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1.
Nutrients ; 13(9)2021 Aug 24.
Article in English | MEDLINE | ID: mdl-34578801

ABSTRACT

Triple negative breast cancer (TNBC) is an aggressive and highly metastatic breast cancer subtype with limited treatment options. Obesity and insulin resistance are associated with a worse prognosis in those with TNBC. Moringa oleifera (moringa) is a tropical edible plant used for both food and medicinal purposes and found to have anti-obesity and anti-cancer effects in vitro and in preclinical models. The anti-cancer effects of moringa seed extract alone and in combination with chemotherapy were evaluated in immunocompromised female mice with diet-induced obesity bearing MDA-MB-231-derived xenograft tumors. Moringa supplementation protected against high-fat diet- and chemotherapy-induced increases in fasting glucose and improved insulin sensitivity. Moringa supplementation alone did not attenuate tumor growth relative to chemotherapy alone, and in combination worsened tumor progression. Moringa supplementation alone reduced angiogenesis, but this effect was abrogated in combination with chemotherapy. Moringa supplementation may be an effective strategy to improve metabolic health in mice with obesity and TNBC and reduce angiogenesis in tumors, but may have a negative interaction when used as a concurrent complementary therapy. Caution should be taken when considering the consumption of moringa seed extracts while receiving chemotherapy for breast cancer treatment. Further investigations of alternative timings of moringa therapy are warranted.


Subject(s)
Mammary Neoplasms, Experimental/drug therapy , Moringa oleifera/chemistry , Obesity/drug therapy , Plant Extracts/pharmacology , Triple Negative Breast Neoplasms/drug therapy , Animals , Antineoplastic Agents/adverse effects , Antineoplastic Agents/pharmacology , Cell Line, Tumor , Diet, High-Fat/adverse effects , Dietary Supplements , Disease Progression , Female , Humans , Insulin Resistance , Mammary Neoplasms, Experimental/metabolism , Mice , Obesity/metabolism , Seeds/chemistry , Triple Negative Breast Neoplasms/metabolism , Xenograft Model Antitumor Assays
2.
Biochem Biophys Res Commun ; 532(3): 370-376, 2020 11 12.
Article in English | MEDLINE | ID: mdl-32878705

ABSTRACT

During its intra-erythrocytic growth phase, the malaria parasite Plasmodium falciparum relies heavily on glycolysis for its energy requirements. Pyruvate kinase (PYK) is essential for regulating glycolytic flux and for ATP production, yet the allosteric mechanism of P. falciparum PYK (PfPYK) remains poorly understood. Here we report the first crystal structure of PfPYK in complex with substrate analogues oxalate and the ATP product. Comparisons of PfPYK structures in the active R-state and inactive T-state reveal a 'rock-and-lock' allosteric mechanism regulated by rigid-body rotations of each subunit in the tetramer. Kinetic data and structural analysis indicate glucose 6-phosphate is an activator by increasing the apparent maximal velocity of the enzyme. Intriguingly, the trypanosome drug suramin inhibits PfPYK, which points to glycolysis as a set of potential therapeutic targets against malaria.


Subject(s)
Plasmodium falciparum/enzymology , Protozoan Proteins/chemistry , Protozoan Proteins/metabolism , Pyruvate Kinase/chemistry , Pyruvate Kinase/metabolism , Allosteric Regulation , Amino Acid Sequence , Animals , Antimalarials/pharmacology , Catalytic Domain , Crystallography, X-Ray , Enzyme Activation , Enzyme Inhibitors/pharmacology , Glycolysis , Humans , Kinetics , Ligands , Malaria, Falciparum/parasitology , Models, Molecular , Plasmodium falciparum/genetics , Protein Conformation , Protozoan Proteins/genetics , Pyruvate Kinase/genetics , Suramin/pharmacology
3.
Nutrients ; 12(4)2020 Apr 20.
Article in English | MEDLINE | ID: mdl-32325958

