Crystalline and local vibrations of paired bases in poly(dG)-poly(dC) interacting with theh-b-1 hydrogen bond

Grebneva, H.A.; Tolpygo, K. B.

doi:10.1002/(sici)1097-461x(1997)62:1<115::aid-qua11>3.0.co;2-c

Cited by 8 publications

(12 citation statements)

References 0 publications

Supporting

Mentioning

Contrasting

Unclassified

Order By: Relevance

“…Thus, the hydrogen atom will remain with their partner on hydrogen bond ( Figure 1e). The calculations [104][105][106][107][108]110,112,113] semi empirical potential function for protons of hydrogen bonds was used, it was developed by Tolpygo & Grebneva [109]. The proposed model is in a good agreement with the results obtained by other authors [114][115][116].…”

Section: /14mentioning

confidence: 61%

“…This results in a strong "local heating-up", followed by initiation of normal oscillations of the bases. After several oscillations, taking ~10 -14 -10 -12 sec [104][105][106][107][108], the vibratory system will reach equilibrium. The oscillations of atoms will cause changes in the distances between the paired bases, in other words, in the lengths of H-bonds.…”

Section: Mechanism Of Alteration Of Tautomeric State Of Dna Bases Undmentioning

confidence: 99%

“…Therefore, when the hydrogen bond begins to lengthen, hydrogen may remain in the new position ( Figure 1d). After that hydrogen bond length is increased a hydrogen atom will be in a local minimum [104,106,110]. The assumption of favorable conformations is possible, as the lifetime of a triplet state is ~10 -6 sec [101].…”

Section: /14mentioning

confidence: 99%

“…The lifetime of the excited Н-bond is ~4 x 10 -9 sec [112,113]. In the same time the characteristic periods of atomic oscillations are 10 -14 -10 -12 sec [104][105][106][107][108]. Therefore, there will be not more than several 10s of oscillations up to 100 oscillations that influence the length of the H-bond.…”

Section: /14mentioning

confidence: 99%

“…When the hydrogen bond becomes weaker it becomes longer. In this case, there is a second minimum and the second minimum deepens [105,106,110]. Therefore, if under the thermal relaxation of the excitation energy the hydrogen atom will go to partner for the hydrogen bond, the new tautomeric state will be stable even with a small elongation of the hydrogen bond.…”

Section: The Reasons For the Stability Of The Rare Tautomeric Forms Omentioning

confidence: 99%

See 4 more Smart Citations

A Polymerase Tautomeric Model for Radiation Induced Bystander Effects: A Model for Untargeted Base Substitution Mutagenesis during Error Prone and SOS Replication of Double Stranded DNA Containing Thymine and Adenine in Rare Tautomeric Forms

Grebneva¹

2017

IJMBOA

View full text Add to dashboard Cite

Currently, untargeted mutations are studied in the context of bystander effects. Up to now the nature and mechanisms of formation of untargeted mutations is poorly understood. Untargeted base substitution mutations are base substitution mutations then one or some nucleotides are inserted in DNA molecule on, so called, undamaged sites of DNA. Here the polymerase-tautomeric models of ultraviolet mutagenesis and bystander effects are developed. The mechanisms of untargeted base substitution mutations formation caused by cis-syn cyclobutane thymine dimers and bases pairs of adenine-thymine or thymine-adenine in rare tautomeric forms that are in small neighbor from any cyclobutane dimers are proposed. Five rare tautomeric forms may form for thymine and adenine. These rare tautomeric forms will be stable if corresponding nucleotides are part of cyclobutane pyrimidine dimers or are in small neighbor of the cyclobutane dimers and during DNA synthesis. Structural analysis of bases incorporation shown that adenine in rare tautomeric form A 1

show abstract

Section: /14mentioning

confidence: 61%

Section: Mechanism Of Alteration Of Tautomeric State Of Dna Bases Undmentioning

confidence: 99%

Section: /14mentioning

confidence: 99%

Section: /14mentioning

confidence: 99%

Section: The Reasons For the Stability Of The Rare Tautomeric Forms Omentioning

confidence: 99%

See 3 more Smart Citations

A Polymerase Tautomeric Model for Radiation Induced Bystander Effects: A Model for Untargeted Base Substitution Mutagenesis during Error Prone and SOS Replication of Double Stranded DNA Containing Thymine and Adenine in Rare Tautomeric Forms

Grebneva¹

2017

IJMBOA

View full text Add to dashboard Cite

show abstract

A model for targeted substitution mutagenesis during SOS replication of double‐stranded DNA containing cis‐syn cyclobutane thymine dimers

Grebneva

2006

Environ and Mol Mutagen

View full text Add to dashboard Cite

A model for ultraviolet mutagenesis is described that is based on the formation of rare tautomeric bases in pyrimidine dimers. It is shown that during SOS synthesis the modified DNA-polymerase inserts canonical bases opposite the dimers; the inserted bases are capable of forming hydrogen bonds with bases in the template DNA. SOS-replication of double-stranded DNA having thymine dimers, with one or both bases in a rare tautomeric conformation, results in targeted transitions, transversions, or one-nucleotide gaps. Structural analysis indicates that one type of dimer containing a single tautomeric base (TT*(1), with the "*" indicating a rare tautomeric base and the subscript referring to the particular conformation) can cause A:T --> G:C transition or homologous A:T --> T:A transversion, while another dimer (TT*(2)) can cause a one-nucleotide gap. The dimers containing T*(4) result in A:T --> C:G transversion, while TT*(5) dimers can cause A:T --> C:G transversion or homologous A:T --> T:A transversion. If both bases in the dimer are in a rare tautomeric form, then tandem mutations or double-nucleotide gaps can be formed. The dimers containing the rare tautomeric forms T*'(1) , T*'(2), T*'(3), T*'(4), and T*'(5) may not result in mutations. The question of whether dimers containing T*'(4) and T*'(5) result in mutations requires further investigation.

show abstract

Nature and possible mechanisms of formation of potential mutations arising at emerging of thymine dimers after irradiation of double-stranded DNA by ultraviolet light

Grebneva

2003

Journal of Molecular Structure

View full text Add to dashboard Cite

Crystalline and local vibrations of paired bases in poly(dG)-poly(dC) interacting with theh-b-1 hydrogen bond

Cited by 8 publications

References 0 publications

A Polymerase Tautomeric Model for Radiation Induced Bystander Effects: A Model for Untargeted Base Substitution Mutagenesis during Error Prone and SOS Replication of Double Stranded DNA Containing Thymine and Adenine in Rare Tautomeric Forms

A Polymerase Tautomeric Model for Radiation Induced Bystander Effects: A Model for Untargeted Base Substitution Mutagenesis during Error Prone and SOS Replication of Double Stranded DNA Containing Thymine and Adenine in Rare Tautomeric Forms

A model for targeted substitution mutagenesis during SOS replication of double‐stranded DNA containing cis‐syn cyclobutane thymine dimers

Nature and possible mechanisms of formation of potential mutations arising at emerging of thymine dimers after irradiation of double-stranded DNA by ultraviolet light

Contact Info

Product

Resources

About