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1.
Biochem Biophys Res Commun ; 711: 149914, 2024 Jun 04.
Article in English | MEDLINE | ID: mdl-38608434

ABSTRACT

The steroid hormone ecdysone is essential for the reproduction and survival of insects. The hormone is synthesized from dietary sterols such as cholesterol, yielding ecdysone in a series of consecutive enzymatic reactions. In the insect orders Lepidoptera and Diptera a glutathione transferase called Noppera-bo (Nobo) plays an essential, but biochemically uncharacterized, role in ecdysteroid biosynthesis. The Nobo enzyme is consequently a possible target in harmful dipterans, such as disease-carrying mosquitoes. Flavonoid compounds inhibit Nobo and have larvicidal effects in the yellow-fever transmitting mosquito Aedes aegypti, but the enzyme is functionally incompletely characterized. We here report that within a set of glutathione transferase substrates the double-bond isomerase activity with 5-androsten-3,17-dione stands out with an extraordinary specific activity of 4000 µmol min-1 mg-1. We suggest that the authentic function of Nobo is catalysis of a chemically analogous ketosteroid isomerization in ecdysone biosynthesis.


Subject(s)
Aedes , Aedes/enzymology , Aedes/metabolism , Animals , Glutathione Transferase/metabolism , Glutathione/metabolism , Ecdysone/metabolism , Insect Proteins/metabolism , Substrate Specificity , Steroid Isomerases/metabolism , Steroid Isomerases/genetics , Mosquito Vectors/metabolism , Ketosteroids/metabolism , Ketosteroids/chemistry
2.
J Phys Chem B ; 126(46): 9443-9456, 2022 11 24.
Article in English | MEDLINE | ID: mdl-36383139

ABSTRACT

Bond bundle analysis is used to investigate enzymatic catalysis in the ketosteroid isomerase (KSI) active site. We identify the unique bonding regions in five KSI systems, including those exposed to applied oriented electric fields and those with amino acid mutations, and calculate the precise redistribution of electron density and other regional properties that accompanies either enhancement or inhibition of KSI catalytic activity. We find that catalytic enhancement results from promoting both inter- and intra-molecular electron density redistribution, between bond bundles and bond wedges within the KSI-docked substrate molecule, in the forward direction of the catalyzed reaction. Though the redistribution applies to both types of perturbed systems and is thus suggestive of a general catalytic role, we observe that bond properties (e.g., volume vs energy vs electron count) can respond independently and disproportionately depending on the type of perturbation. We conclude that the resulting catalytic enhancement/inhibition proceeds via different mechanisms, where some bond properties are utilized more by one type of perturbation than the other. Additionally, we find that the correlations between bond wedge properties and catalyzed reaction barrier energies are additive to predict those of bond bundles and atomic basins, providing a rigorous grounding for connecting changes in local charge density to resulting shifts in reaction barrier energy.


Subject(s)
Steroid Isomerases , Steroid Isomerases/chemistry , Hydrogen Bonding , Ketosteroids/chemistry , Ketosteroids/metabolism , Catalytic Domain/genetics , Catalysis , Isomerases/metabolism
3.
Sci Adv ; 8(41): eabn7738, 2022 10 14.
Article in English | MEDLINE | ID: mdl-36240280

ABSTRACT

Decades of structure-function studies have established our current extensive understanding of enzymes. However, traditional structural models are snapshots of broader conformational ensembles of interchanging states. We demonstrate the need for conformational ensembles to understand function, using the enzyme ketosteroid isomerase (KSI) as an example. Comparison of prior KSI cryogenic x-ray structures suggested deleterious mutational effects from a misaligned oxyanion hole catalytic residue. However, ensemble information from room-temperature x-ray crystallography, combined with functional studies, excluded this model. Ensemble-function analyses can deconvolute effects from altering the probability of occupying a state (P-effects) and changing the reactivity of each state (k-effects); our ensemble-function analyses revealed functional effects arising from weakened oxyanion hole hydrogen bonding and substrate repositioning within the active site. Ensemble-function studies will have an integral role in understanding enzymes and in meeting the future goals of a predictive understanding of enzyme catalysis and engineering new enzymes.


