the basis for developing an alternative protocol to derive endocyclic torsion angle constraints. In Part II of this series, extensive testing demonstrating the validity of the JrMM protocol to derive V_i for defining the sugar geometry of solution DNA molecules is presented.     

14.

Reaction of Glycosylisothiocyanates with 2-Chloroethylamine. Synthesis and Structure of N-Nucleoside Analogues     

M. Avalos  R. Babiano  P. Cintas  J. Fuentes  J. L. Jimenez  J. C. Palacios 《Nucleosides, nucleotides & nucleic acids》2013,32(1):137-149

Abstract

Per-O-acetyl-β--glycopyranosylisothiocyanates (3 and 4) were condensed with 2-chloroethylamine hydrochloride to afford N,N'-bis(per-O-acetyl–β--glycopyranosyl)-N-(2-thiazolin-2-yl)thioureas (5 and 6) through the glycosylaminoheterocycles (7 and 8) as intermediates. Compounds 7 and 8 were converted into N-(2-thiazolin-2-yl)urea or thioureas (9–11) by reaction with iso(thio)cyanates. Compounds 5, 6 and 9–11 show a strong chelated structure due to an intramolecular hydrogen bond, which anchors the E,Z conformation in solution.     

15.

Effects of Halides on Reaction of Nucleosides with Ozone     

Toshinori Suzuki  Eriko Kaya  Michiyo Inukai 《Nucleosides, nucleotides & nucleic acids》2013,32(6):461-473

GRAPHICAL ABSTRACT

Ozone (O₃), a major component of photochemical oxidants, is used recently as a deodorizer in living spaces. It has been reported that O₃ can directly react with DNA, causing mutagenesis in human cells and carcinogenesis in mice. However, little is known about the effects of coexistent ions in the reaction of O₃. In the present study, we analyzed the effects of halides on the reaction of O₃ with nucleosides using reversed-phase high-performance liquid chromatography with ultraviolet detection. When aqueous O₃ solution was added to a nucleoside mixture in potassium phosphate buffer (pH 7.3), the nucleosides were consumed with the following decreasing order of importance: dGuo > Thd > dCyd > dAdo. The effects of addition of fluoride and chloride in the system were slight. Bromide suppressed the reactions of dGuo, Thd, and dAdo but enhanced the reaction of dCyd. The major products were 5-hydroxy-2′-deoxycytidine, 5-bromo-2′-deoxycytidine, and 8-bromo-2′-deoxyguanosine. The time course and pH dependence of the product yield indicated formation of hypobromous acid as the reactive agent. Iodide suppressed all the reactions effectively. The results suggest that bromide may alter the mutation spectrum by O₃ in humans.     

16.

Design,Synthesis, Antiviral Activity,and Pre-Formulation Development of Poly-L-Arginine-Fatty Acyl Derivatives of Nucleoside Reverse Transcriptase Inhibitors     

Bhanu P. Pemmaraju  Swapnil Malekar  Hitesh K. Agarwal  Rakesh K. Tiwari  Donghoon Oh  Gustavo F. Doncel 《Nucleosides, nucleotides & nucleic acids》2015,34(1):1-15

     

17.

Spontaneous methylation of hemoglobin by S-adenosylmethionine by a specific and saturable mechanism     

Amy L. Kimzey  Philip N. McFadden 《Journal of Protein Chemistry》1994,13(6):537-546

The methyl group from S-adenosylmethionine (AdoMet) is transferred into hemoglobin without any evident involvement of an enzyme. There are multiple sites for incorporation of the methyl group into hemoglobin, since both and chains are methylated. The methyl linkages formed in hemoglobin are stable at both alkaline and acidicpH, and the reaction occurs optimally at slightly below neutralpH. Only a small fraction (2%) of hemoglobin tetramers are methylated under the conditions tested. Acid hydrolysis of [³H-methyl]-labeled hemoglobin and determination of phenylisothiocynate derivatives yields N-methyl lysine, which accounts for about one-half of the incorporated [³H-methyl] radioactivity. Other amino acids are methylated as well, with much of the remaining radioactivity being distributed among one or more of the side chains of histidine, cysteine, and arginine. Methyl group transfer to hemoglobin from AdoMet is slow and inefficient (k _cat/K _m5×10^–2), but the reaction velocity tends toward a plateau with increasing AdoMet concentration in a manner suggesting that saturable binding of AdoMet onto hemoglobin is involved in methyl transfer. The velocity of hemoglobin methylation is inhibited by S-adenosylhomocysteine, the known end-product inhibitor of methyltransferases, a further indication that methyl group transfer involves binding and catalysis by a specific site (or sites) in the hemoglobin molecule. These observations may help to explain the known existence of methylated hemoglobins in erythrocyte.     