ABSTRACT

Readability of infant formula preparation instructions is universally poor, which may result in inaccurate infant feeding. Given that inaccurate formula dispensing can lead to altered infant growth and increased adiposity, there is an increased need for easy to follow instructions for formula preparation. We hypothesize that altering infant formula instruction labels using feedback from iterative focus groups will improve the preparation accuracy of powdered infant formula in a randomized controlled trial. Participants were recruited from the community, 18 years of age or older, willing to disclose demographic information for focus group matching, and willing to participate freely in the first (n = 21) or second (n = 150) phase of the study. In the second phase, participants were randomized to use the standard manufacturer instructions or to use the modified instructions created in the first phase. Accuracy was defined as the percent error between manufacturer-intended powder formula quantity and the amount dispensed by the participant. Participants who were assigned to the modified instructions were able to dispense the powdered formula more accurately than participants who used the standard manufacturer instructions (-0.67 ± 0.76 vs. -4.66 ± 0.74% error; p < 0.0001). Accuracy in powdered formula dispensing was influenced by bottle size (p = 0.02) but not by body mass index (p = 0.17), education level (p = 0.75), income (p = 0.7), age (p = 0.89) or caregiver status (p = 0.18). Percent error of water measurement was not different between the groups (standard: -1.4 ± 0.6 vs. modified: 0.7 ± 0.6%; p = 0.38). Thus, caloric density was more accurate in the modified instructions group compared to the standard manufacturer instructions group (-0.3 ± 0.6 vs.-2.9 ± 0.9%; p = 0.03). Infant formula label modifications using focus group feedback increased infant formula preparation accuracy.


Subject(s)
Comprehension , Food Handling/methods , Food Handling/standards , Food Labeling , Infant Formula , Adult , Body Height , Body Mass Index , Body Weight , Caregivers , Double-Blind Method , Educational Status , Female , Food Packaging , Humans , Income , Male , Middle Aged , Powders , Young Adult
4.
J Mol Biol ; 431(19): 3690-3705, 2019 09 06.
Article in English | MEDLINE | ID: mdl-31381898

ABSTRACT

In response to the stress of infection, Mycobacterium tuberculosis (Mtb) reprograms its metabolism to accommodate nutrient and energetic demands in a changing environment. Pyruvate kinase (PYK) is an essential glycolytic enzyme in the phosphoenolpyruvate-pyruvate-oxaloacetate node that is a central switch point for carbon flux distribution. Here we show that the competitive binding of pentose monophosphate inhibitors or the activator glucose 6-phosphate (G6P) to MtbPYK tightly regulates the metabolic flux. Intriguingly, pentose monophosphates were found to share the same binding site with G6P. The determination of a crystal structure of MtbPYK with bound ribose 5-phosphate (R5P), combined with biochemical analyses and molecular dynamic simulations, revealed that the allosteric inhibitor pentose monophosphate increases PYK structural dynamics, weakens the structural network communication, and impairs substrate binding. G6P, on the other hand, primes and activates the tetramer by decreasing protein flexibility and strengthening allosteric coupling. Therefore, we propose that MtbPYK uses these differences in conformational dynamics to up- and down-regulate enzymic activity. Importantly, metabolome profiling in mycobacteria reveals a significant increase in the levels of pentose monophosphate during hypoxia, which provides insights into how PYK uses dynamics of the tetramer as a competitive allosteric mechanism to retard glycolysis and facilitate metabolic reprogramming toward the pentose-phosphate pathway for achieving redox balance and an anticipatory metabolic response in Mtb.


Subject(s)
Hypoxia/enzymology , Mycobacterium tuberculosis/enzymology , Pentose Phosphate Pathway , Pyruvate Kinase/metabolism , Allosteric Regulation/drug effects , Carbon/metabolism , Enzyme Stability/drug effects , Glucose-6-Phosphate/metabolism , Kinetics , Mycobacterium tuberculosis/drug effects , Pentose Phosphate Pathway/drug effects , Pentosephosphates/chemistry , Pentosephosphates/pharmacology , Protein Conformation , Protein Domains , Pyruvate Kinase/chemistry , Temperature
5.
Biochem J ; 475(10): 1821-1837, 2018 05 31.
Article in English | MEDLINE | ID: mdl-29748232

ABSTRACT

We have tested the effect of all 20 proteinogenic amino acids on the activity of the M2 isoenzyme of pyruvate kinase (M2PYK) and show that, within physiologically relevant concentrations, phenylalanine, alanine, tryptophan, methionine, valine, and proline act as inhibitors, while histidine and serine act as activators. Size exclusion chromatography has been used to show that all amino acids, whether activators or inhibitors, stabilise the tetrameric form of M2PYK. In the absence of amino-acid ligands an apparent tetramer-monomer dissociation Kd is estimated to be ∼0.9 µM with a slow dissociation rate (t1/2 ∼ 15 min). X-ray structures of M2PYK complexes with alanine, phenylalanine, and tryptophan show the M2PYK locked in an inactive T-state conformation, while activators lock the M2PYK tetramer in the active R-state conformation. Amino-acid binding in the allosteric pocket triggers rigid body rotations (11°) stabilising either T or R states. The opposing inhibitory and activating effects of the non-essential amino acids serine and alanine suggest that M2PYK could act as a rapid-response nutrient sensor to rebalance cellular metabolism. This competition at a single allosteric site between activators and inhibitors provides a novel regulatory mechanism by which M2PYK activity is finely tuned by the relative (but not absolute) concentrations of activator and inhibitor amino acids. Such 'allostatic' regulation may be important in metabolic reprogramming and influencing cell fate.


