RNA and DNA enzymes

The viruses responsible for AIDS are human immunodeficiency virus 1 and 2 (HIV 1 and HIV 2) Both are retroviruses, meaning that their genetic material is RNA rather than DNA HI Vs require a host cell to reproduce and the hosts m humans are the T4 lymphocytes which are the cells primarily responsible for inducing the immune system to respond when provoked The HIV penetrates the cell wall of a T4 lymphocyte and deposits both its RNA and an enzyme called reverse transcriptase inside There the reverse transcriptase catalyzes the formation of a DNA strand that is complementary to the viral RNA The transcribed DNA then serves as the template from which the host lymphocyte produces copies of the virus which then leave the host to infect other T4 cells In the course of HIV reproduction the ability of the T4 lymphocyte to reproduce Itself IS compromised As the number of T4 cells decrease so does the body s ability to combat infections... 

The nucleic acids DNA (deoxyribonucleic acid) and RNA (ribonucleic acid) are biological polymers that act as chemical carriers of an organism s genetic information. Enzyme-catalyzed hydrolysis of nucleic acids yields nucleotides, the monomer units from which RNA and DNA are constructed. Further enzyme-catalyzed hydrolysis of the nucleotides yields nucleosides plus phosphate. Nucleosides, in turn, consist of a purine or pyrimidine base linked to Cl of an aldopentose sugar—ribose in RNA and 2-deoxyribose in DNA. The nucleotides are joined by phosphate links between the 5 phosphate of one nucleotide and the 3 hydroxyl on the sugar of another nucleotide. 

Methotrexate belongs to the class of antimetabolites. As a derivative of folic acid it inhibits the enzyme dihydrofolate reductase resulting in a decreased production of thymidine and purine bases essential for RNA and DNA synthesis. This interruption of the cellular metabolism and mitosis leads to cell death. 

In vivo azathioprine is rapidly converted into its active metabolite 6-mercaptopurine by the enzyme thiopurine methyltransferase (TPMT). The active agent inhibits IMPDH function. Furthermore, it also acts as antimetabolite of the RNA and DNA synthesis particularly in T-lymphocytes leading to cell death. Due to genetic polymorphism of TPMT, therapy may fail, thus it is currently discussed whether individual patients should be monitored before the use of azathioprine. 

Pyrimidine 5 -nucleotidase (P5N) is a unique enzyme that was recognized from studies of families with relatively common hemolytic disorders. The enzyme catalyzes the hydrolytic dephosphorylation of pyrimidine 5 -nucleotides but not purine nucleotides. The role of this enzyme is to eliminate RNA and DNA degradation products from the cytosol during erythroid maturation by conversion of nucleotide monophosphates to diffusible nucleosides. P5N is inhibited by lead, and its activity is considered to be a good indicator of lead exposure (PI). 

The nucleus contains a large number of proteins other than histones. These so-called nonhistone proteins may or may not be tightly associated with the chromosomes. For example, the nucleus contains enzymes associated with the synthesis of RNA and DNA these are nonhistone proteins, but they are not part of the structure of chromosomes. One group of nonhistone proteins are the high mobility group (HMG) proteins, named for their rapid movement on polyacryl-amide gel electrophoresis. The HMG proteins, but not histone HI, are associated with the chromatin that is most active in RNA synthesis. 

Not all the cellular DNA is in the nucleus some is found in the mitochondria. In addition, mitochondria contain RNA as well as several enzymes used for protein synthesis. Interestingly, mitochond-rial RNA and DNA bear a closer resemblance to the nucleic acid of bacterial cells than they do to animal cells. For example, the rather small DNA molecule of the mitochondrion is circular and does not form nucleosomes. Its information is contained in approximately 16,500 nucleotides that func-tion in the synthesis of two ribosomal and 22 transfer RNAs (tRNAs). In addition, mitochondrial DNA codes for the synthesis of 13 proteins, all components of the respiratory chain and the oxidative phosphorylation system. Still, mitochondrial DNA does not contain sufficient information for the synthesis of all mitochondrial proteins most are coded by nuclear genes. Most mitochondrial proteins are synthesized in the cytosol from nuclear-derived messenger RNAs (mRNAs) and then transported into the mito-chondria, where they contribute to both the structural and the functional elements of this organelle. Because mitochondria are inherited cytoplasmically, an individual does not necessarily receive mitochondrial nucleic acid equally from each parent. In fact, mito-chondria are inherited maternally. 

Nuclease PI is another trizinc enzyme which cleaves the phosphodiester bond in single-stranded RNA and DNA. Protein crystallography has revealed that the structure of the three zinc site is very similar to that... 