Subject(s)
Steroid Isomerases , Catalysis , Crystallography, X-Ray , Hydrogen Bonding , Isomerases , Ketosteroids/chemistry , Steroid Isomerases/chemistry , Steroid Isomerases/genetics
4.
Molecules ; 25(8)2020 Apr 20.
Article in English | MEDLINE | ID: mdl-32326095

ABSTRACT

γ- and δ-Oxoesters are easily available starting materials that have been sparingly used in some organocatalyzed reactions proceeding with a high enantioselectivity. In our experimentation we found that the use of these compounds as the enolizable (nucleophilic) component in organocatalyzed Mannich-type reactions using in situ-generated cyclic N-acyl iminium ions gave low diastereoselectivity and low to moderate values of enantioselectivity. This significant drop of facial selectivity with respect to simple aliphatic aldehydes has been rationalized by means of density functional theory (DFT) calculations.


Subject(s)
Ions/chemistry , Ketosteroids/chemistry , Catalysis , Density Functional Theory , Isoquinolines/chemistry , Lactones/chemistry , Mannich Bases/chemistry , Metals , Models, Molecular , Molecular Conformation , Molecular Structure , Stereoisomerism
5.
FEMS Microbiol Lett ; 366(14)2019 07 01.
Article in English | MEDLINE | ID: mdl-31390014

ABSTRACT

Aerobic degradation of the sterol tetracyclic nucleus by microorganisms comprises the catabolism of A/B-rings, followed by that of C/D-rings. B-ring rupture at the C9,10-position is a key step involving 3-ketosteroid Δ1-dehydrogenase (KstD) and 3-ketosteroid 9α-hydroxylase (KstH). Their activities lead to the aromatization of C4,5-en-containing A-ring causing the rupture of B-ring. C4,5α-hydrogenated 3-ketosteroid could be produced by the growing microorganism containing a 5α-reductase. In this case, the microorganism synthesizes, in addition to KstD and KstH, a 3-ketosteroid Δ4-(5α)-dehydrogenase (Kst4D) in order to produce the A-ring aromatization, and consequently B-ring rupture. KstD and Kst4D are FAD-dependent oxidoreductases. KstH is composed of a reductase and a monooxygenase. This last component is the catalytic unit; it contains a Rieske-[2Fe-2S] center with a non-haem mononuclear iron in the active site. Published data regarding these enzymes are reviewed.


Subject(s)
Lipid Metabolism , Microbiological Phenomena , Sterols/metabolism , Aerobiosis , Gene Expression Regulation, Enzymologic , Ketosteroids/chemistry , Ketosteroids/metabolism , Metabolic Networks and Pathways , Oxidation-Reduction , Oxidoreductases/genetics , Oxidoreductases/metabolism , Sterols/chemistry , Substrate Specificity
6.
Biochimie ; 160: 130-140, 2019 May.
Article in English | MEDLINE | ID: mdl-30844411

ABSTRACT

The bile alcohol 5ß-scymnol ([24R]-(+)-5ß-cholestan-3α,7α,12α,24,26,27-hexol) is a therapeutic nutraceutical derived from marine sources, however very little is known about its potential for biotransformation as a xenobiotic in higher vertebrates. In this study, biotransformation products of scymnol catalysed by liver microsomes isolated from normal and streptozotocin (STZ)-treated male Wistar rats were characterised by liquid chromatography-tandem mass spectroscopy (LC-MSMS). In order of increasing polarity relative to the reversed phase sorbent, structural assignments were made for four biotransformation products, namely 3-oxoscymnol (5ß-cholestan-3-one-7α,12α,24,26,27-pentol); 7-oxoscymnol (5ß-cholestan-7-one-3α,12α,24,26,27-pentol); 3ß-scymnol (5ß-cholestan-3ß,7α,12α,24,26,27-hexol) and 6ß-hydroxyscymnol (5ß-cholestan-3α,6ß,7α,12α,24,26,27-heptol). In addition, a total of eight biotransformation products were characterised from microsomal incubations of crude oxoscymnol compounds, namely 7ß-scymnol; 3,12-dioxoscymnol; 3,7-dioxoscymnol; 7,12-dioxoscymnol; 12-oxo-3ß-scymnol; 7-oxo-3ß-scymnol; 6ß-hydroxy-12-oxoscymnol and 6ß-hydroxy-7-oxoscymnol. Collectively, the results indicate hepatic enzyme-catalysed hydroxylation, dehydrogenation and epimerisation reactions on the steroid nucleus of scymnol, and provide an insight into biotransformation pathways for scymnol use as a therapeutic nutraceutical in higher vertebrates.