Subject(s)
Amino Acids/chemistry , Amino Acids/metabolism , Pyruvate Kinase/chemistry , Pyruvate Kinase/metabolism , Allosteric Regulation , Catalytic Domain , Cell Proliferation , Crystallography, X-Ray , Humans , Protein Conformation , Protein Multimerization
6.
Nat Commun ; 8(1): 1986, 2017 12 07.
Article in English | MEDLINE | ID: mdl-29215013

ABSTRACT

Pyruvate kinase (PYK) is an essential glycolytic enzyme that controls glycolytic flux and is critical for ATP production in all organisms, with tight regulation by multiple metabolites. Yet the allosteric mechanisms governing PYK activity in bacterial pathogens are poorly understood. Here we report biochemical, structural and metabolomic evidence that Mycobacterium tuberculosis (Mtb) PYK uses AMP and glucose-6-phosphate (G6P) as synergistic allosteric activators that function as a molecular "OR logic gate" to tightly regulate energy and glucose metabolism. G6P was found to bind to a previously unknown site adjacent to the canonical site for AMP. Kinetic data and structural network analysis further show that AMP and G6P work synergistically as allosteric activators. Importantly, metabolome profiling in the Mtb surrogate, Mycobacterium bovis BCG, reveals significant changes in AMP and G6P levels during nutrient deprivation, which provides insights into how a PYK OR gate would function during the stress of Mtb infection.


Subject(s)
Adenosine Monophosphate/metabolism , Glucose-6-Phosphate/metabolism , Glucose/metabolism , Mycobacterium tuberculosis/metabolism , Pyruvate Kinase/metabolism , Allosteric Regulation , Crystallography, X-Ray , Enzyme Assays , Kinetics , Metabolome , Metabolomics , Molecular Docking Simulation , Mycobacterium bovis/metabolism , Protein Domains , Pyruvate Kinase/chemistry
7.
J Mol Biol ; 429(20): 3075-3089, 2017 10 13.
Article in English | MEDLINE | ID: mdl-28882541

ABSTRACT

The gluconeogenic enzyme fructose-1,6-bisphosphatase has been proposed as a potential drug target against Leishmania parasites that cause up to 20,000-30,000 deaths annually. A comparison of three crystal structures of Leishmania major fructose-1,6-bisphosphatase (LmFBPase) along with enzyme kinetic data show how AMP acts as an allosteric inhibitor and provides insight into its metal-dependent reaction mechanism. The crystal structure of the apoenzyme form of LmFBPase is a homotetramer in which the dimer of dimers adopts a planar conformation with disordered "dynamic loops". The structure of LmFBPase, complexed with manganese and its catalytic product phosphate, shows the dynamic loops locked into the active sites. A third crystal structure of LmFBPase complexed with its allosteric inhibitor AMP shows an inactive form of the tetramer, in which the dimer pairs are rotated by 18° relative to each other. The three structures suggest an allosteric mechanism in which AMP binding triggers a rearrangement of hydrogen bonds across the large and small interfaces. Retraction of the "effector loop" required for AMP binding releases the side chain of His23 from the dimer-dimer interface. This is coupled with a flip of the side chain of Arg48 which ties down the key catalytic dynamic loop in a disengaged conformation and also locks the tetramer in an inactive rotated T-state. The structure of the effector site of LmFBPase shows different structural features compared with human FBPases, thereby offering a potential and species-specific drug target.


