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Ribosomal RNA

life science Maturity 11-13 Next article →

Ribosomal RNA, or rRNA, is a critical molecule found in every living cell. It is a type of non-coding RNA, meaning it is never translated into proteins itself. Instead, rRNA serves as the primary structural and functional component of ribosomes. These ribosomes are the cellular machines responsible for protein synthesis. rRNA is the most abundant form of RNA in most cells, making up approximately 80% of all cellular RNA.

Ribosome structure including subunits and binding sites
Ribosome structure including subunits and binding sites

Because it can perform chemical work, rRNA is also classified as a ribozyme. This means the RNA itself acts as a catalyst to build proteins.

The process of creating a functional ribosome is highly organized. It begins when rRNA is transcribed from ribosomal DNA, known as rDNA. In eukaryotes, this assembly happens primarily in a structure called the nucleolus. This complex task requires all three types of RNA polymerases. Specifically, the transcription of pre-RNA by RNA polymerase I accounts for about 60% of the cell's total RNA transcription.

Ribosomal rRNA subunits
Ribosomal rRNA subunits

Once the pre-RNA is made, it must fold into a specific shape. This folding is helped by several enzymes, including RNA helicases and ATPases. After folding, the RNA undergoes processing to remove extra spacers. Finally, the rRNA binds with ribosomal proteins to form two distinct parts: the large subunit (LSU) and the small subunit (SSU).

These two subunits work together to facilitate the translation of genetic information. The rRNA acts as the mechanical factor that forces messenger RNA (mRNA) and transfer RNA (tRNA) to interact. Inside the ribosome, there are three specific binding sites: the A, P, and E sites. The A (aminoacyl) site holds a tRNA that is carrying a new amino acid. The P (peptidyl) site holds the tRNA that is attached to the growing protein chain.

010 small subunit-1FKA
010 small subunit-1FKA

The E (exit) site is where the used tRNA leaves the ribosome. A key part of this work is the peptidyl transferase center (PTC) located in the LSU. Interestingly, the PTC is made entirely of rRNA and contains no proteins. This confirms that the rRNA is the true engine of protein synthesis.

Ribosomes vary in structure depending on whether the organism is a prokaryote or a eukaryote. Prokaryotes, such as bacteria, have smaller ribosomes. Their subunits are called the 50S (large) and 30S (small) subunits. In these cells, the SSU contains one rRNA molecule of about 1,500 nucleotides. The LSU contains two rRNA molecules, one of which is about 3,000 nucleotides long. In contrast, eukaryotic ribosomes are larger and more complex. Human ribosomes have 60S and 40S subunits. The eukaryotic SSU contains an 18S rRNA of about 1,800 nucleotides. The LSU is much larger, containing three rRNA molecules, including one that is roughly 5,000 nucleotides long.

Ribosomal rRNA subunits
Ribosomal rRNA subunits

Scientists have used different models to understand these complex structures over time. For many years, the yeast cell was the traditional model for observing eukaryotic rRNA. However, this led to a lack of diversity in research. It was only within the last decade that new technology changed our perspective. The development of Cryo-EM, or cryo-electron microscopy, has allowed for much deeper investigation.

Process diagram final edited
Process diagram final edited

This technology enables researchers to see how ribosomes behave in many different types of eukaryotes. It has also helped identify unique features, such as expansion segments (ESs), which are specialized parts of the rRNA structure.

One of the most fascinating aspects of rRNA is its role in evolutionary biology. Because rRNA is found in all known forms of life, it is considered an ancient molecule. Its sequences are highly conserved, which means they change very little over millions of years. This stability occurs because the role of rRNA in making proteins is too important to change drastically. Consequently, scientists use rRNA sequences to study the relationships between different species. By calculating the similarity between nucleotide sequences, researchers can map out the tree of life.

Process diagram final edited
Process diagram final edited

The physical structure of rRNA is what allows it to interact with proteins. The sequences of rRNA often form stem-loop configurations through base-pairing. These loops create a three-dimensional shape that allows for tight interactions with ribosomal proteins. These proteins contain specific residues, such as basic residues like lysine and arginine, which help them bind to the rRNA backbone. This chemical attraction ensures that the subunits stay together. Without this precise structural arrangement, the ribosome could not accurately match mRNA codons with tRNA anticodons to build the proteins necessary for life.

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File:010 small subunit-1FKA.gif
010 small subunit-1FKA.gif
File:Ribosome structure including subunits and binding sites.png
Ribosome structure including subunits and...
File:Ribosomal rRNA subunits.jpg
Ribosomal rRNA subunits.jpg
File:RF00177.jpg
RF00177.jpg
File:Process diagram final edited.png
Process diagram final edited.png
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