Slight sequence modifications unexpectedly alter the metal-dependency of a kissing-loop interaction

Shoji P Ohuchi; Yoshikazu Nakamura

doi:10.1093/nass/nrm198

Slight sequence modifications unexpectedly alter the metal-dependency of a kissing-loop interaction

Nucleic Acids Symp Ser (Oxf). 2007:(51):395-6. doi: 10.1093/nass/nrm198.

Authors

Shoji P Ohuchi¹, Yoshikazu Nakamura

Affiliation

¹ Department of Basic Medical Sciences, Insutitute of Medical Science, University of Tokyo, 4-6-1 Shirokanedai, Minato-ku, Tokyo 108-8639, Japan.

PMID: 18029753
DOI: 10.1093/nass/nrm198

Abstract

Kissing-loop RNA-RNA interactions play essential roles in many biological processes. Here, by a modified SELEX (Systematic Evolution of Ligands by EXponential enrichment) procedure, we obtained a new kissing-loop RNA motif that binds the HIV-1 transactivation responsible (TAR) RNA. Surface plasmon resonance (SPR) analyses of this RNA motif, as well as similar RNA motifs previously reported, showed unexpected differences for divalent cation dependency. This result emphasizes the complex roles for metal ions even on simple RNA structures.

MeSH terms

Aptamers, Nucleotide / chemistry*
Cations, Divalent / chemistry
HIV Long Terminal Repeat*
HIV-1 / genetics*
Kinetics
Magnesium / chemistry
Nucleic Acid Conformation
RNA, Viral / chemistry*
SELEX Aptamer Technique

Substances

Aptamers, Nucleotide
Cations, Divalent
RNA, Viral
Magnesium