18.

Nucleoside dimers analogues with a 1,2,3-triazole linkage: conjugation of floxuridine and thymidine provides novel tools for cancer treatment. Part II     

Dagmara Baraniak  Daniel Baranowski  Piotr Ruszkowski  Jerzy Boryski 《Nucleosides, nucleotides & nucleic acids》2013,32(11):807-835

Abstract

The fluorinated nucleoside dimers with a 1,2,3-triazole linkage are novel compounds within the field of bioorganic chemistry. We report on the synthesis and properties of two groups of nucleoside dimers analogs possessing a different arrangement of the 1,4-disubstituted 1,2,3-triazole linkage. Based on analysis of the ³J_HH, ³J_H1′C2, and ³J_H1′C6 we estimated conformational preferences of sugar part and orientation around glycosidic bond. These compounds show moderate anticancer activity, with cytostatic studies in three different cancer cell lines.     

19.

Modeling 2hJiso(N, N) in nucleic acid base pairs: Ab initio characterization of the 2hJ(N, N) tensor in the methyleneimine dimer as a function of hydrogen bond geometry     

Bryce DL  Wasylishen RE 《Journal of biomolecular NMR》2001,19(4):371-375

The observation of ^2h J _iso(N, N) coupling has prompted considerable interest in this phenomenon from experimentalists and theoreticians due to the potential these couplings hold for the determination of secondary and tertiary structure in biologically important molecules. Here, we present an ab initio (MCSCF) study of the complete ^2h J(N, N) tensor for a model methyleneimine dimer system as a function of (i) the N-N separation, r _NN, and (ii) the hydrogen bond angle, . This simple system models the ^2h J(N, N) tensor of nucleic acid base pairs. Results indicate that although the Fermi-contact mechanism dominates ^2h J _iso(N, N), the coupling tensor is anisotropic due to contributions from the Fermi-contact spin-dipolar cross term. The variation in ^2h J _iso(N, N) as a function of r _NN is fit to an exponential decay. The influence of on the coupling constant is less pronounced but must be considered if experimental coupling constants are to be used for quantitative structure determination. Our results for this simple model system demonstrate that ^2h J _iso(N, N) is a valuable probe of hydrogen bonding in nucleic acid base pairs.     

20.

Transients in toad skin: Short circuit current and ionic fluxes related to inner sodium substitution by monovalent cations     

