Chloroplast inorganic pyrophosphatase

An alkaline, Mg²⁺-dependent inorganic pyrophosphatase has been isolated from previously isolated spinach chloroplast. The activity of the enzyme was increased 100-fold, with a 42% yield, upon purification from the total soluble chloroplast enzymes. The pH optimum for the enzyme shifts from 9.0 at 5 mM Mg²⁺ to 7.0 at 40 mM Mg²⁺. The substrate for the reaction appears to be magnesium pyrophosphate, and anionic pyrophosphate is an effective inhibitor. There seems to be also an activating effect of Mg²⁺ on the enzyme at pH 7. No other cation substitutes for Mg²⁺ in activating the hydrolysis of pyrophosphate. Among anions tested, only F⁻ caused severe inhibition. The enzyme is inactive towards fructose 1,6-diphosphate, thiamine pyrophosphate, ATP, and ADP. The possibility that this enzyme is subject to metabolic regulation is discussed in relation to an indicated role of pyrophosphate in the regulation of photosynthetic carbon reduction.     

Evolutionary aspects of inorganic pyrophosphatase.

Based on the primary structure, soluble inorganic pyrophosphatases can be divided into two families which exhibit no sequence similarity to each other. Family I, comprising most of the known pyrophosphatase sequences, can be further divided into prokaryotic, plant and animal/fungal pyrophosphatases. Interestingly, plant pyrophosphatases bear a closer similarity to prokaryotic than to animal/fungal pyrophosphatases. Only 17 residues are conserved in all 37 pyrophosphatases of family I and remarkably, 15 of these residues are located at the active site. Subunit interface residues are conserved in animal/fungal but not in prokaryotic pyrophosphatases.     

Tyrosine-89 is important for enzymatic activity of S. cerevisiae inorganic pyrophosphatase.

7-Chloro-4-nitro-benzofurazan selectively modifies one PPase Tyr residue per subunit and lowers the enzyme activity. Hydrolysis of the modified protein by trypsin and then by chymotrypsin produces the 82-89 peptide which possesses modified Tyr-89. Substrate analog (CaPPi) and the product of the enzyme reaction, MgPi, protect the enzyme against inactivation. Ions of metal-activators (Mg2+, Zn2+) exert no influence on the inactivation rate. On the contrary, the Ca(2+)-inhibitor of the enzyme accelerates the reaction by binding to the high-affinity site, and effectively decreases it when Ca2+ binds to both sites. Mg2+ competes with Ca2+ for one binding site, which is the low affinity site for Mg2+ and the high-affinity site for Ca2+. The Ca2+ saturation of the high-affinity site decreases the pK2 of Tyr-89, probably due to direct coordination between Tyr and Ca2+. The observed properties of Tyr-89 modification enable us to propose that Tyr-89 serves as a proton donor for phosphate releasing during enzymatic hydrolysis of pyrophosphate. The Ca2+ inhibitory effect on the enzyme activity may be due to the existence of a Tyr-89 bond in the Ca2+ pyrophosphatase complex.     

The interaction of uranyl ions with inorganic pyrophosphatase from baker's yeast.

The interaction of uranyl ions with inorganic pyrophosphatase from baker's yeast was investigated by measurement of their effect on the protein fluorescence. Fluorescence titrations of the native enzyme with uranyl nitrate show that there is a specific binding of uranyl ions to the enzyme. It was deduced that each subunit of the enzyme binds one uranyl ion. The binding constant was estimated to be in the order of 10(7) M-1. The enzyme which contains a small number of chemically modified carboxyl groups was not able to bind uranyl ions specifically. The modification of carboxyl groups was carried out by use of a water soluble carbodiimide and the nucleophilic reagent N-(2,4-dinitro-phenyl)-hexamethylenediamine. The substrate analogue calcium pyrophosphate displaced the uranyl ions from their binding sites at the enzyme. From the results it is concluded that carboxyl groups of the active site are the ligands for the binding of uranyl ions.     

