Description

In 2005, Coen, D. M et al. used the SELEX method to select RNA aptamers that could specifically bind to the US11 protein of Herpes simplex virus-1 (HSV-1). These aptamers were selected from 80 base sequences with 30 random base regions. These findings contribute to a further understanding of the RNA binding characteristics of HSV-1 US11 protein and may provide clues for studying how viruses regulate gene expression in host cells^[1].

SELEX

In 2005, Coen, D. M et al. conducted an in vitro selection of RNA aptamers binding to US11 from an RNA library comprising over 10¹⁴ 80-nucleotide sequences, which varied in a 30-base randomised region. They carried out 12 rounds of automated selection for aptamers that bound MBP-US11. A total of 23 selected aptamers were cloned and sequenced, and a consensus emerged from these sequences: UUCGCAAUYCUGCAYUG (where Y denotes a pyrimidine base)^[1].

Structure

The 2D structure of the figures is based on the prediction results of the RNA fold website by ribodraw tool to draw. C17 aptamer binds to herpes simplex virus-1 (HSV-1) US11. C17 aptamer was named by Coen, D. M et al^[1].

5'-GGGAAUGGAUCCACAUCUACGAAUUCGCAAUCCUGUAUUGAACUUCUCACUAAAACUUCACUGCAGACUUGACGAAGCUU-3'

Ligand information

SELEX ligand

Some isolated sequences bind to the affinity of the protein^[1].

Structure ligand

Herpes simplex virus-1 (HSV-1) US11, is a relatively small (~23 kDa), highly basic phosphoprotein that is expressed late in infection but is present at early times post-infection as it enters the cell as a component of the virion.-----From Wiki

UniProt ID: uniquely identifies protein sequences in the UniProt database, a resource for protein information.

Pfam: a widely recognised database of protein families and domains.

GenBank: maintained by NCBI(National Center for Biotechnology Information), is a database of nucleotide sequences from various organisms, vital for genetic and molecular biology research.

Mass: an intrinsic property of a body.

References