Subject(s)
Cholestanols/chemistry , Cholestanols/metabolism , Chromatography, Liquid/methods , Ketosteroids/metabolism , Microsomes, Liver/metabolism , Steroid Hydroxylases/metabolism , Tandem Mass Spectrometry/methods , Animals , Biotransformation , Ketosteroids/chemistry , Male , Rats , Rats, Sprague-Dawley
7.
J Pharm Biomed Anal ; 164: 642-652, 2019 Feb 05.
Article in English | MEDLINE | ID: mdl-30472582

ABSTRACT

This study describes a validated LC-MS/MS method for assaying 23 steroids within a single run from 150 µl of human plasma, serum or prostatic tissue homogenate. Isotope-labeled steroids were used as internal standards. Samples were extracted with toluene, and ketosteroids were derivatized with hydroxylamine prior to LC-MS/MS analysis. The steroids were separated on a C18 column and methanol was used as an organic solvent with the addition of 0.2 mM ammonium fluoride to improve underivatized estradiol (E2) ionization. Certified reference serums as well as plasma samples, and homogenates of prostate tissue were utilized in the method validation. The specificity of the method was inspected with a total of 27 steroids. The validation proved that the method was suitable for the quantitative analysis of a wide panel of androgens (testosterone, T (3.3 pM-13 nM); androstenedione, A4 (3.3 pM-13 nM); 5α-androstanedione, DHA4 (13 pM-13 nM); dehydroepiandrosterone, DHEA (67 pM-133 nM); dihydrotestosterone, DHT (33 pM-33 nM); 11-ketodihydrotestosterone, 11KDHT (13 pM-13nM); 11-ketotestosterone, 11KT (33 pM-6.7 nM); 11ß-hydroxyandrostenedione, 11bOHA4 (33 pM-13 nM); 11ß-hydroxytestosterone, 11OHT (13 pM-33 nM)), as well as estrogens (estrone, E1 (3.3 pM-13 nM)), progestagens (17α-hydroxypregnenolone, 17OHP5 (32 pM-127 nM); 17α-hydroxyprogesterone, 17OHP4 (67 pM-133 nM); progesterone, P4 (3.3 pM-13 nM); pregnenolone, P5 (6.6 pM-13 nM)), and glucocorticoids (cortisol, F (33 pM-134 nM); cortisone E (66 pM-131 nM); corticosterone, B (33 pM-67 nM); 11-deoxycortisol, S (33 pM-66 nM); 21-hydroxyprogesterone, 21OHP4 (32 pM-13 nM)). Furthermore, E2 (335 pM-134 nM) and 11α-hydroxyandrostenedione, 11aOHA4 (33 pM-33 nM) could be analyzed if the concentration in the sample was high enough. In addition, aldosterone, A (128 pM-64 nM) and 11-ketoandrostenedione, 11KA4 (33 pM-13 nM) could be analyzed semiquantitatively. The limits of quantification for all compounds ranged from 0.9 to 91 pg/ml, and from 0.009 to 0.9 pg/mg tissue. Compared to our previous method, this new method also permits the analysis of the more challenging steroids, like DHT, DHEA and P5, and a panel of 11-ketosteroids.


