Combinatorial chemistry can be used to synthesize polymers such as oligopeptides or oligonucleotides. The number of sequence possibilities for a polymer is given by \(x^{y}\), where \(x\) is the number of different monomer types (for example, 20 different amino acids in a protein or 4 different nucleotides in a nucleic acid) and \(y\) is the number of monomers in the oligomers. a. Calculate the number of sequence possibilities for RNA oligomers 15 nucleotides long. b. Calculate the number of amino acid sequence possibilities for pentapeptides.

Short Answer

Expert verified
The number of sequence possibilities for a 15-nucleotide RNA oligomer is \(4^{15}\) and for pentapeptides is \(20^{5}\).

Step by step solution

01

Identify the values for x and y for RNA oligomers

For RNA oligomers, there are 4 different nucleotides that can be used (adenine, cytosine, guanine, and uracil). So, \(x=4\). As given, the length of RNA oligomers is 15 nucleotides, so \(y=15\).
02

Calculate the number of sequence possibilities for RNA oligomers

Substitute \(x=4\) and \(y=15\) in the formula \(x^{y}\) to find the number of sequence possibilities. Therefore, the number sequence possibilities is \(4^{15}\).
03

Identify the values for x and y for pentapeptides

For pentapeptides, there are 20 different amino acids that can be used. So, \(x=20\). Given that they are pentapeptides, the length of the sequence is 5, so \(y=5\).
04

Calculate the number of amino acid sequence possibilities for pentapeptides

Substitute \(x=20\) and \(y=5\) in the formula \(x^{y}\) to calculate the number sequence possibilities, which gives \(20^{5}\).

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Key Concepts

These are the key concepts you need to understand to accurately answer the question.

Oligopeptide Synthesis
Oligopeptide synthesis is a fascinating process that combines simple building blocks known as amino acids to create complex molecules with a variety of functions in living organisms. These peptides are short chains typically composed of between 2 to 50 amino acids. Each amino acid is linked to its neighbor via a special bond called a peptide bond, forming a structure that can exert biological effects.

Understanding how pentapeptides are synthesized helps in grasping the vast potential of combinations they can form. The synthesis starts by attaching the first amino acid to a solid support, followed by sequential addition of amino acids in a prescribed order. This step-wise fashion is crucial as it allows the creation of specific peptide sequences that can have specific functions when used in medical applications such as drug development or as research tools in biochemistry.
Oligonucleotide Synthesis
The process by which short sequences of nucleic acids, known as oligonucleotides, are chemically synthesized is called oligonucleotide synthesis. This method allows researchers to create specific sequences of DNA or RNA that are instrumental in genetic testing, research, and even therapeutic agents.

Oligonucleotide synthesis begins with the solid-phase support on which the first nucleotide is anchored. Subsequent nucleotides are added one at a time in the order that dictates the final desired sequence. As in the previous example of RNA oligomers with 15 nucleotides, the variety of sequences that can be achieved through this method is enormous, which is fundamental in fields like genetics and molecular biology.
Polymer Sequence Possibilities
Polymer sequence possibilities refer to the vast number of unique ways a polymer chain can be arranged. This concept is critically important in understanding the diversity of biological polymers like proteins and nucleic acids. It's the reason why such a wide range of biological functions can be achieved by these macromolecules.

The formula for calculating the number of polymer sequence possibilities, expressed as \(x^{y}\) strong>, where \(x\) strong> is the number of monomers available and \(y\) strong> is the length of the polymer, provides a mathematical way to comprehend the immense diversity. For instance, a pentapeptide with 20 different amino acids at each position has \(20^{5}\) strong> possible sequences, showcasing the complexity and variability of these biological molecules.
Amino Acids
Amino acids are the foundational compounds that make up proteins, which are essential to virtually all biological processes. Proteins consist of one or more polypeptide chains, which themselves are formed by linking amino acids in a specific sequence. There are 20 different standard amino acids in biological proteins, and each has a characteristic side chain that influences its chemical properties and role in protein structure and function.

The variety of amino acids allows proteins to fold into intricate three-dimensional shapes, which determine their activity in the body, from enzymatic reactions to muscle contraction. The concept of sequence possibilities becomes clear when we realize that changing just one amino acid in a protein can drastically alter its function or cause disease.
Nucleotides
Nucleotides are the monomers of nucleic acids like DNA and RNA, each composed of a nitrogenous base, a sugar molecule and one or more phosphate groups. The four different nucleotides in RNA are adenine (A), cytosine (C), guanine (G), and uracil (U).

The order in which these nucleotides are arranged defines the genetic code—the instructions for synthesizing proteins within the cell. Just as changing a single amino acid in a protein can have significant effects, so too can changes in the nucleotide sequence lead to variations in the resulting proteins. This explains the importance of a meticulous approach in oligonucleotide synthesis, which directly influences the structure and function of gene products.

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Most popular questions from this chapter

Yeast (Saccharomyces cerevisiae) has a genome size of \(1.21 \times 10^{7}\) bp. If a genomic library of yeast DNA was constructed in a vector capable of carrying 16 -kbp inserts, how many individual clones would have to be screened to have a \(99 \%\) probability of finding a particular fragment?

Imagine that you are interested in a protein that interacts with proteins of the cytoskeleton in human epithelial cells. Describe an experimental protocol based on the yeast two-hybrid system that would allow you to identify proteins that might interact with your protein of interest.

Search the National Center for Biotechnology Information (NCBI) website at http://www. nchi.nlm. nih.gov/sites/entrez?db=Genome to discover the number of organisms whose genome sequences have been completed. Explore the rich depository of sequence information available here by selecting one organism from the list and browsing through the contents available.

A vector has a polylinker containing restriction sites in the following order: Hind III, SacI, XhoI, BglII, XbaI, and ClaI. a. Give a possible nucleotide sequence for the polylinker. b. The vector is digested with Hind III and ClaI. A DNA segment contains a Hind III restriction site fragment 650 bases upstream from a ClaI site. This DNA fragment is digested with Hind III and \(C l a I,\) and the resulting Hind III-ClaI fragment is directionally cloned into the Hind III-Clal-digested vector. Give the nucleotide sequence at each end of the vector and the insert and show that the insert can be cloned into the vector in only one orientation.

Describe an experimental protocol for the preparation of two cDNA libraries, one from anaerobically grown yeast cells and the second from aerobically grown yeast cells.

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