Enediol Phosphate Research Articles

Uncovering the Role of Key Active-Site Side Chains in Catalysis: An Extended Brønsted Relationship for Substrate Deprotonation Catalyzed by Wild-Type and Variants of Triosephosphate Isomerase.

We report results of detailed empirical valence bond simulations that model the effect of several amino acid substitutions on the thermodynamic (ΔG°) and kinetic activation (ΔG⧧) barriers to deprotonation of dihydroxyacetone phosphate (DHAP) and d-glyceraldehyde 3-phosphate (GAP) bound to wild-type triosephosphate isomerase (TIM), as well as to the K12G, E97A, E97D, E97Q, K12G/E97A, I170A, L230A, I170A/L230A, and P166A variants of this enzyme. The EVB simulations model the observed effect of the P166A mutation on protein structure. The E97A, E97Q, and E97D mutations of the conserved E97 side chain result in ≤1.0 kcal mol–1 decreases in the activation barrier for substrate deprotonation. The agreement between experimental and computed activation barriers is within ±1 kcal mol–1, with a strong linear correlation between ΔG⧧ and ΔG° for all 11 variants, with slopes β = 0.73 (R2 = 0.994) and β = 0.74 (R2 = 0.995) for the deprotonation of DHAP and GAP, respectively. These Brønsted-type correlations show that the amino acid side chains examined in this study function to reduce the standard-state Gibbs free energy of reaction for deprotonation of the weak α-carbonyl carbon acid substrate to form the enediolate phosphate reaction intermediate. TIM utilizes the cationic side chain of K12 to provide direct electrostatic stabilization of the enolate oxyanion, and the nonpolar side chains of P166, I170, and L230 are utilized for the construction of an active-site cavity that provides optimal stabilization of the enediolate phosphate intermediate relative to the carbon acid substrate.

Enzyme architecture: the effect of replacement and deletion mutations of loop 6 on catalysis by triosephosphate isomerase.

Two mutations of the phosphodianion gripper loop in chicken muscle triosephosphate isomerase (cTIM) were examined: (1) the loop deletion mutant (LDM) formed by removal of residues 170–173 [Pompliano, D. L., et al. (1990) Biochemistry 29, 3186–3194] and (2) the loop 6 replacement mutant (L6RM), in which the N-terminal hinge sequence of TIM from eukaryotes, 166-PXW-168 (X = L or V), is replaced by the sequence from archaea, 166-PPE-168. The X-ray crystal structure of the L6RM shows a large displacement of the side chain of E168 from that for W168 in wild-type cTIM. Solution nuclear magnetic resonance data show that the L6RM results in significant chemical shift changes in loop 6 and surrounding regions, and that the binding of glycerol 3-phosphate (G3P) results in chemical shift changes for nuclei at the active site of the L6RM that are smaller than those of wild-type cTIM. Interactions with loop 6 of the L6RM stabilize the enediolate intermediate toward the elimination reaction catalyzed by the LDM. The LDM and L6RM result in 800000- and 23000-fold decreases, respectively, in kcat/Km for isomerization of GAP. Saturation of the LDM, but not the L6RM, by substrate and inhibitor phosphoglycolate is detected by steady-state kinetic analyses. We propose, on the basis of a comparison of X-ray crystal structures for wild-type TIM and the L6RM, that ligands bind weakly to the L6RM because a large fraction of the ligand binding energy is utilized to overcome destabilizing electrostatic interactions between the side chains of E168 and E129 that are predicted to develop in the loop-closed enzyme. Similar normalized yields of DHAP, d-DHAP, and d-GAP are formed in LDM- and L6RM-catalyzed reactions of GAP in D2O. The smaller normalized 12–13% yield of DHAP and d-DHAP observed for the mutant cTIM-catalyzed reactions compared with the 79% yield of these products for wild-type cTIM suggests that these mutations impair the transfer of a proton from O-2 to O-1 at the initial enediolate phosphate intermediate. No products are detected for the LDM-catalyzed isomerization reactions in D2O of [1-13C]GA and HPi, but the L6RM-catalyzed reaction in the presence of 0.020 M dianion gives a 2% yield of the isomerization product [2-13C,2-2H]GA.

