共查询到20条相似文献,搜索用时 31 毫秒
1.
Elaina P. Boyle Dr. Levan Lomidze Prof. Dr. Karin Musier-Forsyth Prof. Dr. Besik Kankia 《ChemistryOpen》2022,11(2):e202100276
Nucleic acid quadruplexes are proposed to play a role in the regulation of gene expression, are often present in aptamers selected for specific binding functions and have potential applications in medicine and biotechnology. Therefore, understanding their structure and thermodynamic properties and designing highly stable quadruplexes is desirable for a variety of applications. Here, we evaluate DNA→RNA substitutions in the context of a monomolecular, antiparallel quadruplex, the thrombin-binding aptamer (TBA, GGTTGGTGTGGTTGG) in the presence of either K+ or Sr2+. TBA predominantly folds into a chair-type configuration containing two G-tetrads, with G residues in both syn and anti conformation. All chimeras with DNA→RNA substitutions (G→g) at G residues requiring the syn conformation demonstrated strong destabilization. In contrast, G→g substitutions at Gs with anti conformation increased stability without affecting the monomolecular chair-type topology. None of the DNA→RNA substitutions in loop positions affected the quadruplex topology; however, these substitutions varied widely in their stabilizing or destabilizing effects in an unpredictable manner. This analysis allowed us to design a chimeric DNA/RNA TBA construct that demonstrated substantially improved stability relative to the all-DNA construct. These results have implications for a variety of quadruplex-based applications including for the design of dynamic nanomachines. 相似文献
2.
Serge Van Calenbergh Elfride Van Den Eeckhout Piet Herdewijn Andr De Bruyn Christophe Verlinde Wim Hol Mia Callens Arthur Van Aerschot Jef Rozenski 《Helvetica chimica acta》1994,77(3):631-644
A series of 2′-benzamido-2′-deoxyadenosine analogues were synthesized in an effort to find new lead structures for the treatment of sleeping sickness. The 2′-deoxy-2′-(3-methoxybenzamido)adenosine ( 1h ) was proved to be a selective inhibitor of the parasite glyceraldehyde 3-phosphate dehydrogenase which confirms the modeling studies. The solution-state conformation of 2′-(thiophene-2-carboxamido) analogue 1d demonstrates a 2′-endo conformation, an orientation of the thiophene ring under the ribose moiety, and the base part occupying a ‘syn’/‘anti’ equilibrium. 相似文献
3.
Frank Seela Xiaohua Peng Henning Eickmeier Hans Reuter 《Acta Crystallographica. Section C, Structural Chemistry》2004,60(1):o94-o97
The structures of the isomeric nucleosides 4‐nitro‐1‐(β‐d ‐ribofuranosyl)‐1H‐indazole, C12H13N3O6, (I), and 4‐nitro‐2‐(β‐d ‐ribofuranosyl)‐2H‐indazole, C12H13N3O6, (II), have been determined. For compound (I), the conformation of the glycosylic bond is anti [χ = −93.6 (6)°] and the sugar puckering is C2′‐exo–C3′‐endo. Compound (II) shows two conformations in the crystalline state which differ mainly in the sugar pucker; type 1 adopts the C2′‐endo–C3′‐exo sugar puckering associated with a syn base orientation [χ = 43.7 (6)°] and type 2 shows C2′‐exo–C3′‐endo sugar puckering accompanied by a somewhat different syn base orientation [χ = 13.8 (6)°]. 相似文献
4.
The ab initio SCF LCAO-MO method is used to compute the main electronic properties of a purine nucleoside, adenosine, in two specific conformational arrangements (3′-endo conformation of the ribose, gt orientation of the extracyclic CH2OH group, anti orientation of the base with respect to the sugar and 3′-endo conformation of the ribose, gg orientation of the extra-cyclic CH2OH group, syn orientation of the base with respect to the sugar). The results are compared with those performed for the isolated component fragments, adenine and 3′-endo riboses. 相似文献
5.
