Purine 5’-phosphate

Fischer, B., Kabha, E., Gendron, F.-P., Beaudoin, A. R. Synthesis, mechanism and fluorescence properties of 8-(aryl)-3-P-D-ribofuranosylimidazo[2,1-i]purine 5 -phosphate derivatives. Nucleosides, Nucleotides Nucleic Acids 2000,19,1033-1054. 

Nucleoside Pyrophosphates. - The synthesis of 8-aryl-3-P-o-ribofuranosylimiazo[2,l-i]purine 5 -phosphates (122) from AMP or ATP has been described. To access these fluorescent nucleotide derivatives, a combination of Kornblum oxidation reaction and imidazole formation was employed. For this conversion, the appropriate adenosine phosphate, present in its free acid form, was treated with p-nitro-acetophenone in DMSO in the presence of DBU. Treatment of a 5-(chloroethyl)-4-(triazole-l-yl)pyrimidine-nucleoside with benzylhydrazine offered the 6,6-bicyclic pyrimido-pyradazin-7-one, the precursor to (123). This triphosphate was used as a substrate for DNA polymerases. ... 

P 4-nitrophenol + 6-chloro-9-(/l-D-ribofuranosyl)purine 5 -phosphate S 4-nitrophenyl phosphate -i- 7-methylguanosine <3> (Reversibility ... 

Radiolabeled 8-azido purine phosphates, reagents for membranes, heterobifunctional reagents... 

The C-S bond in purine derivatives undergoes cleavage under mild conditions by nucleophilic agents such as benzylmercaptan or glutathione in dimethylformamide with a phosphate buffer of pH 6.5 (277). The salt (110) of dithiazolylsulfide heated at 190 C yields the A-4-thiazo-line-2-thione (112) and 2-chlorothiazole (111) (Scheme 56) (278-280). 

Nucleic acids are acidic substances present m the nuclei of cells and were known long before anyone suspected they were the primary substances involved m the storage transmission and processing of genetic information There are two kinds of nucleic acids ribonucleic acid (RNA) and deoxyribonucleic acid (DNA) Both are complicated biopolymers based on three structural units a carbohydrate a phosphate ester linkage between carbohydrates and a heterocyclic aromatic compound The heterocyclic aro matic compounds are referred to as purine and pyrimidine bases We 11 begin with them and follow the structural thread... 

FIGURE 28 5 (a) Tube and (b) space filling models of a DNA double helix The carbohydrate-phosphate backbone is on the out side and can be roughly traced in (b) by the red oxygen atoms The blue atoms belong to the purine and pyrimidine bases and he on the inside The base pairing is more clearly seen in (a)... 

The primary stmcture of DNA is based on repeating nucleotide units, where each nucleotide is made up of the sugar, ie, 2 -deoxyribose, a phosphate, and a heterocycHc base, N. The most common DNA bases are the purines, adenine (A) and guanine (G), and the pyrimidines, thymine (T) and cytosine (C) (Fig. 1). The base, N, is bound at the I -position of the ribose unit through a heterocycHc nitrogen. 

Purine, 6-chloro-8-oxo-7,8-dihydro-synthesis, 5, 576 Purine, 6-chloro-9-phenyl-dipole moment, 5, 522 Purine, 6-chloro-9-(2-phenylethyl)-dipole moment, 5, 522 Purine, 6-chloro-9- -D-ribofuranosyl-5 -phosphate synthesis, 5, 595 synthesis, 5, 598... 

Section 28.8 The most common fonn of DNA is B-DNA, which exists as a right-handed double helix. The car bohydrate-phosphate backbone lies on the outside, the purine and pyrimidine bases on the inside. The double helix is stabilized by complementary hydrogen bonding (base pauing) between adenine (A) and thymine (T), and guanine (G) and cytosine (C). 

RNA is relatively resistant to the effects of dilute acid, but gentle treatment of DNA with 1 mM HCl leads to hydrolysis of purine glycosidic bonds and the loss of purine bases from the DNA. The glycosidic bonds between pyrimidine bases and 2 -deoxyribose are not affected, and, in this case, the polynucleotide s sugar-phosphate backbone remains intact. The purine-free polynucleotide product is called apurinic acid. 

Just as proteins are biopolymers made of amino acids, nucleic acids are biopolv-mers made of nucleotides joined together to form a long chain. Each nucleotide is composed of a nucleoside bonded to a phosphate group, and each nucleoside is composed of an aldopentose sugar linked through its anomeric carbon to the nitrogen atom of a heterocyclic purine or pyrimidine base. 

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. 

CpG stands for cytosine phosphate guanine dinucleotide in a particular sequence context. CpG motifs are responsible for proliferative effects of antisense oligonucleotides, particularly with respect to B-lymphocytes. Die optimal immune-stimulatory consensus sequence surrounding CpG is R1R2CGY1Y2, where R1 is a purine (mild preference for G), R2 is a purine or T (preference for A), and Y1 and Y2 are pyrimidines (preference for T). 

The DNA double heUx illustrates the contribution of multiple forces to the structure of biomolecules. While each individual DNA strand is held together by covalent bonds, the two strands of the helix are held together exclusively by noncovalent interactions. These noncovalent interactions include hydrogen bonds between nucleotide bases (Watson-Crick base pairing) and van der Waals interactions between the stacked purine and pyrimidine bases. The hehx presents the charged phosphate groups and polar ribose sugars of... 

Since biosynthesis of IMP consumes glycine, glutamine, tetrahydrofolate derivatives, aspartate, and ATP, it is advantageous to regulate purine biosynthesis. The major determinant of the rate of de novo purine nucleotide biosynthesis is the concentration of PRPP, whose pool size depends on its rates of synthesis, utilization, and degradation. The rate of PRPP synthesis depends on the availabihty of ribose 5-phosphate and on the activity of PRPP synthase, an enzyme sensitive to feedback inhibition by AMP, ADP, GMP, and GDP. 

Figure 34-2. Purine biosynthesis from ribose 5-phosphate and ATP. See text for explanations. ( , POj " or POj".)...

Figure 34-7 summarizes the roles of the intermediates and enzymes of pyrimidine nucleotide biosynthesis. The catalyst for the initial reaction is cytosolic carbamoyl phosphate synthase II, a different enzyme from the mitochondrial carbamoyl phosphate synthase I of urea synthesis (Figure 29-9). Compartmentation thus provides two independent pools of carbamoyl phosphate. PRPP, an early participant in purine nucleotide synthesis (Figure 34-2), is a much later participant in pyrimidine biosynthesis.

Figure 35-1. A segment of one strand of a DNA molecule in which the purine and pyrimidine bases guanine (G), cytosine (C), thymine (T), and adenine (A) are held together by a phosphodiester backbone between 2 -de-oxyribosyl moieties attached to the nucleobases by an W-glycosidic bond. Note that the backbone has a polarity (ie,a direction). Convention dictates that a single-stranded DNA sequence is written in the 5 to 3 direction (ie, pGpCpTpA, where G, C,T, and A represent the four bases and p represents the interconnecting phosphates).

In RNA, the sugar moiety to which the phosphates and purine and pyrimidine bases are attached is ribose rather than the 2 -deoxyribose of DNA. 

The association between RNase A and 3 -UMP or 3 -dUMP has been studied by P n.m.r. and kinetic methods, respectively. In both cases the participation of two dissociable groups at the active site of the enzyme was demonstrated, in agreement with n.m.r. and A -ray - studies on the binding of 3 -CMP to RNase. In the binding of Tj RNase to purine nucleotide monophosphates, the phosphate group appears to have an important effect while the ribose ring is relatively unimportant. ... 

---