Magnitude and Origin of the Enhanced Basicity of the Catalytic Glutamate of Triosephosphate Isomerase

Glu-167 of triosephosphate isomerase from Trypanosoma brucei brucei (TbbTIM) acts as the base to deprotonate substrate to form an enediolate phosphate trianion intermediate. We report that there is a large ~6 pK unit increase in the basicity of the carboxylate side chain of Glu-167 upon binding of the inhibitor phosphoglycolate trianion (I(3-)), an analog of the enediolate phosphate intermediate, from pKEH ≈ 4 for the protonated free enzyme EH to pK(EHI) ≈ 10 for the protonated enzyme-inhibitor complex EH•I(3-). We propose that there is a similar increase in the basicity of this side chain when the physiological substrates are deprotonated by TbbTIM to form an enediolate phosphate trianion intermediate and that it makes an important contribution to the enzymatic rate acceleration. The affinity of wildtype TbbTIM for I(3-) increases 20,000-fold upon decreasing the pH from 9.3 to 4.9, because TbbTIM exists mainly in the basic form E over this pH range, while the inhibitor binds specifically to the rare protonated enzyme EH. This reflects the large increase in the basicity of the carboxylate side chain of Glu-167 upon binding of I(3-) to EH to give EH•I(3-). The I172A mutation at TbbTIM results in an ~100-fold decrease in the affinity of TbbTIM for I(3-) at pH < 6 and an ~2 pK unit decrease in the basicity of the carboxylate side chain of Glu-167 at the EH•I(3-) complex, to pK(EHI) = 7.7. Therefore, the hydrophobic side chain of Ile-172 plays a critical role in effecting the large increase in the basicity of the catalytic base upon the binding of substrate and/or inhibitors.

Methylglyoxal, a Metabolite Derived from Glycolysis, Functions as a Signal Initiator of the High Osmolarity Glycerol-Mitogen-activated Protein Kinase Cascade and Calcineurin/Crz1-mediated Pathway in Saccharomyces cerevisiae

Methylglyoxal (MG) is a typical 2-oxoaldehyde derived from glycolysis, although it inhibits the growth of cells in all types of organism. Hence, it has been questioned why such a toxic metabolite is synthesized via the ubiquitous energy-generating pathway. We have previously reported that expression of GLO1, coding for the major enzyme detoxifying MG, was induced by osmotic stress in a high osmolarity glycerol (HOG)-mitogen-activated protein (MAP) kinase-dependent manner in Saccharomyces cerevisiae. Here we show that MG activates the HOG-MAP kinase cascade. Two osmosensors, Sln1 and Sho1, have been identified to function upstream of the HOG-MAP kinase cascade, and we reveal that MG initiates the signal transduction to this MAP kinase cascade through the Sln1 branch. We also demonstrate that MG activates the Msn2 transcription factor. Moreover, MG activated the uptake of Ca(2+) in yeast cells, thereby stimulating the calcineurin/Crz1-mediated Ca(2+) signaling pathway. We propose that MG functions as a signal initiator in yeast.

The intramolecular mechanism for the second proton transfer in triosephosphate isomerase (TIM): a QM/FE approach.

The intramolecular mechanism we earlier proposed [Alagona, G.; Desmeules, P.; Ghio, C.; Kollman, P. A. J Am Chem Soc 1984, 106, 3623] for the second proton transfer of the reaction catalyzed by triosephosphate isomerase (TIM) is examined ab initio at the HF and MP2/6-31+G** levels in vacuo for two conformers of the enediolate phosphate (ENEP), with the ethereal oxygen of the phosphate group either syn (X), as in the crystal structure, or anti (Y) with respect to the enediolate carbonyl O. The barrier height for the intramolecular proton transfer occurring in enediolate is very sensitive to electron correlation corrections. The MP2 internal energy barrier is much lower than the HF one, while the free energy (FE) barrier is even more favorable, indicating that the enzyme presence is not requested to speed up that step. An investigation of the dynamical aspects of the mechanism, along the pathway from ENEP A (with H on O(1)) to TS and from TS to ENEP B (with H on O(2)), was, however, carried out in the presence of the enzyme field while using a neutral His-95 with its proton on Ndelta. To perform the FE simulations, it was necessary to parametrize in the AMBER force-field the ENEP A, TS and B species, whose partial charges have been determined with the RESP procedure, with the X and Y arrangements of the phosphate head. Actually, the FE/QM approach produced a low barrier and a substantial balance between A and B, especially at the MP2 level. The trajectories, analyzed paying a particular attention to the positions assumed by His-95 and by the other active site residues, put forward somewhat different H-bond patterns around the X or Y enediolate phosphate.