W. A. Varanda  F. Lacaz Vieira 《The Journal of membrane biology》1978,39(4):369-385

Summary When the Na electrochemical potential difference across the skin (_Na) is altered by perturbing the transmembrane electrical potential difference or the external Na concentration, effects on transport and associated oxygen consumption can be described by the formalism of linear nonequilibrium thermodynamics (Vieira, Caplan & Essig, 1972,J. Gen. Physiol. 59:77; Danisi & Lacaz-Vieira, 1974,J. Gen. Physiol. 64:372; Procópio and Lacaz-Vieira, 1977,J. Membrane Biol. 35:219). We now show that with modifications of _Na by substitution of Li or choline for Na in the inner bathing solution, this formalism is no longer applicable. Inner Na by K substitution ((Na×K) _i ) causes profound alterations in short-circuit current (SCC),J _Na ⁱⁿ , K efflux (J _K ^eff ) and PD. SCC drops transiently after (Na×K) _i in Cl and in SO₄ media, increasing subsequently. In Cl medium, following the initial transient, there is a late decline in SCC toward a steady state. The rate of SCC decline in Cl medium is more pronounced than that observed in SO₄ medium. (Na×K) _i causes a transient increase inJ _Na ⁱⁿ with a peak synchronous to the minimum in SCC, both in Cl and in SO₄ media. This was interpreted as due to depolarization of the inner membrane. In SO₄ medium, following the peak observed after (Na×K) _i J _Na ⁱⁿ drops, to increase again toward a steady state in which SCC andJ _Na ⁱⁿ are not statistically different, resembling the control condition before (Na×K) _i . In Cl medium, however, theJ _Na ⁱⁿ steady state is approximately 100% higher than SCC. This difference is due to an important K efflux (J _K ^eff ), which builds up progressively after the substitution. The apparent K permeability [J _K ^eff /(K _i )] is of comparable magnitude in Cl and in SO₄ media before (Na×K) _i , the apparent K permeability increases one order of magnitude as compared to the control condition before the ionic substitution. In Cl medium, the high levels ofJ _Na ⁱⁿ and ofJ _K ^eff observed in the steady state after (Na×K) _i were interpreted as being a consequence of cell swelling. SCC and PD follow very different temporal patterns after (Na×K) _i which are characterized by transients in SCC and a simple fall in PD. Reasons for these differences are discussed.     

Conformational dependence of the vicinal proton coupling constant for the Cα?Cβ bond in peptides

We use the nmr data concerning the C^αH? C^βH fragment in eight peptides with rigid side chains to parametrize a Karplus correlation between the vicinal proton J_αβ coupling constant and the dihedral angle θ. When considering molecules containing the fragment C^αH^α? C^βH^βH^β′, the three-dimensional structure of the model peptides does not need to be known with accurate precision, since each set of J_αβ and J_αβ′ coupling constants is then related to the coefficients of the Karplus equation. A good correlation is observed with the Karplus equation, which is in substantial agreement with the J_αβ coupling constants reported for rigid as well as rotating C^α? C^β bonds in peptides.     

Solid Phase Synthesis of Phosphorothioate Oligonucleotides Utilizing Diethyldithiocarbonate Disulfide (DDD) as an Efficient Sulfur Transfer Reagent

Abstract

Diethyldithiodicarbonate (DDD), a cheap and easily prepared compound, is found to be a rapid and efficient sulfurizing reagent in solid phase synthesis of phosphorothioate oligodeoxyribonucleotides via the phosphoramidite approach. Product yield and quality based on IP-LC-MS compares well with high quality oligonucleotides synthesized using phenylacetyl disulfide (PADS) which is being used for manufacture of our antisense drugs.      

The J-coupling Restrained Molecular Mechanics (JrMM) Protocol - An Efficient Alternative for Deriving DNA Endocyclic Torsion Angle Constraints Part I: Correlation of Endocyclic Torsion Angles and Vicinal Torsion Angle φ1′2′

Abstract

An efficient alternative which makes use of the reliable ³J_1′2′. value to derive the endocyclic torsion angle constraints is proposed in this study. Based on the information embedded in the two plots, (i) the vicinal proton-proton J-couplings, ³J_1′2′., ³J_1′2″., ³J_2′3′., ³J_2”3′ and ³J_3′4′ against the pseudorotation phase angle, and (ii) ³J_1′2″, ³J_2′3′., ³J_2″3′ and ³J_3′4′ against ³J_1′2′; using the calculated J-couplings obtained for a range of sugar geometries of deoxyribose ring in nucleosides and nucleotides encountered along the pseudorotation itinerary [J. van Wijk, B.D. Huckriede, J.H. Ippel and C. Altona, Methods Enzymol. 211, 286–306 (1992)], it is suggested that the vicinal ³J_1′2′ possesses structural information other than the vicinal torsion angle φ_1′2′. This study is divided into two parts. In Part I, a correlation diagram between the endocyclic torsion angles v_i (i=0,1,2,3,4) and the restrained vicinal torsion angle φ_1′2′ is obtained through the use of the J-coupling restrained molecular mechanics (JrMM) protocol. The established φ_1′2′.-v_i correlation shows v_i can be deduced from the reliable ³J_1′2′. value and it forms the basis for developing an alternative protocol to derive endocyclic torsion angle constraints. In Part II of this series, extensive testing demonstrating the validity of the JrMM protocol to derive V_i for defining the sugar geometry of solution DNA molecules is presented.     

