Library

feed icon rss

Your email was sent successfully. Check your inbox.

An error occurred while sending the email. Please try again.

Proceed reservation?

Export
  • 1
    Electronic Resource
    Electronic Resource
    New York : Wiley-Blackwell
    Biopolymers 28 (1989), S. 1653-1665 
    ISSN: 0006-3525
    Keywords: Chemistry ; Polymer and Materials Science
    Source: Wiley InterScience Backfile Collection 1832-2000
    Topics: Chemistry and Pharmacology
    Notes: Complexation of positively charged sites in a protein with the negative DNA phosphate groups shields the phosphate charges. This diminishes interstrand electrostatic repulsions, which stabilizes the duplex. When phosphate shidlding is present in one DNA strand only, the conformation of this strand changes due to a decrease of intrastrand phosphate-phosphate repulsions. This destabilizes the duplex since then the strands differ in conformation. A thermodynamic model is formulated to describe this stabilization/destabilization effect in terms of changed enthalpies and entropies of hybridization. It is found that protein complexation with one DNA strand can indeed lower the TM value of a duplex. The model is applied to the action of helicases (replication), RNA polymerases (transcription), and restriction endonucleases. Mechanisms with unilateral charge shielding are proposed for their duplex-destabilizing properties.
    Additional Material: 8 Ill.
    Type of Medium: Electronic Resource
    Library Location Call Number Volume/Issue/Year Availability
    BibTip Others were also interested in ...
  • 2
    Electronic Resource
    Electronic Resource
    New York : Wiley-Blackwell
    Biopolymers 31 (1991), S. 1087-1094 
    ISSN: 0006-3525
    Keywords: Chemistry ; Polymer and Materials Science
    Source: Wiley InterScience Backfile Collection 1832-2000
    Topics: Chemistry and Pharmacology
    Notes: Ultraviolet hyperchromicity experiments indicate that in DNA duplex formation, a C-T mismatch is destabilizing in the center of a duplex, but behaves as a stable base pair at the terminus of a duplex. The C-T base pair is thought to contain two hydrogen bonds, but has thermodynamic parameters (ΔH° and ΔG° of dissociation) that are similar to a G-C base pair. AMBER molecular mechanics calculations were performed to study the possible structural properties of DNA duplexes with central and terminal C-T combinations. These calculations also indicate that a central C-T pair destabilizes a duplex, while terminal C-T forms a stable base pair. Hydrogen bonding between cytosine and thymine occurs only in the energy-minimized structures when the helix diameter decreases and the propeller twist angle between the bases increases. These changes are found to occur only at the end of a duplex in the calculations, which may explain the experimental results.
    Additional Material: 3 Ill.
    Type of Medium: Electronic Resource
    Library Location Call Number Volume/Issue/Year Availability
    BibTip Others were also interested in ...
  • 3
    ISSN: 0006-3525
    Keywords: Chemistry ; Polymer and Materials Science
    Source: Wiley InterScience Backfile Collection 1832-2000
    Topics: Chemistry and Pharmacology
    Notes: Methylation of phosphate groups in oligo-dT strands leads to a parallel duplex with T · T base pairs. Molecular mechanics calculations on parallel d(TTTTTT)2 show it to be a symmetric right-handed helix with B-DNA conformational characteristics. Phosphate methylation stabilizes the duplex by ca. 41 kcal/mol, due to removal of the interstrand phosphate electrostatic repulsions. The chirality introduced with phosphate methylation is important for the molecular geometry, since RP methylation predominantly influences the conformation around the ζ bond (P—O3′), while SP methylation mostly changes the α conformation (P—O5′). This is also true in antiparallel helices with methylated phosphates, as is shown by molecular mechanics calculations on d(GCGCGC)2. These results may be of relevance to protein-DNA interactions, where phosphate charges are also shielded. As the pro-SP oxygen is most available in a right-handed helix, we suggest changes around the α bond to occur upon protein complexation, leading to a widening of the major groove in the d(GCGCGC)2 duplex (from 12 to 13 Å) and reduced minor groove (from 6 to 5 Å).
    Additional Material: 10 Ill.
    Type of Medium: Electronic Resource