The crystal structure of methylglyoxal synthase from Escherichia coli

The reaction mechanism of methylglyoxal synthase (MGS) is believed to be similar to that of triosephosphate isomerase (TIM). Both enzymes utilise dihydroxyacetone phosphate (DHAP) to form an enediol(ate) phosphate intermediate as the first step of their reaction pathways. However, the second catalytic step in the MGS reaction pathway is characterized by the elimination of phosphate and collapse of the enediol(ate) to form methylglyoxal instead of reprotonation to form the isomer glyceraldehyde 3-phosphate. The crystal structure of MGS bound to formate and substoichiometric amounts of phosphate in the space group P6522 has been determined at 1.9 A resolution. This structure shows that the enzyme is a homohexamer composed of interacting five-stranded beta/alpha proteins, rather than the hallmark alpha/beta barrel structure of TIM. The conserved residues His19, Asp71, and His98 in each of the three monomers in the asymmetric unit bind to a formate ion that is present in the crystallization conditions. Differences in the three monomers in the asymmetric unit are localized at the mouth of the active site and can be ascribed to the presence or absence of a bound phosphate ion. In agreement with site-directed mutagenesis and mechanistic enzymology, the structure suggests that Asp71 acts as the catalytic base. Further, Asp20 and Asp101 are involved in intersubunit salt bridges. These salt bridges may provide a pathway for transmitting allosteric information.

Five-Membered Cyclic Phosphorylating Reagents and Related Compounds

The conceptual and mechanistic basis, as well as a selection of typical results for five-membered cyclic phosphorylating reagents and related compounds are briefly discussed. The historical development from Westheimer's experiment to the so-called programmed phosphorylating reagents for the synthesis of naturally occurring phosphorylated compounds and the modern reagents and techniques for the synthesis of phospholipids, and also cyclic chiral derivatizing agents (CDA) are presented. 1. Introduction 2. The Westheimer Experiment 3. CAP- and CEP-Derivatives as Phosphorylating Reagents 4. Programmed Phosphorylating Reagents 5. Syntheses of Phospholipids via Cyclic Phosphorylating Reagents 5.1. Synthesis of Phospholipids via Cyclic Enediol Phosphates 5.2. Particular Advantages of Cyclic Reagents 5.2.1. Synthesis of Phosphatidyl Choline Derivatives via Dioxa-phospholanes 5.2.2. Synthesis of Phospholipids via Oxazaphospholidines 6. Miscellaneous 7. Conclusion

Kinetic parameters for the elimination reaction catalyzed by triosephosphate isomerase and an estimation of the reaction's physiological significance

Kinetic parameters for triosephosphate isomerase catalysis of the elimination reaction of an equilibrium mixture of dihydroxyacetone phosphate (DHAP) and D-glyceraldehyde-3-phosphate (DGAP) to form methylglyoxal and phosphate ion are reported for the enzyme from rabbit muscle. Pseudo-first-order rate constants for the disappearance of substrate (kelim) were determined for reactions at [Enzyme] much greater than [Substrate]. The second-order rate constant kEnz = 10.1 M-1 s-1 was determined from a plot of kelim against enzyme concentration. The kinetic parameters, determined from a steady-state kinetic analysis at [Substrate] much greater than [Enzyme], are kcat = 0.011 s-1, Km = 0.76 mM, and kcat/Km = 14 M-1 s-1. The estimated rate-constant ratio for partitioning of the enzyme-bound intermediate between protonation at carbon 2 and elimination, 1,000,000, is much larger than the ratio of 6.5 determined for the reaction of the enediolate phosphate in a loose complex with quinuclidinonium cation, a small buffer catalyst. There is a 10(5)-10(8)-fold decrease in the rate constant for the elimination reaction of the enediolate phosphate when this species binds to triosephosphate isomerase. The kinetic parameters for the elimination reaction catalyzed by the native triosephosphate isomerase and for the reaction catalyzed by a mutant form of the enzyme, which is missing a segment that forms hydrogen bonds with the phosphate group of substrate [Pompliano, D. L., Peyman, A., & Knowles, J. R. (1990) Biochemistry 29, 3186-3194] are similar.(ABSTRACT TRUNCATED AT 250 WORDS)

Stabilization of a reaction intermediate as a catalytic device: definition of the functional role of the flexible loop in triosephosphate isomerase