Subject(s)
Adenosine Monophosphate/metabolism , Fructose-Bisphosphatase/antagonists & inhibitors , Fructose-Bisphosphatase/chemistry , Leishmania major/enzymology , Allosteric Regulation , Coenzymes , Crystallography, X-Ray , Enzyme Inhibitors , Humans , Kinetics , Manganese/metabolism , Models, Molecular , Protein Binding , Protein Conformation , Protein Multimerization
8.
Biochem Biophys Res Commun ; 450(2): 936-41, 2014 Jul 25.
Article in English | MEDLINE | ID: mdl-24984149

ABSTRACT

Three structurally distinct forms of phosphoglycerate mutase from the trypanosomatid parasite Leishmania mexicana were isolated by standard procedures of bacterial expression and purification. Analytical size-exclusion chromatography coupled to a multi-angle scattering detector detected two monomeric forms of differing hydrodynamic radii, as well as a dimeric form. Structural comparisons of holoenzyme and apoenzyme trypanosomatid cofactor-independent phosphoglycerate mutase (iPGAM) X-ray crystal structures show a large conformational change between the open (apoenzyme) and closed (holoenzyme) forms accounting for the different monomer hydrodynamic radii. Until now iPGAM from trypanosomatids was considered to be only monomeric, but results presented here show the appearance of a dimeric form. Taken together, these observations are important for the choice of screening strategies to identify inhibitors of iPGAM for parasite chemotherapy and highlight the need to select the most biologically or functionally relevant form of the purified enzyme.


Subject(s)
Leishmania mexicana/enzymology , Phosphoglycerate Mutase/chemistry , Apoenzymes/chemistry , Chromatography, Gel , Chromatography, Ion Exchange , Crystallography, X-Ray , Holoenzymes/chemistry , Models, Molecular , Protein Conformation , Protein Multimerization , Substrate Specificity
9.
ACS Med Chem Lett ; 5(1): 12-7, 2014 Jan 09.
Article in English | MEDLINE | ID: mdl-24900769

ABSTRACT

Human African Trypanosomiasis (HAT) is a severe, often fatal disease caused by the parasitic protist Trypanosoma brucei. The glycolytic pathway has been identified as the sole mechanism for ATP generation in the infective stage of these organisms, and several glycolytic enzymes, phosphofructokinase (PFK) in particular, have shown promise as potential drug targets. Herein, we describe the discovery of ML251, a novel nanomolar inhibitor of T. brucei PFK, and the structure-activity relationships within the series.

10.
Biochem J ; 458(2): 301-11, 2014 Mar 01.
Article in English | MEDLINE | ID: mdl-24328825

ABSTRACT

The phosphotransfer mechanism of PYKs (pyruvate kinases) has been studied in detail, but the mechanism of the intrinsic decarboxylase reaction catalysed by PYKs is still unknown. 1H NMR was used in the present study to follow OAA (oxaloacetate) decarboxylation by trypanosomatid and human PYKs confirming that the decarboxylase activity is conserved across distantly related species. Crystal structures of TbPYK (Trypanosoma brucei PYK) complexed with the product of the decarboxylase reaction (pyruvate), and a series of substrate analogues (D-malate, 2-oxoglutarate and oxalate) show that the OAA analogues bind to the kinase active site with similar binding modes, confirming that both decarboxylase and kinase activities share a common site for substrate binding and catalysis. Decarboxylation of OAA as monitored by NMR for TbPYK has a relatively low turnover with values of 0.86 s-1 and 1.47 s-1 in the absence and presence of F26BP (fructose 2,6-bisphosphate) respectively. Human M1PYK (M1 isoform of PYK) has a measured turnover value of 0.50 s-1. The X-ray structures explain why the decarboxylation activity is specific for OAA and is not general for α-oxo acid analogues. Conservation of the decarboxylase reaction across divergent species is a consequence of piggybacking on the conserved kinase mechanism which requires a stabilized enol intermediate.


Subject(s)
Pyruvate Kinase/chemistry , Pyruvate Kinase/metabolism , Binding Sites/physiology , Catalysis , Conserved Sequence , Crystallography, X-Ray , Decarboxylation/physiology , Enzyme Activation/physiology , Humans , Protein Stability , Protein Structure, Secondary , Protein Structure, Tertiary , Trypanosoma brucei brucei/enzymology
11.
R Soc Open Sci ; 1(1): 140120, 2014 Sep.
Article in English | MEDLINE | ID: mdl-26064527

ABSTRACT

The transition between the inactive T-state (apoenzyme) and active R-state (effector bound enzyme) of Trypanosoma cruzi pyruvate kinase (PYK) is accompanied by a symmetrical 8° rigid body rocking motion of the A- and C-domain cores in each of the four subunits, coupled with the formation of additional salt bridges across two of the four subunit interfaces. These salt bridges provide increased tetramer stability correlated with an enhanced specificity constant (k cat/S 0.5). A detailed kinetic and structural comparison between the potential drug target PYKs from the pathogenic protists T. cruzi, T. brucei and Leishmania mexicana shows that their allosteric mechanism is conserved. By contrast, a structural comparison of trypanosomatid PYKs with the evolutionarily divergent PYKs of humans and of bacteria shows that they have adopted different allosteric strategies. The underlying principle in each case is to maximize (k cat/S 0.5) by stabilizing and rigidifying the tetramer in an active R-state conformation. However, bacterial and mammalian PYKs have evolved alternative ways of locking the tetramers together. In contrast to the divergent allosteric mechanisms, the PYK active sites are highly conserved across species. Selective disruption of the varied allosteric mechanisms may therefore provide a useful approach for the design of species-specific inhibitors.