Subject(s)
Estradiol/analysis , Hydroxylamines/analysis , Ketosteroids/analysis , Prostate/chemistry , Chromatography, High Pressure Liquid/methods , Estradiol/blood , Humans , Hydroxylamines/blood , Hydroxylamines/chemistry , Isotope Labeling/methods , Ketosteroids/blood , Ketosteroids/chemistry , Male , Tandem Mass Spectrometry/methods
8.
Molecules ; 23(10)2018 Sep 20.
Article in English | MEDLINE | ID: mdl-30241317

ABSTRACT

The electric field in the hydrogen-bond network of the active site of ketosteroid isomerase (KSI) has been experimentally measured using vibrational Stark effect (VSE) spectroscopy, and utilized to study the electrostatic contribution to catalysis. A large gap was found in the electric field between the computational simulation based on the Amber force field and the experimental measurement. In this work, quantum mechanical (QM) calculations of the electric field were performed using an ab initio QM/MM molecular dynamics (MD) simulation and electrostatically embedded generalized molecular fractionation with conjugate caps (EE-GMFCC) method. Our results demonstrate that the QM-derived electric field based on the snapshots from QM/MM MD simulation could give quantitative agreement with the experiment. The accurate calculation of the electric field inside the protein requires both the rigorous sampling of configurations, and a QM description of the electrostatic field. Based on the direct QM calculation of the electric field, we theoretically confirmed that there is a linear correlation relationship between the activation free energy and the electric field in the active site of wild-type KSI and its mutants (namely, D103N, Y16S, and D103L). Our study presents a computational protocol for the accurate simulation of the electric field in the active site of the protein, and provides a theoretical foundation that supports the link between electric fields and enzyme catalysis.


Subject(s)
Catalysis , Isomerases/chemistry , Ketosteroids/chemistry , Mutant Proteins/chemistry , Catalytic Domain/genetics , Hydrogen Bonding , Isomerases/metabolism , Molecular Dynamics Simulation , Mutant Proteins/genetics , Quantum Theory , Static Electricity , Vibration
9.
J Am Chem Soc ; 140(31): 9827-9843, 2018 08 08.
Article in English | MEDLINE | ID: mdl-29990421

ABSTRACT

Hydrogen bonds are fundamental to biological systems and are regularly found in networks implicated in folding, molecular recognition, catalysis, and allostery. Given their ubiquity, we asked the fundamental questions of whether, and to what extent, hydrogen bonds within networks are structurally coupled. To address these questions, we turned to three protein systems, two variants of ketosteroid isomerase and one of photoactive yellow protein. We perturbed their hydrogen bond networks via a combination of site-directed mutagenesis and unnatural amino acid substitution, and we used 1H NMR and high-resolution X-ray crystallography to determine the effects of these perturbations on the lengths of the two oxyanion hole hydrogen bonds that are donated to negatively charged transition state analogs. Perturbations that lengthened or shortened one of the oxyanion hole hydrogen bonds had the opposite effect on the other. The oxyanion hole hydrogen bonds were also affected by distal hydrogen bonds in the network, with smaller perturbations for more remote hydrogen bonds. Across 19 measurements in three systems, the length change in one oxyanion hole hydrogen bond was propagated to the other, by a factor of -0.30 ± 0.03. This common effect suggests that hydrogen bond coupling is minimally influenced by the remaining protein scaffold. The observed coupling is reproduced by molecular mechanics and quantum mechanics/molecular mechanics (QM/MM) calculations for changes to a proximal oxyanion hole hydrogen bond. However, effects from distal hydrogen bonds are reproduced only by QM/MM, suggesting the importance of polarization in hydrogen bond coupling. These results deepen our understanding of hydrogen bonds and their networks, providing strong evidence for long-range coupling and for the extent of this coupling. We provide a broadly predictive quantitative relationship that can be applied to and can be further tested in new systems.


Subject(s)
Bacterial Proteins/chemistry , Ketosteroids/chemistry , Photoreceptors, Microbial/chemistry , Steroid Isomerases/chemistry , Catalytic Domain , Crystallography, X-Ray , Hydrogen Bonding , Proton Magnetic Resonance Spectroscopy
10.
Nat Prod Res ; 32(1): 18-22, 2018 Jan.
Article in English | MEDLINE | ID: mdl-28480734

ABSTRACT

Chemical investigation of the rhizomes of Costus speciosus led to the isolation of a new compound, 22-ketocholesteryl palmitate (1) along with four known compounds, 24-methylenecycloartanol (2), cycloartanol (3), stigmasterol (4) and linoleic acid (5). The structure of new compound was characterised by extensive 1D-, 2D-NMR and mass spectrometry (GC-MS and HR-ESI-MS) techniques.


