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17: Nucleic Acids: DNA and RNA

dna rna nucleotides homework help

❶The Method of Separation of Variables 2.

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Structure of DNA
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The four bases are adenine A , guanine G , cytosine C , and uracil U. The sugar found in the nucleotide subunits of DNA is deoxyribose, which differs slightly from the ribose found in the ribonucleotides of RNA. These numbers are based on which carbon atom is exposed at the end of the polymer, each of the carbon atoms being numbered around the sugar molecule. The function of an RNA molecule is determined by its nucleotide sequence, which represents information derived from DNA.

This nucleotide sequence is called the primary structure of the molecule. Many RNAs also have an important secondary structure, a three-dimensional shape that is also important for the function of the molecule. The secondary structure is determined by hydrogen bonding between parts of the RNA molecule that are complementary. Complementary pairing is always between A and U ribonucleotides and C and G ribonucleotides. Hydrogen bonding results in double-stranded regions in the secondary structure.

Since RNA is single-stranded, it was recognized shortly after the discovery of some of its major roles that its capacity for folding is great and that this folding might play an important part in the functioning of the molecule.

All transfer RNAs tRNAs , for example, are folded into a secondary structure that contains three stem loops and a fourth stem without a loop, a structure resembling a cloverleaf in two dimensions. Finally, local structural elements may interact with other elements in long-range interactions, causing more complicated folding of the molecule.

The full three-dimensional structure of a tRNA molecule from yeast was finally confirmed in by several groups independently, using X-ray diffraction. In this process, crystals of a molecule are bombarded with X-rays, which causes them to scatter; an expert can tell by the pattern of scattering how the different atoms in the molecule are oriented with respect to one another.

The cloverleaf arrangement of a tRNA undergoes further folding so that the entire molecule takes on a roughly L -shaped appearance in three dimensions.

An understanding of the three-dimensional shape of an RNA molecule is crucial to understanding its function. By the late s, the three-dimensional structures of many tRNAs had been worked out, but it had proven difficult to do X-ray diffraction analyses on most other RNAs because of technical problems. More advanced computer programs and alternate structure-determining techniques like mass spectroscopy, nuclear magnetic resonance and cryo electron microscopy are enabling research in this field to proceed, with the RNA structures catalogued online in the Nucleic Acid Database and Protein Data Bank.

RNA molecules of all types are continually being synthesized and degraded in a cell; even the longest-lasting ones exist for only a day or two. Shortly after the structure of DNA was established, it became clear that RNA was synthesized using a DNA molecule as a template, and the mechanism was worked out shortly thereafter. Only one strand of the DNA is used as a template the sense strand , and the ribonucleotides are initially arranged according to the base-pairing rules.

At the appropriate starting site, RNA polymerase begins to assemble and connect the nucleotides according to the complementary pairing rules, such that for every A nucleotide in the DNA, RNA polymerase incorporates a U ribonucleotide into the RNA being assembled. Much attention is rightfully focused on transcription, since it controls the rate of synthesis of each RNA.

It has become increasingly clear, however, that the amount of RNA in the cell at a given time is also strongly dependent on RNA stability the rate at which it is degraded. Every cell contains several enzymes called ribonucleases RNases whose job it is to cut up RNA molecules into their ribonucleotides subunits.

Some RNAs last only thirty seconds, while others may last up to a day or two. It is important to remember that both the rates of synthesis transcription and degradation ultimately determine the amount of functional RNA in a cell at any given time.

By the late s, three major classes of RNAs had been identified, and their respective roles in the process of protein synthesis had been identified. In general, protein synthesis refers to the assembly of a protein using information encoded in DNA, with RNA acting as an intermediary to carry information and assist in protein building.

Making up about 5 percent of the three RNA classes, in eukaryotes mRNA typically represents the information from a single gene and carries the information to a ribosome, the site of protein synthesis.

The information must be decoded to make a protein. Nucleotides are read in groups of three called codons. In addition, mRNAs contain signals that tell a ribosome where to start and stop translating. Four different rRNAs interact with many proteins to form functional ribosomes that direct the events of protein synthesis.