12.
Acta Crystallogr D Biol Crystallogr ; 69(Pt 9): 1768-79, 2013 Sep.
Article in English | MEDLINE | ID: mdl-23999300

ABSTRACT

The active site of pyruvate kinase (PYK) is located between the AC core of the enzyme and a mobile lid corresponding to domain B. Many PYK structures have already been determined, but the first `effector-only' structure and the first with PEP (the true natural substrate) are now reported for the enzyme from Trypanosoma brucei. PEP soaked into crystals of the enzyme with bound allosteric activator fructose 2,6-bisphosphate (F26BP) and Mg(2+) triggers a substantial 23° rotation of the B domain `in crystallo', resulting in a partially closed active site. The interplay of side chains with Mg(2+) and PEP may explain the mechanism of the domain movement. Furthermore, it is apparent that when F26BP is present but PEP is absent Mg(2+) occupies a position that is distinct from the two canonical Mg(2+)-binding sites at the active site. This third site is adjacent to the active site and involves the same amino-acid side chains as in canonical site 1 but in altered orientations. Site 3 acts to sequester Mg(2+) in a `priming' position such that the enzyme is maintained in its R-state conformation. In this way, Mg(2+) cooperates with F26BP to ensure that the enzyme is in a conformation that has a high affinity for the substrate.


Subject(s)
Magnesium/chemistry , Pyruvate Kinase/metabolism , Rotation , Trypanosoma brucei brucei/enzymology , Crystallization , Crystallography, X-Ray , Fructosediphosphates/chemistry , Fructosediphosphates/metabolism , Magnesium/physiology , Protein Binding , Protein Structure, Tertiary , Pyruvate Kinase/isolation & purification , Substrate Specificity
13.
Proc Natl Acad Sci U S A ; 110(15): 5881-6, 2013 Apr 09.
Article in English | MEDLINE | ID: mdl-23530218

ABSTRACT

We show that the M2 isoform of pyruvate kinase (M2PYK) exists in equilibrium between monomers and tetramers regulated by allosteric binding of naturally occurring small-molecule metabolites. Phenylalanine stabilizes an inactive T-state tetrameric conformer and inhibits M2PYK with an IC50 value of 0.24 mM, whereas thyroid hormone (triiodo-L-thyronine, T3) stabilizes an inactive monomeric form of M2PYK with an IC50 of 78 nM. The allosteric activator fructose-1,6-bisphosphate [F16BP, AC50 (concentration that gives 50% activation) of 7 µM] shifts the equilibrium to the tetrameric active R-state, which has a similar activity to that of the constitutively fully active isoform M1PYK. Proliferation assays using HCT-116 cells showed that addition of inhibitors phenylalanine and T3 both increased cell proliferation, whereas addition of the activator F16BP reduced proliferation. F16BP abrogates the inhibitory effect of both phenylalanine and T3, highlighting a dominant role of M2PYK allosteric activation in the regulation of cancer proliferation. X-ray structures show constitutively fully active M1PYK and F16BP-bound M2PYK in an R-state conformation with a lysine at the dimer-interface acting as a peg in a hole, locking the active tetramer conformation. Binding of phenylalanine in an allosteric pocket induces a 13° rotation of the protomers, destroying the peg-in-hole R-state interface. This distinct T-state tetramer is stabilized by flipped out Trp/Arg side chains that stack across the dimer interface. X-ray structures and biophysical binding data of M2PYK complexes explain how, at a molecular level, fluctuations in concentrations of amino acids, thyroid hormone, and glucose metabolites switch M2PYK on and off to provide the cell with a nutrient sensing and growth signaling mechanism.