    Library Location Call Number Volume/Issue/Year Availability
    BibTip Others were also interested in ...
  • 4
    Electronic Resource
    Electronic Resource
    New York : Wiley-Blackwell
    Biopolymers 30 (1990), S. 609-618 
    ISSN: 0006-3525
    Keywords: Chemistry ; Polymer and Materials Science
    Source: Wiley InterScience Backfile Collection 1832-2000
    Topics: Chemistry and Pharmacology
    Notes: Phosphate-methylated (P.M.) DNA possesses a very high affinity for complementary natural DNA, as a result of the absence of interstrand electrostatic repulsions. In this study, a model system phosphate-methylated d[Cn] with natural d(Gk) (n 〈 k)is chosen for an investigation of the thermodynamic properties that determine duplex stability. The enthalpy change of a melting transition is shown to be considerably larger than is observed for corresponding natural DNA duplexes. It is found that ΔH0n of GG/CC nearest neighbor pairwise interaction equals -15.6 kcal/mol, compared to -11.0 kcal/mol for the natural analog. The entropy change is strongly dependent on the length of the natural DNA strand and the number of phosphate-methylated DNA oligomers hybridized. The results are explained by means of a model in which a cooperative effect for subsequent hybridizations of phosphate-methylated DNA oligomers is assumed, thus giving additional stability.
    Additional Material: 3 Ill.
    Type of Medium: Electronic Resource
    Library Location Call Number Volume/Issue/Year Availability
    BibTip Others were also interested in ...
  • 5
    Electronic Resource
    Electronic Resource
    New York, NY [u.a.] : Wiley-Blackwell
    Heteroatom Chemistry 2 (1991), S. 39-43 
    ISSN: 1042-7163
    Keywords: Chemistry
    Source: Wiley InterScience Backfile Collection 1832-2000
    Topics: Chemistry and Pharmacology
    Notes: Molecular mechanics calculations, using the AMBER program (version 3.0), are presented on the radiogenic electron-capture radical formation in the crystalline chiral organophosphorus compounds (2R,4S,5R) and (2S,4S,5R) 2-chloro-3,4-dimethyl-5-phenylphospholidine 2-sulfide (respectively 1 and 2). Geometry optimization of the corresponding radical anion structures and their respective crystal surroundings reveals an increase of the Van der Waals interactions, which is significantly larger in compound 2 than in 1. This is in good agreement with previous single-crystal ESR experiments and molecular interactions calculations without geometry optimization [1].
    Additional Material: 4 Ill.
    Type of Medium: Electronic Resource
    Library Location Call Number Volume/Issue/Year Availability
    BibTip Others were also interested in ...
  • 6
    Electronic Resource
    Electronic Resource
    New York, NY [u.a.] : Wiley-Blackwell
    Heteroatom Chemistry 2 (1991), S. 205-211 
    ISSN: 1042-7163
    Keywords: Chemistry
    Source: Wiley InterScience Backfile Collection 1832-2000
    Topics: Chemistry and Pharmacology
    Notes: The proposed activated state of cyclic adenosine 3′,5′-monophosphate (cAMP) is modelled by two nucleoside cyclic 3 ′,5 ′ Pv-TBP compounds 3 and 4. The reason for the design of compound 3, in which a probe fragment (O—CH2—CH2—OCH3 group) is linked to phosphorus, was reflected in a conformational transmission effect, which occurs when the probe is located in the axis of a Pv-TBP. This means that the six-membered 3′5′-dioxaphosphorinane ring predominantly remains in a diequatorial (e,e) orientation. In the absence of conformational transmission, as in compound 4, the 3′,5′-dioxaphosphorinane ring favors an equatorial-axial (e,a) orientation. From this we conclude that the occurrence of conformational transmission can stabilize the (e,e) orientation of the 3′,5′-ring. This can be of relevance to the activation of protein kinase by cAMP. In order to obtain more structural information from 3 and 4, we performed MNDO calculations on the models 8-10. These calculations revealed that the (e,e) orientation of the 3′,5′-ring is destabilized by 3-4 kcal/mol compared to the (e,a) orientation. For the (e,a) geometry, the 3′,5′-ring adopts a twist conformation, whereas the (e,e) orientated 3′,5′-ring shows a half-chair geometry.
    Additional Material: 3 Ill.
    Type of Medium: Electronic Resource
    Library Location Call Number Volume/Issue/Year Availability
    BibTip Others were also interested in ...
  • 7
    Electronic Resource
    Electronic Resource
    Chichester : Wiley-Blackwell