Simone Budow Henning Eickmeier Hans Reuter Frank Seela 《Acta Crystallographica. Section C, Structural Chemistry》2009,65(12):o645-o648
The title compound, 1‐(2‐deoxy‐β‐d ‐erythro‐pentofuranosyl)‐5‐(prop‐1‐ynyl)pyrimidin‐2,4(1H,3H)‐dione, C12H14N2O5, shows two conformations in the crystalline state: conformer 1 adopts a C2′‐endo (close to 2E; S‐type) sugar pucker and an anti nucleobase orientation [χ = −134.04 (19)°], while conformer 2 shows an S sugar pucker (twisted C2′‐endo–C3′‐exo), which is accompanied by a different anti base orientation [χ = −162.79 (17)°]. Both molecules show a +sc (gauche, gauche) conformation at the exocyclic C4′—C5′ bond and a coplanar orientation of the propynyl group with respect to the pyrimidine ring. The extended structure is a three‐dimensional hydrogen‐bond network involving intermolecular N—H...O and O—H...O hydrogen bonds. Only O atoms function as H‐atom acceptor sites. 相似文献
6.
Beatrice Karg Swantje Mohr Klaus Weisz 《Angewandte Chemie (International ed. in English)》2019,58(32):11068-11071
The oligomer d(GCGTG3TCAG3TG3TG3ACGC) with short complementary flanking sequences at the 5′‐ and 3′‐ends was shown to fold into three different DNA G‐quadruplex species. In contrast, a corresponding oligomer that lacks base complementarity between the two overhang sequences folds into a single parallel G‐quadruplex. The three coexisting quadruplex structures were unambiguously identified and structurally characterized through detailed spectral comparisons with well‐defined G‐quadruplexes formed upon the deliberate incorporation of syn‐favoring 8‐bromoguanosine analogues into specific positions of the G‐core. Two (3+1) hybrid structures coexist with the parallel fold and feature a novel lateral–propeller–propeller loop architecture that has not yet been confirmed experimentally. Both hybrid quadruplexes adopt the same topology and only differ in their pattern of anti→syn transitions and tetrad stackings. 相似文献
7.
The conformational analysis of 7 was carried out in (D6)DMSO and in mixtures of (D6)DMSO and CDCl3 to evaluate the syn/anti conformations, relevant to the pairing propensity of this type of nucleotide analogue. The HO−C(5′) of unit I and of unit II of the dimer 7 form an intramolecular H‐bond to N(3). In (D6)DMSO, the C(5′)−OH⋅⋅⋅N(3) H‐bond in unit I is partially broken, while that in unit II persists to a larger extent. The syn conformation prevails for unit I and particularly for unit II. The furanosyl moieties adopt predominantly a 2′‐endo conformation that is largely independent of the solvent. 相似文献
8.
Dawei Jiang Yang He Simone Budow Zygmunt Kazimierczuk Henning Eickmeier Hans Reuter Frank Seela 《Acta Crystallographica. Section C, Structural Chemistry》2010,66(11):o561-o564
The title compound, C9H12N6O3, shows a syn‐glycosylic bond orientation [χ = 64.17 (16)°]. The 2′‐deoxyfuranosyl moiety exhibits an unusual C1′‐exo–O4′‐endo (1T0; S‐type) sugar pucker, with P = 111.5 (1)° and τm = 40.3 (1)°. The conformation at the exocyclic C4′—C5′ bond is +sc (gauche), with γ = 64.4 (1)°. The two‐dimensional hydrogen‐bonded network is built from intermolecular N—H...O and O—H...N hydrogen bonds. An intramolecular bifurcated hydrogen bond, with an amino N—H group as hydrogen‐bond donor and the ring and hydroxymethyl O atoms of the sugar moiety as acceptors, constrains the overall conformation of the nucleoside. 相似文献
9.
