ArticleNucleic acids research2004
Rapid preparation of RNA samples for NMR spectroscopy and X-ray crystallography.
Article in Nucleic acids research, 2004. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.
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Who cites it
25 citing papers in PubMed, 66 citations in OpenAlex.
- UFold-X: an enhanced Dual & Dynamic U-Mamba model for long-range RNA secondary structure prediction.Nucleic acids research · 2026Article
- ERNIE-RNA: an RNA language model with structure-enhanced representations.Nature communications · 2025Article
- Enhanced RNA secondary structure prediction through integrative deep learning and structural context analysis.Nucleic acids research · 2025Article
- RNADiffFold: generative RNA secondary structure prediction using discrete diffusion models.Briefings in bioinformatics · 2024Article
- UFold: fast and accurate RNA secondary structure prediction with deep learning.Nucleic acids research · 2022Article
- Native RNA Purification Method for Small RNA Molecules Based on Asymmetrical Flow Field-Flow Fractionation.Pharmaceuticals (Basel, Switzerland) · 2022Article
- NMR characterization of RNA small molecule interactions.Methods (San Diego, Calif.) · 2019Review
- Isotope labeling for studying RNA by solid-state NMR spectroscopy.Journal of biomolecular NMR · 2018Review
- Understanding the Functions of Long Non-Coding RNAs through Their Higher-Order Structures.International journal of molecular sciences · 2016Review
- Preparation of Small RNAs Using Rolling Circle Transcription and Site-Specific RNA Disconnection.Molecular therapy. Nucleic acids · 2015Article
- Native purification and labeling of RNA for single molecule fluorescence studies.Methods in molecular biology (Clifton, N.J.) · 2015Article
- Binding of the 9-O-N-aryl/arylalkyl amino carbonyl methyl substituted berberine analogs to tRNA(phe.).PloS one · 2013Article
- RNAs synthesized using photocleavable biotinylated nucleotides have dramatically improved catalytic efficiency.Nucleic acids research · 2011Article
- The ARiBo tag: a reliable tool for affinity purification of RNAs under native conditions.Nucleic acids research · 2011Article
- Article
- Nondenaturing purification of co-transcriptionally folded RNA avoids common folding heterogeneity.PloS one · 2010Article
- A comparative taxonomy of parallel algorithms for RNA secondary structure prediction.Evolutionary bioinformatics online · 2010Article
- Isotope labeling strategies for NMR studies of RNA.Journal of biomolecular NMR · 2010Review
- A generic protocol for the expression and purification of recombinant RNA in Escherichia coli using a tRNA scaffold.Nature protocols · 2009Article
- Key labeling technologies to tackle sizeable problems in RNA structural biology.International journal of molecular sciences · 2008Article
Corrections and comments
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Authors and funding
5 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Knowledge of the three-dimensional structures of RNA and its complexes is important for understanding the molecular mechanism of RNA recognition by proteins or ligands. Enzymatic synthesis using T7 bacteriophage RNA polymerase is used to prepare samples for NMR spectroscopy and X-ray crystallography. However, this run-off transcription method results in heterogeneity at the RNA 3-terminus. For structural studies, RNA purification requires a single nucleotide resolution. Usually PAGE purification is used, but it is tedious, time-consuming and cost ineffective. To overcome these problems in high-throughput RNA synthesis, we devised a method of RNA preparation that uses trans-acting DNAzyme and sequence-specific affinity column chromatography. A tag sequence is added at the 3' end of RNA, and the tagged RNA is picked out using an affinity column that contains the complementary DNA sequence. The 3' end tag is then removed by sequence-specific cleavage using trans-acting DNAzyme, the arm lengths of which are optimized for turnover number. This purification method is simpler and faster than the conventional method.
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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.