Another rRNA acts to facilitate the transfer of the growing polypeptide from one tRNA to another peptidyl transferase activity. There are at least twenty and usually more than forty different tRNAs in a cell.

On the other side, each contains an amino acid binding site, with the appropriate amino acid for its anticodon. In this way, tRNAs recognize the codons and supply the appropriate amino acids.

The process continues until an entire new polypeptide has been constructed. The attachment of the correct amino acids is facilitated by a group of enzymes called tRNA amino acyl synthetases. Each type of tRNA has a corresponding synthetase that facilitates the attachment of the correct amino acid to the amino acid binding site. The integrity of this process is crucial to translation; if only one tRNA is attached to an incorrect amino acid, the resulting proteins will likely be nonfunctional.

In bacterial genes, there is colinearity between the segment of a DNA molecule that is transcribed and the resulting mRNA. In other words, the mRNA sequence is complementary to its template and is the same length, as would be expected. In the late s, several groups of scientists made a seemingly bizarre discovery regarding mRNAs in eukaryotes organisms whose cells contain a nucleus, including all living things that are not bacteria: The coding regions of the corresponding DNA were interrupted by seemingly random sequences that served no apparent function.

This completely unexpected observation led to further investigations that revealed that mRNA is extensively processed, or modified, after its transcription in eukaryotes. In addition, spliceosomes rejoin the exons to produce a complete, functional mRNA. Splicing must be extremely specific, since a mistake causing the removal of even one extra nucleotide could change the final protein, making it nonfunctional. During splicing, capping and the addition of a poly-A tail take place.

The cap appears to function by interacting with the ribosome, helping to orient the mature mRNA so that translation begins at the proper end. This so-called poly-A tail, which virtually all eukaryotic mRNAs contain, seems to be one factor in determining the relative stability of an mRNA.

These important steps must be performed after transcription in eukaryotes to produce a functional mRNA. The traditional roles of RNA in protein synthesis were originally considered its only roles. This all began to change in , when the molecular biologists Thomas Cech and Sidney Altman, working independently and with different systems, reported the existence of RNA molecules that had catalytic activity.

This means that RNA molecules can function as enzymes; until this time, it was believed that all enzymes were protein molecules. Subsequently, many ribozymes have been found in various organisms, from bacteria to humans. Some of them are able to catalyze different types of reactions, and there are new ones reported every year.

Thus ribozymes are not a mere curiosity but play an integral role in the molecular machinery of many organisms. The Franck-Condon Principle Rotational Spectra of Polyatomic Molecules Normal Modes in Polyatomic Molecules Irreducible Representation of Point Groups Time-Dependent Perturbation Theory The Selection Rule for the Rigid Rotator The Harmonic Oscillator Selection Rule Group Theory Determines Infrared Activity Point an arow to the glycosidic bond.

What type of bond is this? How many different possible octonucleotide a chain of 8 nucleotides combinations are possible? Identify the monosaccharide and nitrogenous base to support your answer. What intermolecular forces enable it to hold together in this shape? How many H-bonds allow this structure to maintain its integrity and shape?

How many of these are located inside human cells? What enzymes are used to catalyze these steps? What does it do when a mistake is discovered? Rewrite the sequences as needed to correct the errors. In what steps is it involved? What portions of this shape are significant for its ability to perform its function? What is the advantage of multiple codons for a single amino acid?

For the given DNA sequence and its corresponding mRNA sequence, perform each indicated substitution and determine whether this one change will lead to a different dipeptide formation: Explain how ionizing radiation may cause genetic mutations in human and animal DNA, and may cause some forms of cancer. Circle the key difference that distinguishes between the two monosaccharides.

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RNA is also made of smaller molecules called nucleotides that is composed of phosphate, nitrogen bases and D-ribose pentose sugar. The bases present in RNA are adenine, guanine, cytosine and uracil. N-glycosidic bond connects nucleobase and D-ribose. Test and improve your knowledge of Nucleic Acids - DNA and RNA: Homework Help with fun multiple choice exams you can take online with