Frank Seela Anup M. Jawalekar Simone Budow Henning Eickmeier 《Acta Crystallographica. Section C, Structural Chemistry》2005,61(9):o562-o564
In the title compound, 4‐amino‐1‐(2‐deoxy‐β‐d ‐erythro‐pentofuranosyl)‐6‐methylsulfanyl‐1H‐pyrazolo[3,4‐d]pyrimidine, C11H16N5O3S, the conformation of the glycosidic bond is between anti and high anti. The 2′‐deoxyribofuranosyl moiety adopts the C3′‐exo–C4′‐endo conformation (3T4, S‐type sugar pucker), and the conformation at the exocyclic C—C bond is +sc (+gauche). The exocyclic 6‐amine group and the 2‐methylsulfanyl group lie on different sides of the heterocyclic ring system. The molecules form a three‐dimensional hydrogen‐bonded network that is stabilized by O—H⋯N, N—H⋯O and C—H⋯O hydrogen bonds. 相似文献
10.
G. Mazumdar M. De A. Mukhopadhyay S. K. Mazumdar N. Mazumder A. K. Das Edward E. Knaus 《Acta Crystallographica. Section C, Structural Chemistry》2000,56(4):494-495
In the title compound, C14H19IN2O8, an almost planar heterocyclic base is oriented anti with respect to the puckered sugar moiety. The sugar pucker is C2′‐endo/C3′‐exo, the N‐glycosidic torsion angle is 166.4 (4)° and the conformation of O5′ is +sc. The molecules are linked by hydrogen bonds of the types N—H?O and O—H?O. 相似文献
11.
Frank Seela Simone Budow Henning Eickmeier Hans Reuter 《Acta Crystallographica. Section C, Structural Chemistry》2007,63(1):o54-o57
The title compound, 4‐amino‐1‐(2‐deoxy‐β‐d ‐erythropentofuranosyl)‐5‐(prop‐1‐ynyl)pyrimidin‐2(1H)‐one, C12H15N3O4, shows two conformations in the crystalline state which differ mainly in the glycosylic bond torsion angle and the sugar pucker. Both molecules exhibit an anti glycosylic bond conformation, with torsion angles χ = −135.0 (2) and −156.4 (2)° for molecules 1 and 2, respectively. The sugar moieties show a twisted C2′‐endo sugar pucker (S‐type), with P = 173.3 and 192.5° for molecules 1 and 2, respectively. The crystal structure is characterized by a three‐dimensional network that is stabilized by several intermolecular hydrogen bonds between the two conformers. 相似文献
12.
Eva‐Maria Tanzer Dr. W. Bernd Schweizer Dr. Marc‐Olivier Ebert Prof. Dr. Ryan Gilmour 《Chemistry (Weinheim an der Bergstrasse, Germany)》2012,18(7):2006-2013
The C9 position of cinchona alkaloids functions as a molecular hinge, with internal rotations around the C8? C9 (τ1) and C9? C4′ (τ2) bonds giving rise to four low energy conformers ( 1 ; anti‐closed, anti‐open, syn‐closed, and syn‐open). By substituting the C9 carbinol centre by a configurationally defined fluorine substituent, a fluorine‐ammonium ion gauche effect (σC?H→σC?F*; Fδ????N+) encodes for two out of the four possible conformers ( 2 ). This constitutes a partial solution to the long‐standing problem of governing internal rotations in cinchonium‐based catalysts relying solely on a fluorine conformational effect. 相似文献
13.
Frank Seela Padmaja Chittepu Henning Eickmeier 《Acta Crystallographica. Section C, Structural Chemistry》2006,62(4):o231-o233
The title compound, C11H12F2N4O3, exhibits an anti glycosylic bond conformation, with a torsion angle χ = −117.8 (2)°. The sugar pucker is N‐type (C4′‐exo, between 3T4 and E4, with P = 45.3° and τm = 41.3°). The conformation around the exocyclic C—C bond is −ap (trans), with a torsion angle γ = −177.46 (15)°. The nucleobases are stacked head‐to‐head. The crystal structure is characterized by a three‐dimensional hydrogen‐bond network involving N—H⋯O, O—H⋯O and O—H⋯N hydrogen bonds. 相似文献
14.