Reaction of Glycosylisothiocyanates with 2-Chloroethylamine. Synthesis and Structure of N-Nucleoside Analogues

Abstract

Per-O-acetyl-β--glycopyranosylisothiocyanates (3 and 4) were condensed with 2-chloroethylamine hydrochloride to afford N,N'-bis(per-O-acetyl–β--glycopyranosyl)-N-(2-thiazolin-2-yl)thioureas (5 and 6) through the glycosylaminoheterocycles (7 and 8) as intermediates. Compounds 7 and 8 were converted into N-(2-thiazolin-2-yl)urea or thioureas (9–11) by reaction with iso(thio)cyanates. Compounds 5, 6 and 9–11 show a strong chelated structure due to an intramolecular hydrogen bond, which anchors the E,Z conformation in solution.     

Effects of Halides on Reaction of Nucleosides with Ozone

GRAPHICAL ABSTRACT

Ozone (O₃), a major component of photochemical oxidants, is used recently as a deodorizer in living spaces. It has been reported that O₃ can directly react with DNA, causing mutagenesis in human cells and carcinogenesis in mice. However, little is known about the effects of coexistent ions in the reaction of O₃. In the present study, we analyzed the effects of halides on the reaction of O₃ with nucleosides using reversed-phase high-performance liquid chromatography with ultraviolet detection. When aqueous O₃ solution was added to a nucleoside mixture in potassium phosphate buffer (pH 7.3), the nucleosides were consumed with the following decreasing order of importance: dGuo > Thd > dCyd > dAdo. The effects of addition of fluoride and chloride in the system were slight. Bromide suppressed the reactions of dGuo, Thd, and dAdo but enhanced the reaction of dCyd. The major products were 5-hydroxy-2′-deoxycytidine, 5-bromo-2′-deoxycytidine, and 8-bromo-2′-deoxyguanosine. The time course and pH dependence of the product yield indicated formation of hypobromous acid as the reactive agent. Iodide suppressed all the reactions effectively. The results suggest that bromide may alter the mutation spectrum by O₃ in humans.     

Spontaneous methylation of hemoglobin by S-adenosylmethionine by a specific and saturable mechanism

The methyl group from S-adenosylmethionine (AdoMet) is transferred into hemoglobin without any evident involvement of an enzyme. There are multiple sites for incorporation of the methyl group into hemoglobin, since both and chains are methylated. The methyl linkages formed in hemoglobin are stable at both alkaline and acidicpH, and the reaction occurs optimally at slightly below neutralpH. Only a small fraction (2%) of hemoglobin tetramers are methylated under the conditions tested. Acid hydrolysis of [³H-methyl]-labeled hemoglobin and determination of phenylisothiocynate derivatives yields N-methyl lysine, which accounts for about one-half of the incorporated [³H-methyl] radioactivity. Other amino acids are methylated as well, with much of the remaining radioactivity being distributed among one or more of the side chains of histidine, cysteine, and arginine. Methyl group transfer to hemoglobin from AdoMet is slow and inefficient (k _cat/K _m5×10^–2), but the reaction velocity tends toward a plateau with increasing AdoMet concentration in a manner suggesting that saturable binding of AdoMet onto hemoglobin is involved in methyl transfer. The velocity of hemoglobin methylation is inhibited by S-adenosylhomocysteine, the known end-product inhibitor of methyltransferases, a further indication that methyl group transfer involves binding and catalysis by a specific site (or sites) in the hemoglobin molecule. These observations may help to explain the known existence of methylated hemoglobins in erythrocyte.     

