Results 21 to 30 of about 191,094 (249)

Thermodynamic Analysis of Nylon Nucleic Acids [PDF]

ChemBioChem, 2008
AbstractThe stability and structure of nylon nucleic acid duplexes with complementary DNA and RNA strands was examined. Thermal denaturing studies of a series of oligonucleotides that contained nylon nucleic acids (1–5 amide linkages) revealed that the amide linkage significantly enhanced the binding affinity of nylon nucleic acids towards both ...
James W. Canary, Risheng Wang, Yu Liu, Liang Ding, Liang Ding, Nadrian C. Seeman, Philip S. Lukeman, Philip S. Lukeman, Ruojie Sha   +8 more
openaire   +3 more sources

NTDB: Thermodynamic Database for Nucleic Acids [PDF]

Nucleic Acids Research, 2001
A new thermodynamic database for normal and modified nucleic acids has been developed. This Thermodynamic Database for Nucleic Acids (NTDB) includes sequence, structure and thermodynamic information as well as experimental methods and conditions. In this release, there are 1851 sequences containing both normal and modified nucleic acids.
Steve C. F. Au-Yeung, Sze Ki Chan, Wing Lok Abe Kurtz Chiu, Lai Nang Ip, Chun Ngai Sze   +4 more
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Monovalent metal ion binding promotes the first transesterification reaction in the spliceosome

Nature Communications, 2023
Cleavage and formation of phosphodiester bonds in nucleic acids is accomplished by large cellular machineries composed of both protein and RNA. Long thought to rely on a two-metal-ion mechanism for catalysis, structure comparisons revealed many contain ...
Jana Aupič, Jure Borišek, Sebastian M. Fica, Wojciech P. Galej, Alessandra Magistrato   +4 more
doaj   +1 more source

Thermodynamic framework to assess low abundance DNA mutation detection by hybridization. [PDF]

PLoS ONE, 2017
The knowledge of genomic DNA variations in patient samples has a high and increasing value for human diagnostics in its broadest sense. Although many methods and sensors to detect or quantify these variations are available or under development, the ...
Hanny Willems, An Jacobs, Wahyu Wijaya Hadiwikarta, Tom Venken, Dirk Valkenborg, Nadine Van Roy, Jo Vandesompele, Jef Hooyberghs   +7 more
doaj   +1 more source

Thermodynamic Analysis of Interacting Nucleic Acid Strands [PDF]

SIAM Review, 2007
Motivated by the analysis of natural and engineered DNA and RNA systems, we present the first algorithm for calculating the partition function of an unpseudoknotted complex of multiple interacting nucleic acid strands. This dynamic program is based on a rigorous extension of secondary structure models to the multistranded case, addressing ...
Dirks, Robert M., Bois, Justin S., Schaeffer, Joseph M., Winfree, Erik, Pierce, Niles A.   +4 more
openaire   +4 more sources

On binding mechanism exploration of organic amphoteric dye Rhodamine B with natural polymeric DNA

Discover Materials, 2023
Nucleic acids, like DNA and RNA, are molecules that are present in any life form. Their most notable function is to encode biological information.
Senchumbeni Yanthan, Jhimli Bhattacharyya   +1 more
doaj   +1 more source

Thermodynamic database for protein–nucleic acid interactions (ProNIT) [PDF]

Bioinformatics, 2001
Abstract Motivation: Protein–nucleic acid interactions are fundamental to the regulation of gene expression. In order to elucidate the molecular mechanism of protein–nucleic acid recognition and analyze the gene regulation network, not only structural data but also quantitative binding data are necessary.
M. Michael Gromiha, Samuel Selvaraj, Hatsuho Uedaira, Hidetoshi Kono, Akinori Sarai, Ponraj Prabakaran, Jianghong An   +6 more
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Design principles for ligand-sensing, conformation-switching ribozymes. [PDF]

PLoS Computational Biology, 2009
Nucleic acid sensor elements are proving increasingly useful in biotechnology and biomedical applications. A number of ligand-sensing, conformational-switching ribozymes (also known as allosteric ribozymes or aptazymes) have been generated by some ...
Xi Chen, Andrew D Ellington
doaj   +1 more source

Binding of threading intercalator to nucleic acids: Thermodynamic analyses [PDF]

Nucleic Acids Symposium Series, 2002
The constant melting temperature upon the change in the oligonucleotide concentration showed that the oligonucleotide d(CGCTTTGCG) formed a intramolecular hairpin rather than a duplex with an internal loop. We examined the thermodynamic properties of the interaction between the threading intercalator, naphthalene diimides designated as NDI, and a ...
Shinobu Sato, Takeshi Imanishi, Shigeori Takenaka, Satoshi Obika, Kenichi Yamashita, Hidetaka Torigoe   +5 more
openaire   +3 more sources

Viral genome structures are optimal for capsid assembly

eLife, 2013
Understanding how virus capsids assemble around their nucleic acid (NA) genomes could promote efforts to block viral propagation or to reengineer capsids for gene therapy applications.
Jason D Perlmutter, Cong Qiao, Michael F Hagan   +2 more
doaj   +1 more source