2N4J

Solution structure of a self complementary Xylonucleic Acid duplex

Summary for 2N4J

• Entry DOI: 10.2210/pdb2n4j/pdb
• NMR Information: BMRB: 25669
• Descriptor: XNA (5'-R(*(8XG)P*(8XU)P*(8XG)P*(8XU)P*(8XA)P*(8XC)P*(8XA)P*(8XC))-3') (1 entity in total)
• Functional Keywords: unknown function
• Total number of polymer chains: 2
• Total formula weight: 5053.12

Authors

Maiti, M.,Lescrinier, E.,Herdewijn, P. (deposition date: 2015-06-19, release date: 2015-07-29, Last modification date: 2024-05-15)

Primary citation

Maiti, M.,Maiti, M.,Knies, C.,Dumbre, S.,Lescrinier, E.,Rosemeyer, H.,Ceulemans, A.,Herdewijn, P.
Xylonucleic acid: synthesis, structure, and orthogonal pairing properties.
Nucleic Acids Res., 43:7189-7200, 2015

PubMed Abstract: There is a common interest for studying xeno-nucleic acid systems in the fields of synthetic biology and the origin of life, in particular, those with an engineered backbone and possessing novel properties. Along this line, we have investigated xylonucleic acid (XyloNA) containing a potentially prebiotic xylose sugar (a 3'-epimer of ribose) in its backbone. Herein, we report for the first time the synthesis of four XyloNA nucleotide building blocks and the assembly of XyloNA oligonucleotides containing all the natural nucleobases. A detailed investigation of pairing and structural properties of XyloNAs in comparison to DNA/RNA has been performed by thermal UV-melting, CD, and solution state NMR spectroscopic studies. XyloNA has been shown to be an orthogonal self-pairing system which adopts a slightly right-handed extended helical geometry. Our study on one hand, provides understanding for superior structure-function (-pairing) properties of DNA/RNA over XyloNA for selection as an informational polymer in the prebiotic context, while on the other hand, finds potential of XyloNA as an orthogonal genetic system for application in synthetic biology.

PubMed: 26175047
DOI: 10.1093/nar/gkv719

Experimental method

SOLUTION NMR