Nucleoside dimers analogues with a 1,2,3-triazole linkage: conjugation of floxuridine and thymidine provides novel tools for cancer treatment. Part II

Abstract

The fluorinated nucleoside dimers with a 1,2,3-triazole linkage are novel compounds within the field of bioorganic chemistry. We report on the synthesis and properties of two groups of nucleoside dimers analogs possessing a different arrangement of the 1,4-disubstituted 1,2,3-triazole linkage. Based on analysis of the ³J_HH, ³J_H1′C2, and ³J_H1′C6 we estimated conformational preferences of sugar part and orientation around glycosidic bond. These compounds show moderate anticancer activity, with cytostatic studies in three different cancer cell lines.     

Modeling 2hJiso(N, N) in nucleic acid base pairs: Ab initio characterization of the 2hJ(N, N) tensor in the methyleneimine dimer as a function of hydrogen bond geometry

The observation of ^2h J _iso(N, N) coupling has prompted considerable interest in this phenomenon from experimentalists and theoreticians due to the potential these couplings hold for the determination of secondary and tertiary structure in biologically important molecules. Here, we present an ab initio (MCSCF) study of the complete ^2h J(N, N) tensor for a model methyleneimine dimer system as a function of (i) the N-N separation, r _NN, and (ii) the hydrogen bond angle, . This simple system models the ^2h J(N, N) tensor of nucleic acid base pairs. Results indicate that although the Fermi-contact mechanism dominates ^2h J _iso(N, N), the coupling tensor is anisotropic due to contributions from the Fermi-contact spin-dipolar cross term. The variation in ^2h J _iso(N, N) as a function of r _NN is fit to an exponential decay. The influence of on the coupling constant is less pronounced but must be considered if experimental coupling constants are to be used for quantitative structure determination. Our results for this simple model system demonstrate that ^2h J _iso(N, N) is a valuable probe of hydrogen bonding in nucleic acid base pairs.     

Transients in toad skin: Short circuit current and ionic fluxes related to inner sodium substitution by monovalent cations

Summary When the Na electrochemical potential difference across the skin (_Na) is altered by perturbing the transmembrane electrical potential difference or the external Na concentration, effects on transport and associated oxygen consumption can be described by the formalism of linear nonequilibrium thermodynamics (Vieira, Caplan & Essig, 1972,J. Gen. Physiol. 59:77; Danisi & Lacaz-Vieira, 1974,J. Gen. Physiol. 64:372; Procópio and Lacaz-Vieira, 1977,J. Membrane Biol. 35:219). We now show that with modifications of _Na by substitution of Li or choline for Na in the inner bathing solution, this formalism is no longer applicable. Inner Na by K substitution ((Na×K) _i ) causes profound alterations in short-circuit current (SCC),J _Na ⁱⁿ , K efflux (J _K ^eff ) and PD. SCC drops transiently after (Na×K) _i in Cl and in SO₄ media, increasing subsequently. In Cl medium, following the initial transient, there is a late decline in SCC toward a steady state. The rate of SCC decline in Cl medium is more pronounced than that observed in SO₄ medium. (Na×K) _i causes a transient increase inJ _Na ⁱⁿ with a peak synchronous to the minimum in SCC, both in Cl and in SO₄ media. This was interpreted as due to depolarization of the inner membrane. In SO₄ medium, following the peak observed after (Na×K) _i J _Na ⁱⁿ drops, to increase again toward a steady state in which SCC andJ _Na ⁱⁿ are not statistically different, resembling the control condition before (Na×K) _i . In Cl medium, however, theJ _Na ⁱⁿ steady state is approximately 100% higher than SCC. This difference is due to an important K efflux (J _K ^eff ), which builds up progressively after the substitution. The apparent K permeability [J _K ^eff /(K _i )] is of comparable magnitude in Cl and in SO₄ media before (Na×K) _i , the apparent K permeability increases one order of magnitude as compared to the control condition before the ionic substitution. In Cl medium, the high levels ofJ _Na ⁱⁿ and ofJ _K ^eff observed in the steady state after (Na×K) _i were interpreted as being a consequence of cell swelling. SCC and PD follow very different temporal patterns after (Na×K) _i which are characterized by transients in SCC and a simple fall in PD. Reasons for these differences are discussed.