A series of sugar oximes and O-methyloximes of the general formula RCH?NOR′ (R′ ? H, CH3) have been studied by PMR. spectroscopy. These compounds exist in solution as a mixture of the syn and anti isomers. The conformational equilibrium of the syn isomers seems to consist exclusively of the eclipsed rotamers, whereas for the anti isomers there appears to be a significant contribution from bisecting rotamers. Using tris-dipivaloylmethanato-europium it is found that the α proton of the anti oximes is much more deshielded than the corresponding proton of the syn isomers, which means that the downfield shift of a particular proton does not depend exclusively on its distance from the oxygen of the oxyimino group. 相似文献
15.
Frank Seela Hui Mei Hai Xiong Simone Budow Henning Eickmeier Hans Reuter 《Acta Crystallographica. Section C, Structural Chemistry》2012,68(10):o395-o398
The title compound [systematic name: 4‐amino‐1‐(2‐deoxy‐β‐d ‐erythro‐pentofuranosyl)‐5‐ethynylpyrimidin‐2(1H)‐one], C11H13N3O4, shows two conformations in the crystalline state. The N‐glycosylic bonds of both conformers adopt similar conformations, with χ = −149.2 (1)° for conformer (I‐1) and −151.4 (1)° for conformer (I‐2), both in the anti range. The sugar residue of (I‐1) shows a C2′‐endo envelope conformation (2E, S‐type), with P = 164.7 (1)° and τm = 36.9 (1)°, while (I‐2) shows a major C3′‐exo sugar pucker (C3′‐exo‐C2′‐endo, 3T2, S‐type), with P = 189.2 (1)° and τm = 33.3 (1)°. Both conformers participate in the formation of a layered three‐dimensional crystal structure with a chain‐like arrangement of the conformers. The ethynyl groups do not participate in hydrogen bonding, but are arranged in proximal positions. 相似文献
16.
Frank Seela Anup M. Jawalekar Henning Eickmeier 《Acta Crystallographica. Section C, Structural Chemistry》2004,60(6):o387-o389
In the title compound, C12H13N3O5, the conformation of the glycosylic bond is anti [torsion angle = −105.3 (2)°]. The 2′‐deoxyribofuranose moiety adopts an S‐type sugar pucker and the orientation of the exocyclic C—C bond is −sc (trans). 相似文献
17.
Trisphosphine‐Chelate‐Substituted Molybdenum and Tungsten Nitrosyl Hydrides as Highly Active Catalysts for Olefin Hydrogenations
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Dr. Subrata Chakraborty Dr. Olivier Blacque Dr. Thomas Fox Prof. Heinz Berke 《Chemistry (Weinheim an der Bergstrasse, Germany)》2014,20(39):12641-12654
Reaction of [M(NO)Cl3(NCMe)2] (M=Mo, W) with (iPr2PCH2CH2)2PPh (etpip) at room temperature afforded the syn/anti‐[M(NO)Cl3(mer‐etpip)] complexes (M=Mo, a ; W, b ; 3 a,b (syn,anti); syn and anti refer to the relative position of Ph(etpip) and NO). Reduction of 3 a,b (syn,anti) produced [M(NO)Cl2(mer‐etpip)] ( 4 a,b (syn)), [M(NO)Cl(NCMe)(mer‐etpip)] ( 5 a,b (syn,anti)), and [M(NO)Cl(η2‐ethylene)(mer‐etpip)] ( 6 a,b (syn,anti)) complexes. The hydrides [M(NO)H(η2‐ethylene)(mer‐etpip)] ( 7 a,b (syn,anti)) were obtained from 6 a,b (syn,anti) using NaHBEt3 (75 °C, THF) or LiBH4 (80 °C, Et3N), respectively. 7 a,b (syn,anti) were probed in olefin hydrogenations in the absence or presence of a hydrosilane/B(C6F5)3 mixture. The 7 a,b (syn,anti)/Et3SiH/B(C6F5)3 co‐catalytic systems were highly active in various olefin hydrogenations (60 bar H2, 140 °C), with maximum TOFs of 5250 h?1 ( 7 a (syn,anti)) and 8200 h?1 ( 7 b (syn,anti)) for 1‐hexene hydrogenation. The Et3SiH/(B(C6F5)3 co‐catalyst is anticipated to generate a [Et3Si]+ cation attaching to the ONO atom. This facilitates NO bending and accelerates catalysis by providing a vacant site. Inverse DKIE effects were observed for the 7 a (syn,anti)/Et3SiH/(B(C6F5)3 (kH/kD=0.55) and the 7 b (syn,anti)/Et3SiH/(B(C6F5)3 (kH/kD=0.65) co‐catalytic mixtures (20 bar H2/D2, 140 °C). 相似文献
18.