Subject(s)
Cell Proliferation , Pyruvate Kinase/metabolism , Allosteric Site , Amino Acid Sequence , Catalytic Domain , Cell Line, Tumor , Crystallography, X-Ray , Dimerization , Humans , Inhibitory Concentration 50 , Molecular Sequence Data , Phenylalanine/chemistry , Protein Conformation , Protein Structure, Tertiary , Triiodothyronine/chemistry
14.
Biochem J ; 448(1): 67-72, 2012 Nov 15.
Article in English | MEDLINE | ID: mdl-22906073

ABSTRACT

PYK (pyruvate kinase) plays a central role in the metabolism of many organisms and cell types, but the elucidation of the details of its function in a systems biology context has been hampered by the lack of specific high-affinity small-molecule inhibitors. High-throughput screening has been used to identify a family of saccharin derivatives which inhibit LmPYK (Leishmania mexicana PYK) activity in a time- (and dose-) dependent manner, a characteristic of irreversible inhibition. The crystal structure of DBS {4-[(1,1-dioxo-1,2-benzothiazol-3-yl)sulfanyl]benzoic acid} complexed with LmPYK shows that the saccharin moiety reacts with an active-site lysine residue (Lys335), forming a covalent bond and sterically hindering the binding of ADP/ATP. Mutation of the lysine residue to an arginine residue eliminated the effect of the inhibitor molecule, providing confirmation of the proposed inhibitor mechanism. This lysine residue is conserved in the active sites of the four human PYK isoenzymes, which were also found to be irreversibly inhibited by DBS. X-ray structures of PYK isoforms show structural differences at the DBS-binding pocket, and this covalent inhibitor of PYK provides a chemical scaffold for the design of new families of potentially isoform-specific irreversible inhibitors.


Subject(s)
Adenosine Diphosphate/metabolism , Adenosine Triphosphate/metabolism , Pyruvate Kinase/antagonists & inhibitors , Animals , Arginine/metabolism , Benzoates/pharmacology , Catalytic Domain/drug effects , Conserved Sequence , Crystallography, X-Ray , Enzyme Inhibitors/pharmacology , High-Throughput Screening Assays , Humans , Isoenzymes/antagonists & inhibitors , Isoenzymes/chemistry , Isoenzymes/metabolism , Leishmania mexicana/enzymology , Lysine/chemistry , Lysine/metabolism , Models, Molecular , Protein Binding/drug effects , Protein Conformation , Pyruvate Kinase/chemistry , Pyruvate Kinase/metabolism , Recombinant Proteins/metabolism , Saccharin/analogs & derivatives , Saccharin/pharmacology , Species Specificity , Structure-Activity Relationship , Suramin/pharmacology
15.
Metallomics ; 3(12): 1310-7, 2011 Dec.
Article in English | MEDLINE | ID: mdl-21993954

ABSTRACT

Production of ATP by the glycolytic pathway in the mammalian pathogenic stage of protists from the genus Trypanosoma is required for the survival of the parasites. Cofactor-independent phosphoglycerate mutase (iPGAM) is particularly attractive as a drug target because it shows no similarity to the corresponding enzyme in humans, and has also been genetically validated as a target by RNAi experiments. It has previously been shown that trypanosomatid iPGAMs require Co(2+) to reach maximal activity, but the biologically relevant metal has remained unclear. In this paper the metal content in the cytosol of procyclic and bloodstream-form T. brucei (analysed by inductively coupled plasma-optical emission spectroscopy) shows that Mg(2+), Zn(2+) and Fe(2+) were the most abundant, whereas Co(2+) was below the limit of detection (<0.035 µM). The low concentration indicates that Co(2+) is unlikely to be the biologically relevant metal, but that instead, Mg(2+) and/or Zn(2+) may assume this role. Results from metal analysis of purified Leishmania mexicana iPGAM by inductively coupled plasma-mass spectrometry also show high concentrations of Mg(2+) and Zn(2+), and are consistent with this proposal. Our data suggest that in vivo cellular conditions lacking Co(2+) are unable to support the maximal activity of iPGAM, but instead maintain its activity at a relatively low level by using Mg(2+) and/or Zn(2+). The physiological significance of these observations is being pursued by structural, biochemical and biophysical studies.