The function of the mobile loop of triosephosphate isomerase has been investigated by deleting four contiguous residues from the part of this loop that interacts directly with the bound substrate. From the crystal structure of the wild-type enzyme, it appears that this excision will not significantly alter the conformation of the rest of the main chain of the protein. The specific catalytic activity of the purified mutant enzyme is nearly 10(5)-fold lower than that of the wild type. Kinetic measurements and isotopic partitioning studies show that the decrease in activity is due to much higher activation barriers for the enolization of enzyme-bound substrate. Although the substrates bind somewhat more weakly to the mutant enzyme than to the wild type, the intermediate analogue phosphoglycolohydroxamate binds much less well (by 200-fold) to the mutant. It seems that the deleted residues of the loop contribute critically to the stabilization of the enediol phosphate intermediate. Consistent with this view, the mutant enzyme can no longer prevent the loss of the enediol phosphate from the active site and its rapid decomposition to methylglyoxal and inorganic phosphate. Indeed, when glyceraldehyde 3-phosphate is the substrate, the enediol phosphate intermediate is lost (and decomposes) 5.5 times faster than it reprotonates to form the product dihydroxyacetone phosphate.(ABSTRACT TRUNCATED AT 250 WORDS)

Bifunctional phosphoric acid–phosphine oxide extractants: synthesis and complexes with uranium-(IV) and -(VI) and iron(III)

A bifunctional extractant (HL) carrying phosphine oxide and phosphoric acid complexing centres has been synthesized by the cyclic enediol phosphate method, using a two-step reaction with dihexyl(hydroxymethyl)phosphine oxide and 2-ethylhexanol. The bifunctional complexant complexes both UIV and UVI. The complexation process, as shown by 31P n.m.r. spectroscopy, involves both the R3PO and (R′O)2PO2H centres (RC6H13, R′C8H17). The compound HL exists as hydrogen-bonded associates in the organic (hexane) phase. Involvement of anions in the complex structures is evident for UVI(NO3–), UIV(Cl–, NO3–, or HPO42–), and Fe(Cl– or SCN–).

O methyl-dihexyl-phosphine-oxide O'hexyl-2-ethyl phosphoric acid: A bifunctional extractant combining the properties of phosphine oxide and ester of phosphoric acid

Bifunctional chelating agents incorporating a phosphine oxide and phosphoric acid di-ester functionalities are proposed as logical alternatives to the well known synergistic extractant couples of di-2-ethylhexylphosphoric acid (D-2EHPA) and tri-octylphosphine oxide (TOPO), for the extraction of uranium from phosphoric acid. The molecules described are prepared by the cyclic enediol phosphate (CEP) method ∗. The extraction of uranium from varying concentrations of H 3PO 4, solutions by O methyl-dihexyl-phosphine oxide O' hexyl-2-ethylphosphoric acid ( 15) was studied and found superior to any synergistic extractant mixture combinations. Transition metal ions do not present difficulties, although they tend to enhance or lower the distribution factors for uranyl ions. Amongst the synthetic intermediates are O-alkoxymethyl ( 4), S-alkylmercaptomethyl ( 5), N-dialkylaminomethyl ( 6, alkyloligo-ethylene-oxide ( 7,8), phosphine oxides. Compounds 4 and 5, particularly, are able to substitute TOPO in the system D-2EHPA/TOPO.

Cyclic enediol phosphates: convenient intermediates to monomeric and polymeric metal extraction synergists

The cyclic enediol phosphate (CEP) method of Ramirez and Marecek was used to synthesize vinyl-type monomers carrying phosphoric acid esters (Scheme 1), and bifunctional monomers with a combination of phosphoric acid and dialkylphosphine oxide (Scheme 2). Furthermore, reacting CEP-Cl first with a polymeric alcohol (hydroxymethylated polysulfone) and then with dialkyl methylol phosphine oxide allows synthesis of bifunctional polymeric complexing agents incorporating phosphoric acid and phosphine oxide groups (Scheme 3). Such polymers are excellent film formers and also good complexing agents for uranyl ions.