In common with the digestion of other macromolecules, nucleic acids are hydrolysed in a stepwise manner, by pancreatic nuclease (diesterase enzymes) which hydrolyse the bonds between two adjacent phosphate groups in RNA and DNA. The resultant oligoribonucleotides and oligode-oxy ribonucleotides are hydrolysed to form nucleoside monophosphates, which lose their phosphate to form nucleosides, by the action of pancreatic phosphatase. In brief, the process is ... 

The enzymes that synthesise RNA and DNA are known as nucleic acid polymerases. They are classified as nucleotidyl transferases (Chapter 3). The basic reaction can be represented as follows ... 

When a cell is infected with a virus, the latter utilises the metabolic machinery within the host cell to generate viral proteins, RNA and DNA to produce more virus particles which then escape to infect other cells. The process is stopped by death of the host cells so that generation of new viruses is halted. The major mechanism that results in death of the host cell is apoptosis. The cells that are responsible for the death of the infected cells are either cytotoxic lymphocytes or natural killer cells. Death is caused either by release of toxic biochemicals and/or proteolytic enzymes or by binding to a death receptor, which is present on many cells. The entry of proteolytic enzymes or binding to the death receptor results in activation of initiator caspases. These activate effector caspases that cause damage to the cell which results in death due to apoptosis (Chapter 17 Figures 17.28, 29 and 30). 

Thus, kinetic effects should always be taken into account in determining the consequences of the forces applied to nucleosomes by molecule motors, such as polymerases. Meaningful interpretations would also depend on knowledge of the length of molecules to which tension is applied. It may be of relevance to mention here that these forces are in the same range as the stall forces developed by RNA and DNA polymerases [62,63], the enzymes that encounter nucleosomes while reading the information in the DNA. This may mean that the polymerases are by themselves capable of removing the nucleosomes out of their way. 

In the case of 5-fluoro-deoxycytidine (FdC) an methylated adduct (Illb) is also formed, from which (again due to substitution of the a-proton by the fluorine) no liberation of the enzyme by elimination is possible [74], Zebularine is a riboside prodrug like azadtidine that is also incorporated in both RNA and DNA. It is somewhat different, though, as the covalent enzyme addud (Ib) is formed but methylation does not occur and is not necessary for inhibition. Although elimination of the enzyme should be possible, a stable intermediate is formed [35] (Figure 8.9). 

The covalent trapping of the enzyme leads to a depletion of the cellular pool of DNMTs and subsequent DNA hypomethylation. This in turn results in activation with respect to the reactivation of silenced genes. Additionally, the covalently trapped DNMT may inhibit RNA and DNA polymerases, which leads to an inhibition of protein biosynthesis and DNA strand breaks. This may lead to apoptosis and hence cytotoxicity. Thus, it is not easy to dissect the reasons for the clinical efficacy of these inhibitors in terms of real epigenetic and plain cytotoxic effects [81]. 

Ribavirin can inhibit the replication of both RNA and DNA viruses. It is a nucleoside analog which blocks guanosine monophosphate by inhibiting the enzyme inosine monodehydrogenase. Its main indication is severe respiratory syncytial virus infections in infants but it has also shown activity against influenza A and influenza B infections. It is administered by aerosol spray. No serious adverse effects occur when used as aerosol. 

The methyl transferases (MTs) catalyze the methyl conjugation of a number of small molecules, such as drugs, hormones, and neurotransmitters, but they are also responsible for the methylation of such macromolecules as proteins, RNA, and DNA. A representative reaction of this type is shown in Figure 4.1. Most of the MTs use S-adenosyl-L-methionine (SAM) as the methyl donor, and this compound is now being used as a dietary supplement for the treatment of various conditions. Methylations typically occur at oxygen, nitrogen, or sulfur atoms on a molecule. For example, catechol-O-methyltransferase (COMT) is responsible for the biotransformation of catecholamine neurotransmitters such as dopamine and norepinephrine. A-methylation is a well established pathway for the metabolism of neurotransmitters, such as conversion of norepinephrine to epinephrine and methylation of nicotinamide and histamine. Possibly the most clinically relevant example of MT activity involves 5-methylation by the enzyme thiopurine me thy Itransf erase (TPMT). Patients who are low or lacking in TPMT (i.e., are polymorphic) are at... 

Mechanism of Action An antiviral that inhibits HIV reverse transcriptase by viral DNA chain termination. Also inhibits RNA- and DNA-dependent DNA polymerase, an enzyme necessary for HIV replication. Therapeutic Effect Interrupts HIV replication, slowing the progression of HIV infection. 

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