Phenylalanine ammonia lyase

The literature concerning the physiology and biochemistry of the enzyme phenylalanine ammonia lyase (PAL) (E.C. 4.1.1.5) from different organisms has been reviewed. Levels of the enzyme are affected by age, light, phytochrome, wounding, infection and growth modifiers. The possibility that PAL is involved in the control of phenolic metabolism has been critically examined.     

Bacterial citrate lyase

Bacterial citrate lyase, the key enzyme in fermentation of citrate, has interesting structural features. The enzyme is a complex assembled from three non-identical subunits, two having distinct enzymatic activities and one functioning as an acyl-carrier protein. Bacterial citrate lyase,si-citrate synthase and ATP-citrate lyase have similar stereospecificities and show cofactor cross-reactions. On account of these common features, the citrate enzymes are promising markers in the study of evolutionary biology. The occurrence, function, regulation and structure of bacterial citrate lyase are reviewed in this article.     

Citramalate lyase of Clostridium tetanomorphum

Summary Assay methods and some properties of (+)-citramalate pyruvatelyase, an enzyme from Clostridium tetanomorphum that converts (+)-citramalate to pyruvate and acetate, are described. The enzyme is very active (0.8–1.2 units per mg protein) in freshly prepared extracts, but loses activity rapidly during storage. (+)-Citramalate is the only substrate found to be cleaved by the lyase; the equilibrium for the reaction permits almost complete cleavage at low substrate concentrations. A divalent cation is required as a cofactor. A sensitive and specific enzymic method for estimating (+)-citramalate is described.It is a pleasure to dedicate this paper to Prof. C. B. Van Niel who first awakened the interest of the author in the problems of bacterial metabolism and, more specifically, in the fermentation of glutamic acid.This work was supported in part by a research grant from the National Institutes of Health (AI-00563), U.S. Public Health Service, and by funds from the California Agricultural Experiment Station     

Endo-polygalacturonate lyase of Cytophaga johnsonii

Summary An extracellular endopolygalacturonate lyase of Cytophaga johnsonii was purified from the culture filtrate. It appeared to be homogeneous as judged by polyacrylamide gel electrophoresis at pH 8.6 as well as pH 4.3. The purified enzyme had a pH optimum around 9.0 and required Ca⁺⁺ ions for its maximum activity. The apparent K _mfor polygalacturonic acid was found to be 0.22%. Both paper and column chromatography indicated formation and accumulation of an unsaturated monomer along with unsaturated di-, tri-, tetra- and pentamers from polygalacturonic acid by the enzyme action, indicating that the enzyme cleaved the substrate randomly in a non-hydrolytic manner. The glycosidic linkage next to the non-reducing end of polygalacturonic acid was not resistant to attack by this enzyme unlike in other known polygalacturonate lyases.Abbreviations PG lyase Polygalacturonate lyase - Tris Tris (hydroxymethyl) aminomethane     

Pectin lyase of Penicillium paxilli

Summary A Penicillium paxilli strain afforded a depolymerase specific for high-methoxyl pectin: pectin lyase EC 4.2.2.10, capable of macerating potato and cucumber tissues.     

The hydroxynitrile lyase from almond: a lyase that looks like an oxidoreductase

BACKGROUND: Cyanogenesis is a defense process of several thousand plant species. Hydroxynitrile lyase, a key enzyme of this process, cleaves a cyanohydrin into hydrocyanic acid and the corresponding aldehyde or ketone. The reverse reaction constitutes an important tool in biocatalysis. Different classes of hydroxynitrile lyases have convergently evolved from FAD-dependent oxidoreductases, alpha/beta hydrolases, and alcohol dehydrogenases. The FAD-dependent hydroxynitrile lyases (FAD-HNLs) carry a flavin cofactor whose redox properties appear to be unimportant for catalysis. RESULTS: We have determined the crystal structure of a 61 kDa hydroxynitrile lyase isoenzyme from Prunus amygdalus (PaHNL1) to 1.5 A resolution. Clear electron density originating from four glycosylation sites could be observed. As concerns the overall protein fold including the FAD cofactor, PaHNL1 belongs to the family of GMC oxidoreductases. The active site for the HNL reaction is probably at a very similar position as the active sites in homologous oxidases. CONCLUSIONS: There is strong evidence from the structure and the reaction product that FAD-dependent hydroxynitrile lyases have evolved from an aryl alcohol oxidizing precursor. Since key residues implicated in oxidoreductase activity are also present in PaHNL1, it is not obvious why this enzyme shows no oxidase activity. Similarly, features proposed to be relevant for hydroxy-nitrile lyase activity in other hydroxynitrile lyases, i.e., a general base and a positive charge to stabilize the cyanide, are not obviously present in the putative active site of PaHNL1. Therefore, the reason for its HNL activity is far from being well understood at this point.     

