Nucleic acids group

The dynamics of the hydration layer around a DNA molecule is extremely complicated, with effects from the confinement due to major and minor grooves, electric field effects from the negatively charged phosphate backbone and counterions, and the ability of the nucleic acid groups (G, C, A, T) to form rather strong HBs with water molecules, in addition to forming HBs among themselves. 

Nucleoproieins. The prosthetic group of the nucleoproteins is nucleic acid, often linked through salt linkages with protamines or histones. The nucleoproteins are present in the nuclei of all cells. Chromasomes are largely nucleoproteins and some plant viruses and bacteriophages have been shown to be pure nucleoproteins. See also histones. 

It is the parent substance of a group of compounds which includes cytosine, thymine and uracil, which are constituents of nucleic acids and barbituric acid and its derivatives, which are important medicinally. 

Residue name - one of the standard amino acids (lliree-letler abbreviations are used), nucleic acids (one- or two-lctter abbreviations), or the non-standard group designation as dc ncd in lire HHT dictionary 23-26 Residue sequence nuniber,... 

The AMBER (Assisted Model Building and Energy Refin emeni) is based on a force field developed for protein and nucleic acid computations by members of the Peter Kollman research group at the... 

OPTS (Optim i/.ed Potentials for Liquid Simulations) is based on a force field developed by the research group of Bill Jorgensen now at Yale University and previously at Purdue University. Like AMBER, the OPLS force field is designed for calculations on proteins an d nucleic acids. It in troduces non bonded in leraclion parameters that have been carefully developed from extensive Monte Carlo liquid sim u lation s of small molecules. These n on-bonded interactions have been added to the bonding interactions of AMBER to produce a new force field that is expected to be better than AMBER at describing simulations w here the solvent isexplic-... 

Trichloroethanol may be used analogously. The 2,2,2-trichloroethyl (Tee) group is best removed by reduction with copper-zinc alloy in DMF at 30 °C (F. Eckstein, nucleic acid synthesis see section 4.1.1. 

Chemists and biochemists And it convenient to divide the principal organic substances present m cells into four mam groups carbohydrates proteins nucleic acids and lipids Structural differences separate carbo hydrates from proteins and both of these are structurally distinct from nucleic acids Lipids on the other hand are characterized by a physical property their solubility m nonpolar solvents rather than by their structure In this chapter we have examined lipid molecules that share a common biosynthetic origin m that all their carbons are derived from acetic acid (acetate) The form m which acetate occurs m many of these processes is a thioester called acetyl coenzyme A... 

These relationships are general Hydroxyl substituted purines and pyrimidines exist in their keto forms ammo substituted ones retain structures with an ammo group on the ring The pyrimidine and punne bases m DNA and RNA listed m Table 28 1 follow this general rule Beginning m Section 28 7 we 11 see how critical it is that we know the cor rect tautomeric forms of the nucleic acid bases... 

Table 28 2 doesn t include all of the nucleoside components of nucleic acids The presence of methyl groups on pyrimidine and purine rings is a common and often important variation on the general theme... 

In this section we briefly consider the osmotic pressure of polymers which carry an electric charge in solution. These include synthetic polymers with ionizable functional groups such as -NH2 and -COOH, as well as biopolymers such as proteins and nucleic acids. In this discussion we shall restrict our consideration... 

DNA polymerase enzymes all synthesize DNA by adding deoxynucleotides to the free 3 -OH group of an RNA or DNA primer sequence. The identity of the inserted nucleotide is deterrnined by its abiHty to base-pair with the template nucleic acid. The dependence of synthesis on a primer oligonucleotide means that synthesis of DNA proceeds only in a 5%o V direction if only one primer is available, all newly synthesized DNA sequences begin at the same point. 

Nucleic Acids. Phosphoms is an essential component of nucleic acids, polymers consisting of chains of nucleosides, a sugar plus a nitrogenous base, and joined by phosphate groups (43,44). In ribonucleic acid (RNA), the sugar is D-ribose in deoxyribonucleic acids (DNA), the sugar is 2-deoxy-D-ribose. 

The first are competitors of PABA (p-aminobenzoic acid) and thus intermpt host de novo formation of the tetrahydrofoUc acid required for nucleic acid synthesis. Examples of dmgs that fall into this group are the sulfones and sulfonamides. The most weU-known of the sulfones is dapsone (70, 4,4 -diaminodiphenyl sulfone, DDS), whose toxicity has discouraged its use. Production of foHc acid, which consists of PABA, a pteridine unit, and glutamate, is disturbed by the substitution of a sulfonamide (stmcturally similar to PABA). The antimalarial sulfonamides include sulfadoxine (71, Fanasd [2447-57-6]) sulfadiazine (25), and sulfalene (72, sulfamethoxypyrazine [152-47-6] Kelfizina). Compounds of this group are rapidly absorbed but are cleared slowly. 

There are approximately 20 common naturally occurring amino acids, hence 20 different R groups that appear as pendents on the polyamide chain. Many other amino acids have been isolated or prepared, each representing a variation in R. The number of isomeric stmctures is myriad. Protein biosynthesis is mediated by other biopolymers, the nucleic acids. 

---