Subject(s)
Cobalt/metabolism , Phosphoglycerate Mutase/chemistry , Phosphoglycerate Mutase/metabolism , Trypanosoma brucei brucei/enzymology , Cobalt/analysis , Cytosol/enzymology , Iron/analysis , Iron/metabolism , Magnesium/analysis , Magnesium/metabolism , Mass Spectrometry , Models, Molecular , Phosphoglycerate Mutase/isolation & purification , Trypanosoma brucei brucei/chemistry , Zinc/analysis , Zinc/metabolism
16.
J Biol Chem ; 286(36): 31232-40, 2011 Sep 09.
Article in English | MEDLINE | ID: mdl-21733839

ABSTRACT

Ehrlich's pioneering chemotherapeutic experiments published in 1904 (Ehrlich, P., and Shiga, K. (1904) Berlin Klin. Wochenschrift 20, 329-362) described the efficacy of a series of dye molecules including trypan blue and trypan red to eliminate trypanosome infections in mice. The molecular structures of the dyes provided a starting point for the synthesis of suramin, which was developed and used as a trypanocidal drug in 1916 and is still in clinical use. Despite the biological importance of these dye-like molecules, the mode of action on trypanosomes has remained elusive. Here we present crystal structures of suramin and three related dyes in complex with pyruvate kinases from Leishmania mexicana or from Trypanosoma cruzi. The phenyl sulfonate groups of all four molecules (suramin, Ponceau S, acid blue 80, and benzothiazole-2,5-disulfonic acid) bind in the position of ADP/ATP at the active sites of the pyruvate kinases (PYKs). The binding positions in the two different trypanosomatid PYKs are nearly identical. We show that suramin competitively inhibits PYKs from humans (muscle, tumor, and liver isoenzymes, K(i) = 1.1-17 µM), T. cruzi (K(i) = 108 µM), and L. mexicana (K(i) = 116 µM), all of which have similar active sites. Synergistic effects were observed when examining suramin inhibition in the presence of an allosteric effector molecule, whereby IC(50) values decreased up to 2-fold for both trypanosomatid and human PYKs. These kinetic and structural analyses provide insight into the promiscuous inhibition observed for suramin and into the mode of action of the dye-like molecules used in Ehrlich's original experiments.


Subject(s)
Adenosine/metabolism , Pyruvate Kinase/antagonists & inhibitors , Suramin/pharmacology , Trypan Blue/pharmacology , Trypanocidal Agents/pharmacology , Animals , Binding Sites , Binding, Competitive , Humans , Inhibitory Concentration 50 , Kinetics , Leishmania mexicana/enzymology , Mice , Protein Binding , Protein Kinase Inhibitors/pharmacology , Protein Kinase Inhibitors/therapeutic use , Trypan Blue/analogs & derivatives , Trypanosoma cruzi/enzymology
17.
Article in English | MEDLINE | ID: mdl-20208146

ABSTRACT

The inclusion of novel small molecules in crystallization experiments has provided very encouraging results and this method is now emerging as a promising alternative strategy for crystallizing 'problematic' biological macromolecules. These small molecules have the ability to promote lattice formation through stabilizing intermolecular interactions in protein crystals. Here, the use of 1,3,6,8-pyrenetetrasulfonic acid (PTS), which provides a helpful intermolecular bridge between Leishmania mexicana PYK (LmPYK) macromolecules in the crystal, is reported, resulting in the rapid formation of a more stable crystal lattice at neutral pH and greatly improved X-ray diffraction results. The refined structure of the LmPYK-PTS complex revealed the negatively charged PTS molecule to be stacked between positively charged (surface-exposed) arginine side chains from neighbouring LmPYK molecules in the crystal lattice.


Subject(s)
Leishmania mexicana/enzymology , Pyruvate Kinase/chemistry , Crystallography, X-Ray , Models, Molecular , Protein Structure, Quaternary , Pyruvate Kinase/metabolism , Substrate Specificity , Sulfonic Acids/chemistry , Sulfonic Acids/metabolism
18.
J Biol Chem ; 285(17): 12892-8, 2010 Apr 23.
Article in English | MEDLINE | ID: mdl-20123988

ABSTRACT

Allosteric regulation provides a rate management system for enzymes involved in many cellular processes. Ligand-controlled regulation is easily recognizable, but the underlying molecular mechanisms have remained elusive. We have obtained the first complete series of allosteric structures, in all possible ligated states, for the tetrameric enzyme, pyruvate kinase, from Leishmania mexicana. The transition between inactive T-state and active R-state is accompanied by a simple symmetrical 6 degrees rigid body rocking motion of the A- and C-domain cores in each of the four subunits. However, formation of the R-state in this way is only part of the mechanism; eight essential salt bridge locks that form across the C-C interface provide tetramer rigidity with a coupled 7-fold increase in rate. The results presented here illustrate how conformational changes coupled with effector binding correlate with loss of flexibility and increase in thermal stability providing a general mechanism for allosteric control.