Affinity labeling of inorganic pyrophosphatase from yeast by methylphosphate

Yeast inorganic pyrophosphatase is specifically and irreversibly inactivated by methylphosphate. The high rate of inhibition, the protective effect of the substrate, the strict correlation between the degree of inhibition and the amount of the protein-bound reagent and the effect of saturation of the enzyme with methylphosphate provide evidence in favour of the reaction in the active center. Modification of two chemically identical enzyme subunits proceeds at different rates and results in a formation of phosphorylated subunits with different stability of the phosphate bond, which is indicative of the mutual effects of the pyrophosphatase subunits. The reaction between the modified enzyme and hydroxylamine suggests that the interaction between pyrophosphatase and methylphosphate entails modification of the carboxylic groups of two active centers, resulting in a formation of the acylphosphate bonds.     

Covalent structural analysis of yeast inorganic pyrophosphatase.

The present paper describes the amino acid sequence analysis of the internal and COOH-terminal cyanogen bromide fragments of yeast inorganic pyrophosphatase (Sterner, R., Noyes, C., and Heinrikson, R.L. (1974) Biochemistry 13, 91-99). This information coupled with that derived from earlier structural studies of the enzyme (Sterner, R., AND Heinrikson, R.L. (1975) Arch. Biochem. Biophys. 165, 693-703) provides the complete covalent structure of the pyrophosphatase subunit. The majority of the sequence data was derived from automated Edman degradation of the intact cyanogen bromide fragments and the large tryptic peptides obtained from citraconylated derivates in which cleavages were restricted to arginyl residues. The structural determination was completed by analysis of tryptic and chymotryptic peptides from the decitraconylated fragments. The monomer peptide chain contains 285 amino acid residues and the molecular weight calculated from the sequence analysis is 32,042.     

Aminoacyl-tRNA synthetase stimulatory factors and inorganic pyrophosphatase.

A protein was purified from rat liver which stimulated a number of liver aminoacyl-tRNA synthetases. This stimulatory factor was identical with the "tRNA activator" of Dickman & Boll [(1976) Biochemistry 15, 3925] in its mechanism of action and chemical properties, although it was considerably more purified. The two preparations stimulated synthetases by virtue of their pyrophosphatase activity which destroyed the potent inhibitor, PPi, that was present in the reaction mixtures. This PPi was either generated during the reaction or was introduced by contamination of the tRNA or ATP preparations. The degree of inhibition of PPi was strongly influenced by assay conditions, being most effective at low amino acid concentrations, at low pH, and in the presence of heterologous tRNAs. By use of certain assay conditions, PPi concentrations as low as 2 microM could inhibit some synthetases close to 50%. The pitfalls associated with some assay conditions commonly used for aminoacyl-tRNA synthetases are discussed. These studies raise questions about the physiological significance of many previously described aminoacyl-tRNA synthetase stimulatory factors.     

Properties of cotton inorganic pyrophosphatase

The activity of inorganic pyrophosphatase and pyrophosphate content were studied in developing and germinating cotton seeds. It was shown that the content of pyrophosphate in germinating seeds reached its maximum value after two days of their development, and the activity of inorganic pyrophosphatase, one day after the beginning of seed bud formation. The low pyrophosphatase activity of dormant seeds increased during their germination under open-ground conditions, reaching its maximum on day 6–7. Properties of partly purified pyrophosphatase from three-day-old cotton seedlings grown under laboratory conditions were studied.     

Soluble inorganic pyrophosphatase fromSchizophyllum commune

The specific activity of inorganic pyrophosphatase (EC 3.6.1.1) fromSchizophyllum commune correlated with the growth pattern so that actively dividing cells contained the highest enzyme activities. Continuous illumination which induce a certain series of morphogenetic events in the colony, exhibited no specific effects on the enzyme activity. There was no detectable activity in the absence of divalent cations. Mg²⁺ was required for maximum activity; Mn²⁺ and Co²⁺ supported 7.3 and 6.7 % of the activity observed with Mg²⁺, respectively. The results of kinetic experiments suggest that P₂O₇ ^4? is a strong inhibitor, whereas Mg₁P₂O₇ ^2? and Mg₂P₂O₇ are substrates, the latter being leas reactive than the former. The enzyme was inhibited by ATP, which competes with P₂O₇ ^4? for the chelation of Mg²⁺. Furthermore, 2,4,6-trinitrobenzenesulphonic acid and thiol inhibitors, N-ethylmaleimide and 4-hydroxymercuribenzoate, inhibited the enzyme, suggesting that lysine and cvsteine play essential roles in the enzyme activity.     