Chang GF Wang CH Lu HC Kan LS Chao I Chen WH Kumar A Lo L dela Rosa MA Hung CH 《Chemistry (Weinheim an der Bergstrasse, Germany)》2011,17(40):11332-11343
Group 12 and silver(I) tetramethyl‐m‐benziporphodimethene (TMBPDM) complexes with phenyl, methylbenzoate, or nitrophenyl groups as meso substituents were synthesized and fully characterized. The dimeric silver(I) complex displays an unusual η2,π coordination from the β‐pyrrolic C?C bond to the silver ion. All of the complexes displayed a close contact between the metal ion and the inner C(22)? H(22) on the m‐phenylene ring. The downfield chemical shifts of H(22) and large coupling constants between CdII and H(22) strongly support the presence of an agostic interaction between the metal ion and inner C(22)–H(22). Crystal structures revealed that the syn form is the predominant conformation for TMBPDM complexes. This is distinctively different from the exclusive anti conformation observed in m‐benziporphyrin and tetraphenyl‐m‐benziporphodimethene (TPBPDM) complexes. Evidently, intramolecular hydrogen‐bonding interactions between axial chloride and methyl groups stabilize syn conformations. Unlike the merely syn conformation observed in the solid‐state structures of TMBPDM complexes that contain an axial chloride, in solution these complexes display highly solvent‐ and temperature‐dependent syn/anti ratio changes. The observation of dynamic 1H NMR spectroscopic scrambling between syn and anti conformations from the titration of chloride ion into the solution of the TMBPDM complex suggests that axial ligand exchange is a likely pathway for the conversion between syn and anti forms. Theoretical calculations revealed that intermolecular hydrogen‐bonding interactions between the axial chloride and CHCl3 stabilizes the anti conformation, which explains the increased ratio for the anti form when dichloromethane or chloroform was used as the solvent. 相似文献
19.
Frank Seela Yang He Hans Reuter Eva‐Maria Heithoff 《Acta Crystallographica. Section C, Structural Chemistry》2000,56(8):989-991
In the title compound, 2‐amino‐1‐(2‐deoxy‐β‐d ‐erythro‐pentofuranosyl)‐5‐methylpyrimidin‐4(1H)‐one, C10H15N3O4, the conformation of the N‐glycosidic bond is syn and the 2‐deoxyribofuranose moiety adopts an unusual OT1 sugar pucker. The orientation of the exocyclic C4′—C5′ bond is +sc (+gauche). 相似文献
20.
Andrea Alparone 《Structural chemistry》2014,25(3):959-968
The molecular structure, conformational behaviour, vibrational spectra and electronic (hyper)polarizabilities of tellurophene and 2,2′-bitellurophene rotamers were determined in gas by correlated ab initio and density functional theory calculations. The torsional potential for the rotation around the C2–C2′ inter-ring bond shows two minima corresponding to anti-gauche and syn-gauche structures and three maxima to planar anti and syn forms and to perpendicular conformation. The potential energy curve is rather flat over the entire 0°–180° twisting range and free rotation cannot be excluded. The IR and Raman spectra of the gauche structures are rather similar to each other, vibrational transitions being scarcely helpful for an unambiguous identification of the rotamers. The dipole moment and the first-order hyperpolarizability increase on passing from the anti-gauche to the syn-gauche conformation by a factor of five and four, respectively. The second harmonic generation nonlinear optical process can be useful to identify the 2,2′-bitellurophene rotamers. On the other hand, the electronic polarizabilities of these structures are much more closer to each other, being predicted to be within 2–13 %. 相似文献