Cyclic enediol phosphoranes obtained from the reaction of trimethyl phosphite with biacetyl and hexafluorobiacetyl give strikingly different acylation products

Cyclic enediol phosphoranes (2,2,2-trimethoxy-2,2-dihydro-l,3, 2-dioxaphospholenes), prepared from α-diketones, RCOCOR, and trimethyl phosphite (TMP), give strikingly different acylation products depending on the electronic properties of the groups, R, that occupy the 4,5-positions in the dioxaphospholene ring with pentacovalent phosphorus. Reaction of acetyl chloride or bromide with the hexafluorobiacetyl-TMP phosphorane gives exclusively the product of endo cyclic O-acylation, dimethyl(2-acetoxy- cis -1,2, - bis trifluoromethylvinyl) phosphate. Acylation of the biacetyl-TMP phosphorane gives mixtures of the product of exo cyclic O-acylation (a cyclic enediol phosphate) and the product of C-acylation (an α-hydroxy-β-diketone phosphate), the proportions depending on the structure of the acyl halide and the solvent. The parent 1,3,2-dioxaphospholene, i.e., the glyoxal-TMP phosphorane where R = H, gives exclusively the product of endo cyclic O-acylation with both acyl halides in all solvents.

Synthesis of Highly Reactive Cyclic Enediol Phosphates and Cyclic Acyl Phosphates by Direct Phosphorylating Ring Closure

A new route to the cyclic phosphates (3) with CC double bonds in the ring is opened up by the reaction of 1,2 bis(trimethylsiloxy)ethanes, such as (1), with the dihalophosphates (2). Highly reactive phosphorylating reagents of type (3) are of interest, above all, for nucleotide syntheses (R = Me).

Concentration of activated intermediates of the fructose-1,6-bisphosphate aldolase and triosephosphate isomerase reactions.

As discovered by Grazi & Trombetta [Grazi, E., & Trombetta, G. (1978) Biochem. J. 175, 361], fructose-1,6-bisphosphate aldolase of rabbit muscle causes the slow formation of inorganic phosphate (Pi) and methylglyoxal when incubated with dihydroxyacetone phosphate (DHAP). In addition, these authors found an acid-labile intermediate in equilibrium with the aldolase-dihydroxyacetone phosphate complexes representing approximately 60% of the enzyme-bound DHAP species. Experiments are reported here which argue that this acid-labile species is the enzyme-bound enamine phosphate or its equivalent that decomposes by beta elimination in acid. A similar mechanism involving an enediol phosphate is proposed to explain a phosphatase action of triosephosphate isomerase that produces methylglyoxal and Pi at the rate of approximately 0.1 s(-1) at pH 5.5. When DHAP with excess isomerase is quenched in strong acid, the formation of Pi indicates that approximately 5% of bound reactant is in the form of enediol phosphate. The remainder of the substrate is about equally distributed between bound forms of DHAP and D-glyceraldehyde 3-phosphate. This equilibrium differs by 300-fold from the appropriate equilibrium in solution. Yeast aldolase, contrary to expectation, does not catalyze formation of inorganic phosphate and methylglyoxal when incubated with DHAP and gives no evidence fro an enediol phosphate intermediate when quenched in acid.

Synthesis of lecithin analogs by means of cyclic enediol phosphates. Derivatives of 1-octadecanol and of cholesterol

Synthesis of lecithin analogs by means of cyclic enediol phosphates. Derivatives of 1-octadecanol and of cholesterol

Phosphorylation by means of cyclic enediol phosphates

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTPhosphorylation by means of cyclic enediol phosphatesFausto Ramirez and James F. MarecekCite this: Acc. Chem. Res. 1978, 11, 6, 239–245Publication Date (Print):June 1, 1978Publication History Published online1 May 2002Published inissue 1 June 1978https://doi.org/10.1021/ar50126a003RIGHTS & PERMISSIONSArticle Views119Altmetric-Citations17LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InReddit PDF (829 KB) Get e-Alerts Get e-Alerts

One-flask phosphorylative coupling of two alcohols by means of aryl cyclic enediol phosphates. Phenoxide ion catalysis of phosphorylations in aprotic solvents

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTOne-flask phosphorylative coupling of two alcohols by means of aryl cyclic enediol phosphates. Phenoxide ion catalysis of phosphorylations in aprotic solventsFausto Ramirez, James F. Marecek, Hikotada Tsuboi, and Hiroshi OkazakiCite this: J. Org. Chem. 1977, 42, 5, 771–778Publication Date (Print):March 1, 1977Publication History Published online1 May 2002Published inissue 1 March 1977https://doi.org/10.1021/jo00425a001RIGHTS & PERMISSIONSArticle Views107Altmetric-Citations10LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InReddit PDF (923 KB) Get e-Alerts Get e-Alerts