Properties of cotton inorganic pyrophosphatase

The activity of inorganic pyrophosphatase and pyrophosphate content were studied in developing and germinating cotton seeds. It was shown that the content of pyrophosphate in germinating seeds reached its maximum value after two days of their development, and the activity of inorganic pyrophosphatase, one day after the beginning of seed bud formation. The low pyrophosphatase activity of dormant seeds increased during their germination under open-ground conditions, reaching its maximum on day 6-7. Properties of partly purified pyrophosphatase from three-day-old cotton seedlings grown under laboratory conditions were studied.     

Yeast inorganic pyrophosphatase substrate recognition

Monodentate Co(NH₃)₅PP_i was determined not to be a substrate for yeast inorganic pyrophosphatase while P¹,P²-bidentate Co(NH₃)₄PP_i was turned over by the enzyme at a rate of 7.5 min^?1. A kinetic analysis of the substrate activities of the P¹,P²-bidentate complexes, Co(en)₂PP_i, Cr(NH₃)₄PP_i, Cr(H₂O)(NH₃)₃PP_i, Cr(H₂O)₂(NH₃)₂PP_i, and Cr(H₂O)₄PP_i was carried out in order to access the potential role of the metal-water ligands in productive binding. While substitution of the H₂O ligands with NH₃ ligands had a minimal affect on the K_m for Mg²⁺, the binding affinity of the complexes decreased with an increasing $\text{NH}{}_3\text{H}{}_2\text{O}$ ligand ratio as did the turnover number of the corresponding central complexes. The Co(en)₂PP_i complex was hydrolyzed at a rate approximately 0.6% of that for the Co(NH₃)₄PP_i complex. The substrate activities of β,γ-bidentate Co(NH₃)₄PPP_i and α,β,γ-tridentate Co(NH₃)₃PPP with pyrophosphatase were also tested. While both complexes were shown to bind tightly to the Mg²⁺-activated enzyme neither was hydrolyzed. On the other hand, in the presence of the Zn²⁺-activated enzyme the tridentate complex was turned over at a rate of 0.17 min^?1 while the bidentate complex remained inert to hydrolysis.     

Crystal structure of inorganic pyrophosphatase from Thermus thermophilus.

The 3-dimensional structure of inorganic pyrophosphatase from Thermus thermophilus (T-PPase) has been determined by X-ray diffraction at 2.0 A resolution and refined to R = 15.3%. The structure consists of an antiparallel closed beta-sheet and 2 alpha-helices and resembles that of the yeast enzyme in spite of the large difference in size (174 and 286 residues, respectively), little sequence similarity beyond the active center (about 20%), and different oligomeric organization (hexameric and dimeric, respectively). The similarity of the polypeptide folding in the 2 PPases provides a very strong argument in favor of an evolutionary relationship between the yeast and bacterial enzymes. The same Greek-key topology of the 5-stranded beta-barrel was found in the OB-fold proteins, the bacteriophage gene-5 DNA-binding protein, toxic-shock syndrome toxin-1, and the major cold-shock protein of Bacillus subtilis. Moreover, all known nucleotide-binding sites in these proteins are located on the same side of the beta-barrel as the active center in T-PPase. Analysis of the active center of T-PPase revealed 17 residues of potential functional importance, 16 of which are strictly conserved in all sequences of soluble PPases. Their possible role in the catalytic mechanism is discussed on the basis of the present crystal structure and with respect to site-directed mutagenesis studies on the Escherichia coli enzyme. The observed oligomeric organization of T-PPase allows us to suggest a possible mechanism for the allosteric regulation of hexameric PPases.     

Effects of divalent cations on thermophilic inorganic pyrophosphatase.

