ArticleProceedings of the National Academy of Sciences of the United States of America2007
RNA aptamers directed to discrete functional sites on a single protein structural domain.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
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Who cites it
23 citing papers in PubMed, 59 citations in OpenAlex.
- An RNA aptamer to HP1/Swi6 facilitates heterochromatin formation at an ectopic locus in S.pombe.RNA biology · 2019Article
- Methods for Improving Aptamer Binding Affinity.Molecules (Basel, Switzerland) · 2016Review
- Fluorescence-Based Strategies to Investigate the Structure and Dynamics of Aptamer-Ligand Complexes.Frontiers in chemistry · 2016Review
- Identification of Sequence-Selective Tyrosine Kinase Deoxyribozymes.Journal of molecular evolution · 2015Article
- Array-based discovery of aptamer pairs.Analytical chemistry · 2015Article
- RAID3--An interleukin-6 receptor-binding aptamer with post-selective modification-resistant affinity.RNA biology · 2015Article
- Peptide aptamers: development and applications.Current topics in medicinal chemistry · 2015Review
- Inhibition of Rift Valley fever virus replication and perturbation of nucleocapsid-RNA interactions by suramin.Antimicrobial agents and chemotherapy · 2014Article
- Nucleic Acid Ligands With Protein-like Side Chains: Modified Aptamers and Their Use as Diagnostic and Therapeutic Agents.Molecular therapy. Nucleic acids · 2014Review
- New Technologies Provide Quantum Changes in the Scale, Speed, and Success of SELEX Methods and Aptamer Characterization.Molecular therapy. Nucleic acids · 2014Article
- Dynamic evolution and immunoreactivity of aptamers binding to polyclonal antibodies against MPT64 antigen of Mycobacterium tuberculosis.European journal of clinical microbiology & infectious diseases : official publication of the European Society of Clinical Microbiology · 2014Article
- Selection and characterization of a DNA aptamer that can discriminate between cJun/cJun and cJun/cFos.PloS one · 2014Article
- Combinatorial library of improved peptide aptamers, CLIPs to inhibit RAGE signal transduction in mammalian cells.PloS one · 2013Article
- Selection strategy to generate aptamer pairs that bind to distinct sites on protein targets.Analytical chemistry · 2012Article
- An RNA aptamer perturbs heat shock transcription factor activity in Drosophila melanogaster.Nucleic acids research · 2011Article
- An RNA-based transcription activator derived from an inhibitory aptamer.Nucleic acids research · 2010Article
- Commandeering a biological pathway using aptamer-derived molecular adaptors.Nucleic acids research · 2010Article
- In vivo selection of tumor-targeting RNA motifs.Nature chemical biology · 2010Article
- Characterization of RNA aptamers that disrupt the RUNX1-CBFbeta/DNA complex.Nucleic acids research · 2009Article
- TFIIB aptamers inhibit transcription by perturbing PIC formation at distinct stages.Nucleic acids research · 2008Article
Corrections and comments
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Authors and funding
4 authors at 2 institutions in 1 country.
Funding
Abstract
Cellular regulatory networks are organized such that many proteins have few interactions, whereas a few proteins have many. These densely connected protein "hubs" are critical for the system-wide behavior of cells, and the capability of selectively perturbing a subset of interactions at these hubs is invaluable in deciphering and manipulating regulatory mechanisms. SELEX-generated RNA aptamers are proving to be highly effective reagents for inhibiting targeted proteins, but conventional methods generate one or several aptamer clones that usually bind to a single target site most preferred by a nucleic acid ligand. We advance a generalized scheme for isolating aptamers to multiple sites on a target molecule by reducing the ability of the preferred site to select its cognate aptamer. We demonstrate the use of this scheme by generating aptamers directed to discrete functional surfaces of the yeast TATA-binding protein (TBP). Previously we selected "class 1" RNA aptamers that interfere with the TBP's binding to TATA-DNA. By masking TBP with TATA-DNA or an unamplifiable class 1 aptamer, we isolated a new aptamer class, "class 2," that can bind a TBP.DNA complex and is in competition with binding another general transcription factor, TFIIA. Moreover, we show that both of these aptamers inhibit RNA polymerase II-dependent transcription, but analysis of template-bound factors shows they do so in mechanistically distinct and unexpected ways that can be attributed to binding either the DNA or TFIIA recognition sites. These results should spur innovative approaches to modulating other highly connected regulatory proteins.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.