    Organic Magnetic Resonance 13 (1980), S. 447-450 
    ISSN: 0030-4921
    Keywords: Chemistry ; Analytical Chemistry and Spectroscopy
    Source: Wiley InterScience Backfile Collection 1832-2000
    Topics: Chemistry and Pharmacology
    Notes: The 13C NMR chemical shifts of methylenecyclohexane at low temperature are compared with those of 4-chloro- and 4-bromo-methylenecyclohexane under the same conditions. It is concluded that the halogen induced shift differences at the double bond are to be ascribed largely to linear electric field (LEF) effects. At the same time, doubt is expressed concerning similar explanations for C-4 in halo-substituted cyclohexanes. The large influence of using different values of longitudinal bond polarizabilities is demonstrated. Finally, some remarkable long-range shift effects on double bonds are described for geranyl chloride and geranyl bromide.
    Additional Material: 1 Ill.
    Type of Medium: Electronic Resource
    Library Location Call Number Volume/Issue/Year Availability
    BibTip Others were also interested in ...
  • 8
    Electronic Resource
    Electronic Resource
    Chichester : Wiley-Blackwell
    Organic Magnetic Resonance 14 (1980), S. 497-501 
    ISSN: 0030-4921
    Keywords: Chemistry ; Analytical Chemistry and Spectroscopy
    Source: Wiley InterScience Backfile Collection 1832-2000
    Topics: Chemistry and Pharmacology
    Notes: The usefulness and some of the limitations of the linear electric field (LEF) effect in 13C NMR are illustrated by means of model calculations on the 13C NMR chemical shifts of C-1 and C-2 in 5-chloro-1-pentene in nine different conformations. Two different concepts are used in order to calculate the electric fields near C-1 and C-2 caused by the C-5—Cl dipole. It is also demonstrated that, when using charges calculated by CNDO/2, the influences of the hydrogen atoms at C-5 cannot be neglected. The use of the dipole-dipole interaction formula is advocated. The consequences of taking into account the additional contributions of the vinylic bonds to the accumulated charges at C-1 and C-2 are described. The results with the dipole-dipole formula show that the same signs and similar magnitudes of the LEF effects are calculated in seven out of nine conformations of 5-chloro-1-pentene. This reduces the LEF to a means of confirming, rather than deducing, conformational equilibria in acylic flexible compounds. The usefulness of some recently published applications of the LEF concept to explain some short range substituent effects is critically discussed, mainly in view of the inhomogeneities of the calculated electric fields.
    Additional Material: 4 Ill.
    Type of Medium: Electronic Resource
    Library Location Call Number Volume/Issue/Year Availability
    BibTip Others were also interested in ...
  • 9
    Electronic Resource
    Electronic Resource
    Chichester : Wiley-Blackwell
    Organic Magnetic Resonance 25 (1987), S. 872-878 
    ISSN: 0749-1581
    Keywords: Conformational transmission ; Diastereotopic proton assignment ; NMR conformational analysis ; Chemistry ; Analytical Chemistry and Spectroscopy
    Source: Wiley InterScience Backfile Collection 1832-2000
    Topics: Chemistry and Pharmacology
    Notes: A new method is presented for the assignment of the NMR resonances of the diastereotopic protons in tetrahydrofur-furyl and pyrrolidinylmethyl groups, based on the conformational transmission effect This effect describes the conformational changes produced by an increase of coordination from four to five of a phosphorus, silicon or germanium atom attached to the tetrahydrofurfuryl or pyrrolidinylmethyl moieties. The 1H NMR conformational analysis of these cyclic four- and five-coordinated compounds yields two possible results, based on two assignments of the diastereotopic proton resonances. Comparison with the conformations of the analogous four- and five-coordinated systems with acyclic 2-methoxyethyl and dimethylaminoethyl groups (which lack diastereotopic protons) directly shows which assignment is correct, since a similar conformational transmission occurs in both the cyclic and the acyclic compounds.
    Additional Material: 3 Ill.
    Type of Medium: Electronic Resource
    Library Location Call Number Volume/Issue/Year Availability
    BibTip Others were also interested in ...
Close ⊗
This website uses cookies and the analysis tool Matomo. More information can be found here...