Divalent cations were shown to affect the structure and thermostability of thermophilic inorganic pyrophosphatase [pyrophosphate phosphohydrolase EC 3.6.1.1] purified from Bacillus stearothermophilus and thermophilic bacterium PS-3. The properties of the enzymes from the two sources were found to be very similar. The enzymes were very unstable to heart in the absence of divalent cations, being inactivated gradually even at 40 degrees C. However, they became stable to heat denaturation in the presence of Mg2+, between pH 7.8 and 9.0. Similar induced thermostability was detected when Mn2+, Co2+, Ca2+, Cd2+, and ZN2+ were added, though the latter three cations were not essential for enzyme activity. On adding divalent cations, the optical properties such as absorption spectra, fluorescence spectra, and circular dichroism (CD) were changed. Gel filtration and disc electrophoresis revealed that the molecular weight of both enzymes was 5.4 x 10(4) in Tris-SO4 buffer and 11 x 10(4) in Tris-HCL buffer, suggesting monomer-dimer transformation. In the presence of divalent cations in Tris-SO4 fuffer, the enzymes dimerized; this was confirmed by sedimentation velocity measurements. The enzymes in Tris-HCL buffer did not show thermostability unless divalent cations were added. The results in the present study indicate that binding of divalent cations to each enzyme caused some conformational change in the vicinity of aromatic amino acid residues leading to dimerization of the enzyme molecule so that it became thermostable. It was also suggested that histidyl residues play an important role in the thermostability induced by divalent cations on the basis of the pH dependencies of thermostability and CD spectra.     

The essential activated carboxyl group of inorganic pyrophosphatase.

1. A carboxyl group of high reactivity has been found in inorganic pyrophosphatase (pyrophosphate phosphohydrolase, EC 3.6.1.1) from yeast. This group interacts with agents which react neither with carboxyl groups of low molecular weight compounds nor with other carboxyl groups of the protein. 2. The reaction of this activated carboxyl group with inorganic phosphate, hydroxylamine, N-methyl- and O-methylhydroxylamines, and glycine methyl ester has been studied. 3. Homoserine and homoserine lactone were found in the hydrolyzate of phosphorylated and NaBH4-reduced pyrophosphatase, indicating that an aspartyl residue is phosphorylated. 4. Hydroxylamine and other nucleophilic agents cause inactivation of pyrophosphatase as a result of interaction with a carboxyl group. Both diaminobutyric and diaminopropionic acids were seen in the acid hydrolyzate of the protein treated with hydroxylamine and subjected to rearrangement in the presence of carbodiimide. 5. The ways in which the activation of a carboxyl group in the enzyme is achieved and the presumed mechanism of action of inorganic pyrophosphatase are discussed.     

Properties of inorganic pyrophosphatase of pig scapula cartilage.

The properties of a highly purified inorganic pyrophosphatase (pyrophosphate phosphohydrolase; EC 3.6.1.1) from pig scapula cartilage were studied. The enzyme had a molecular weight of 66 000 and a pH optimum of 7-8. It was markedly activated by magnesium, but not, or only to a much smaller degree, by other metal ions. PP1 was the only substrate found and had a Km value of 11 muM. The enzyme was not inhibited by phosphate and other inhibitors of alkaline phosphatase such as CN- minus, amino acids and theophylline; it was slightly inhibited by tartrate, formaldehyde and ammonium molybdate and strongly inhibited by F- minus, Ca2+ and other metal ions. The properties of the enzyme in the presence of concentrations of PP1 present in plasma (3.5 muM) were similar to those found at higher (2 mM) concentrations of PP1. The diphosphonates ethane-1-hydroxy-1,1-diphosphonate and dichloromethylenediphosphonate inhibited the enzyme in the presence of low PP1 concentrations. The characteristics of this enzyme are therefore similar to pyrophosphatases from other sources, such as from yeast and erythrocytes, and do not support a specific role of this enzyme in the calcification process.     

Cloning and expression profile of human inorganic pyrophosphatase.

We have cloned a 1.23 kb cDNA from a human heart library which encodes a 32 kDa protein that is 94% identical to bovine inorganic pyrophosphatase. The protein contains an aspartate-rich signature sequence that was previously identified in yeast and prokaryotic pyrophosphatases. Our clone detects a single band on Northern blots and is expressed at modest levels in all tissues examined. The cDNA shows linkage to markers on the long arm of chromosome 10.