Rhamnogalacturonan lyase reveals a unique three-domain modular structure for polysaccharide lyase family 4

Rhamnogalacturonan lyase (RG-lyase) specifically recognizes and cleaves alpha-1,4 glycosidic bonds between L-rhamnose and D-galacturonic acids in the backbone of rhamnogalacturonan-I, a major component of the plant cell wall polysaccharide, pectin. The three-dimensional structure of RG-lyase from Aspergillus aculeatus has been determined to 1.5 A resolution representing the first known structure from polysaccharide lyase family 4 and of an enzyme with this catalytic specificity. The 508-amino acid polypeptide displays a unique arrangement of three distinct modular domains. Each domain shows structural homology to non-catalytic domains from other carbohydrate active enzymes.     

Citrate lyase from Klebsiella pneumoniae. The complete primary structure of the acyl lyase subunit

The primary structure of the beta-subunit (acyl lyase subunit) of citrate lyase from Klebsiella pneumoniae (ATCC 13,882) was determined with protein chemical methods. The polypeptide chain consists of 289 amino acid residues and has a molecular mass of 31,352 Da. The two half-cystine residues of the subunit are present as cysteines and not involved in disulfide bridges. The sequence shows no homology to known sequences of proteins or nucleic acids and reads (sequence; see text)     

Microbial distribution of selenocysteine lyase.

We studied the distribution of selenocysteine lyase, a novel enzyme catalyzing the conversion of selenocysteine into alanine and H2Se, which we first demonstrated in various mammalian tissues (Esaki et al., J. Biol. Chem. 257:4386-4391, 1982). Enzyme activity was found in various bacteria such as Alcaligenes viscolactis and Pseudomonas alkanolytica. No significant activity was found in yeasts and fungi. Selenocysteine lyases from A. viscolactis and P. alkanolytica acted specifically on L-selenocysteine and required pyridoxal 5'-phosphate as a cofactor.     

Substrate specificity of cysteine lyase]

Substrate specificity is studied of cysteine lyase, a phosphopyridoxal-dependent enzyme belonging to the subgroup of beta-replacing lyases. This enzyme has a narrow specificity for the amino substrate; its only primary substrate is L-cysteine. Cysteine lyase has a broad specificity for the cosubstrate (replacing agent), catalysing the synthesis of L-cysteic acid from L-cysteine and sulfite ion or cystein thioesters (in the presence of some thiols). Enzyme is incapable to use alpha-phenyl- and alpha-methylcysteine as substrates. It is found that enzyme catalyses the exchange of alpha-H atoms of the aminoacid substrate cysteine with 3H2O. It does not catalyse alpha-hydrogenexchange in close structural analogues of substrate: L-alanine, D-serine, treonine, allo-threonine and 3-phosphoserine. L-Serine inhibited the synthesis of S-hydroxyethylcystein from cysteine and beta-mercaptoethanol (Ki of L-serine is 0,8-10(-2) M), participating at the first stage of reaction: the formation of a pyridoxylidenic derivative, which does not undergo the further alpha,beta-elimination of beta-replacement reactions.     

Phosphorylation of Acinetobacter isocitrate lyase.

During growth on succinate, Acinetobacter calcoaceticus contains two forms of the enzyme isocitrate dehydrogenase. Addition of acetate to a lag-phase culture grown on succinate causes a dramatic increase in activity of form II of isocitrate dehydrogenase and in isocitrate lyase. Form II of isocitrate dehydrogenase may be responsible for the partition of isocitrate between the TCA cycle and the glyoxylate by-pass. This report describes the phosphorylation of the enzyme isocitrate lyase from A. calcoaceticus. This phosphorylation may be a regulatory mechanism for the glyoxylate by-pass.