Subject(s)
Leishmania mexicana/enzymology , Models, Chemical , Models, Molecular , Protozoan Proteins/chemistry , Pyruvate Kinase/chemistry , Allosteric Regulation/physiology , Animals , Protein Structure, Tertiary , Protozoan Proteins/metabolism , Pyruvate Kinase/metabolism
19.
J Mol Biol ; 394(3): 535-43, 2009 Dec 04.
Article in English | MEDLINE | ID: mdl-19781556

ABSTRACT

The structures of Leishmania mexicana cofactor-independent phosphoglycerate mutase (Lm iPGAM) crystallised with the substrate 3-phosphoglycerate at high and low cobalt concentrations have been solved at 2.00- and 1.90-A resolutions. Both structures are very similar and the active site contains both 3-phosphoglycerate and 2-phosphoglycerate at equal occupancies (50%). Lm iPGAM co-crystallised with the product 2-phosphoglycerate yields the same structure. Two Co(2+) are coordinated within the active site with different geometries and affinities. The cobalt at the M1 site has a distorted octahedral geometry and is present at 100% occupancy. The M2-site Co(2+) binds with distorted tetrahedral geometry, with only partial occupancy, and coordinates with Ser75, the residue involved in phosphotransfer. When the M2 site is occupied, the side chain of Ser75 adopts a position that is unfavourable for catalysis, indicating that this site may not be occupied under physiological conditions and that catalysis may occur via a one-metal mechanism. The geometry of the M2 site suggests that it is possible for Ser75 to be activated for phosphotransfer by H-bonding to nearby residues rather than by metal coordination. The 16 active-site residues of Lm iPGAM are conserved in the Mn-dependent iPGAM from Bacillus stearothermophilus (33% overall sequence identity). However, Lm iPGAM has an inserted tyrosine (Tyr210) that causes the M2 site to diminish in size, consistent with its reduced metal affinity. Tyr210 is present in trypanosomatid and plant iPGAMs, but not in the enzymes from other organisms, indicating that there are two subclasses of iPGAMs.


Subject(s)
Leishmania mexicana/enzymology , Phosphoglycerate Mutase/chemistry , Protozoan Proteins/chemistry , Amino Acid Sequence , Catalytic Domain/genetics , Cobalt/metabolism , Conserved Sequence , Crystallography, X-Ray , Geobacillus stearothermophilus/enzymology , Geobacillus stearothermophilus/genetics , Hydrogen Bonding , Kinetics , Leishmania mexicana/genetics , Models, Molecular , Molecular Sequence Data , Phosphoglycerate Mutase/classification , Phosphoglycerate Mutase/genetics , Phosphoglycerate Mutase/metabolism , Protein Conformation , Protozoan Proteins/classification , Protozoan Proteins/genetics , Protozoan Proteins/metabolism , Recombinant Proteins/chemistry , Recombinant Proteins/genetics , Recombinant Proteins/metabolism , Sequence Homology, Amino Acid , Serine/chemistry , Species Specificity , Static Electricity
20.
J Mol Biol ; 385(5): 1519-33, 2009 Feb 06.
Article in English | MEDLINE | ID: mdl-19084537

ABSTRACT

The crystal structure of the ATP-bound form of the tetrameric phosphofructokinase (PFK) from Trypanosoma brucei enables detailed comparisons to be made with the structures of the apoenzyme form of the same enzyme, as well as with those of bacterial ATP-dependent and PP(i)-dependent PFKs. The active site of T. brucei PFK (which is strictly ATP-dependent but belongs to the PP(i)-dependent family by sequence similarities) is a chimera of the two types of PFK. In particular, the active site of T. brucei PFK possesses amino acid residues and structural features characteristic of both types of PFK. Conformational changes upon ATP binding are observed that include the opening of the active site to accommodate the two substrates, MgATP and fructose 6-phosphate, and a dramatic ordering of the C-terminal helices, which act like reaching arms to hold the tetramer together. These conformational transitions are fundamentally different from those of other ATP-dependent PFKs. The substantial differences in structure and mechanism of T. brucei PFK compared with bacterial and mammalian PFKs give optimism for the discovery of species-specific drugs for the treatment of diseases caused by protist parasites of the trypanosomatid family.


Subject(s)
Models, Molecular , Phosphofructokinases/chemistry , Protozoan Proteins/chemistry , Trypanosoma brucei brucei/enzymology , Adenosine Triphosphate/metabolism , Amino Acid Sequence , Animals , Binding Sites , Crystallography, X-Ray , Fructosephosphates/metabolism , Isoenzymes/chemistry , Isoenzymes/metabolism , Molecular Sequence Data , Phosphofructokinases/metabolism , Protein Conformation , Protozoan Proteins/metabolism
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