This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.
Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.
In this paper we explore the application of Ni2+to the crystallization of oligonucleotides. We have determined in this way the structure of a fully alternating (Y-R) decanucleotide d(CGTATATACG) by single crystal X-ray diffraction. This is the first oligonucleotide crystal structure with an alternating 5'-(TA)3-3' central part. Alternating oligonucleotides have a particular interest since they often have a unique structure. In this case the general conformation is B-like with an alternating twist and an end-to-end interaction which involves terminal guanines. The crystal belongs to space group P41212 with a = b = 52.46, c = 101.49 A. This packing imposes a 90 degrees crossing of the symmetry related helices. This is a new way of packing for decamers.The oligonucleotide structure is characterized by the specific association with seven nickel ions, involving the N7 atom of every guanine. One of the Ni2+ions is shared between two guanines of symmetry related molecules. Until now no oligonucleotide has been crystallized in the presence of this metal ion. A novel C.A.T triplet structure has also been tentatively identified.
Structure of the oligonucleotide d(CGTATATACG) as a site-specific complex with nickel ions.,Abrescia NG, Malinina L, Fernandez LG, Huynh-Dinh T, Neidle S, Subirana JA Nucleic Acids Res. 1999 Apr 1;27(7):1593-9. PMID:10075989[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
↑ Abrescia NG, Malinina L, Fernandez LG, Huynh-Dinh T, Neidle S, Subirana JA. Structure of the oligonucleotide d(CGTATATACG) as a site-specific complex with nickel ions. Nucleic Acids Res. 1999 Apr 1;27(7):1593-9. PMID:10075989
