Related Experiment Videos
Duplex unwinding and RNP remodeling with RNA helicases
Eckhard Jankowsky1, Margaret E Fairman
1Department of Biochemistry, Case Western Reserve University, Ohio, Cleveland, USA.
Methods in Molecular Biology (Clifton, N.J.)
|November 5, 2008
Summary
RNA helicases remodel RNA and ribonucleoproteins using ATP. This study details in vitro assays to measure RNA duplex unwinding and protein displacement by these essential enzymes.
Area of Science:
- Molecular Biology
- Biochemistry
- Genetics
Background:
- RNA helicases are crucial enzymes that utilize adenosine 5'-triphosphate (ATP) for RNA and ribonucleoprotein (RNP) remodeling.
- These enzymes play vital roles in various RNA metabolism processes.
Purpose of the Study:
- To describe novel in vitro assays for measuring RNA and RNP remodeling by RNA helicases.
- To provide a guide for preparing substrates and monitoring enzymatic activity.
Main Methods:
- Development of assays to assess RNA duplex unwinding.
- Establishment of methods to monitor protein displacement from RNA.
- Utilizing standard molecular biology techniques for substrate preparation and reaction monitoring.
Main Results:
- Demonstration of functional in vitro assays for RNA helicase activity.
- Successful monitoring of RNA duplex unwinding.
- Quantification of protein displacement from RNA by helicases.
Conclusions:
- The described assays provide a robust method for studying RNA helicase function in vitro.
- These techniques facilitate the biochemical characterization of RNA helicases and their roles in RNA metabolism.
Related Concept Videos
Restarting Stalled Replication Forks
DNA replication is initiated at sites containing predefined DNA sequences known as origins of replication. DNA is unwound at these sites by the minichromosome maintenance (MCM) helicase and other factors such as Cdc45 and the associated GINS complex.The unwound single strands are protected by replication protein A (RPA) until DNA polymerase starts synthesizing DNA at the 5’ end of the strand in the same direction as the replication fork. To prevent the replication fork from falling apart, a...
Homologous Recombination
The basic reaction of homologous recombination (HR) involves two chromatids that contain DNA sequences sharing a significant stretch of identity. One of these sequences uses a strand from another as a template to synthesize DNA in an enzyme-catalyzed reaction. The final product is a novel amalgamation of the two substrates. To ensure an accurate recombination of sequences, HR is restricted to the S and G2 phases of the cell cycle. At these stages, the DNA has been replicated already and the...
DNA Helicases
DNA unwinding helicase enzymes are a type of motor protein. Motor proteins can translocate along filaments or polymers using energy generated from ATP hydrolysis. Helicases are involved in all the important cellular processes where DNA unwinding is required, such as DNA replication, repair, recombination, and transcription. They are present in all living organisms, but vary in their structure, function, and mechanism of action. For example, in prokaryotes, DnaB helicase binds and translocates...
DNA Topoisomerases
Topoisomerases are enzymes that relax overwound DNA molecules during various cell processes, including DNA replication and transcription. These enzymes regulate positive and negative DNA supercoiling without changing the nucleotide sequence. DNA overwinding in a clockwise direction results in positively supercoiled DNA, whereas underwinding in a counterclockwise direction produces negatively supercoiled DNA.
Types and Mechanism of action
Topoisomerases are divided into two main types. Type I...
Types and Mechanism of action
Topoisomerases are divided into two main types. Type I...
Nucleosome Remodeling
Nucleosomes are the basic units of chromatin compaction. Each nucleosome consists of the DNA bound tightly around a histone core, which makes the DNA inaccessible to DNA binding proteins such as DNA polymerase and RNA polymerase. Hence, the fundamental problem is to ensure access to DNA when appropriate, despite the compact and protective chromatin structure.
Nucleosome remodeling complex
Eukaryotic cells have specialized enzymes called ATP-dependent nucleosome remodeling enzymes. These enzymes...
Nucleosome remodeling complex
Eukaryotic cells have specialized enzymes called ATP-dependent nucleosome remodeling enzymes. These enzymes...
Mismatch Repair
Organisms are capable of detecting and fixing nucleotide mismatches that occur during DNA replication. This sophisticated process requires identifying the new strand and replacing the erroneous bases with correct nucleotides. Mismatch repair is coordinated by many proteins in both prokaryotes and eukaryotes.
The Mutator Protein Family Plays a Key Role in DNA Mismatch Repair
The human genome has more than 3 billion base pairs of DNA per cell. Prior to cell division, that vast amount of genetic...
The Mutator Protein Family Plays a Key Role in DNA Mismatch Repair
The human genome has more than 3 billion base pairs of DNA per cell. Prior to cell division, that vast amount of genetic...