Subject(s)
Costus/chemistry , Ketosteroids/chemistry , Rhizome/chemistry , Sterols/chemistry , Gas Chromatography-Mass Spectrometry , Linoleic Acid/chemistry , Magnetic Resonance Spectroscopy , Molecular Structure , Spectrometry, Mass, Electrospray Ionization/methods , Stigmasterol/chemistry , Triterpenes/chemistry
11.
Biochim Biophys Acta Gen Subj ; 1861(11 Pt A): 2883-2890, 2017 Nov.
Article in English | MEDLINE | ID: mdl-28782626

ABSTRACT

Cytosolic sulfotransferase (SULT)-mediated sulfation is generally known to involve the transfer of a sulfonate group from the active sulfate, 3'-phosphoadenosine 5'-phosphosulfate (PAPS), to a hydroxyl group or an amino group of a substrate compound. We report here that human SULT2A1, in addition to being able to sulfate dehydroepiandrosterone (DHEA) and other hydroxysteroids, could also catalyze the sulfation of Δ4-3-ketosteroids, which carry no hydroxyl groups in their chemical structure. Among a panel of Δ4-3-ketosteroids tested as substrates, 4-androstene-3,17-dione and progesterone were found to be sulfated by SULT2A1. Mass spectrometry analysis and structural modeling supported a reaction mechanism which involves the isomerization of Δ4-3-ketosteroids from the keto form to an enol form, prior to being subjected to sulfation. Results derived from this study suggested a potential role of SULT2A1 as a Δ4-3-ketosteroid sulfotransferase in steroid metabolism.


Subject(s)
Androstenedione/metabolism , Ketosteroids/metabolism , Progesterone/metabolism , Sulfotransferases/chemistry , Androstenedione/chemistry , Cytosol/chemistry , Cytosol/enzymology , Dehydroepiandrosterone Sulfate/chemistry , Humans , Ketosteroids/chemistry , Mass Spectrometry , Progesterone/chemistry , Protein Binding , Substrate Specificity , Sulfotransferases/genetics , Sulfotransferases/metabolism
12.
Annu Rev Biochem ; 86: 387-415, 2017 06 20.
Article in English | MEDLINE | ID: mdl-28375745

ABSTRACT

What happens inside an enzyme's active site to allow slow and difficult chemical reactions to occur so rapidly? This question has occupied biochemists' attention for a long time. Computer models of increasing sophistication have predicted an important role for electrostatic interactions in enzymatic reactions, yet this hypothesis has proved vexingly difficult to test experimentally. Recent experiments utilizing the vibrational Stark effect make it possible to measure the electric field a substrate molecule experiences when bound inside its enzyme's active site. These experiments have provided compelling evidence supporting a major electrostatic contribution to enzymatic catalysis. Here, we review these results and develop a simple model for electrostatic catalysis that enables us to incorporate disparate concepts introduced by many investigators to describe how enzymes work into a more unified framework stressing the importance of electric fields at the active site.


Subject(s)
Bacterial Proteins/chemistry , Hydrolases/chemistry , Ketosteroids/chemistry , Pseudomonas/enzymology , Steroid Isomerases/chemistry , Bacterial Proteins/genetics , Bacterial Proteins/metabolism , Biocatalysis , Catalytic Domain , Gene Expression , Hydrolases/genetics , Hydrolases/metabolism , Ketosteroids/metabolism , Kinetics , Models, Chemical , Molecular Dynamics Simulation , Mutation , Pseudomonas/chemistry , Pseudomonas/genetics , Spectrophotometry, Infrared/methods , Static Electricity , Steroid Isomerases/genetics , Steroid Isomerases/metabolism , Thermodynamics
13.
Biochemistry ; 56(4): 582-591, 2017 01 31.
Article in English | MEDLINE | ID: mdl-28045505

ABSTRACT

Kemp eliminases represent the most successful class of computationally designed enzymes, with rate accelerations of up to 109-fold relative to the rate of the same reaction in aqueous solution. Nevertheless, several other systems such as micelles, catalytic antibodies, and cavitands are known to accelerate the Kemp elimination by several orders of magnitude. We found that the naturally occurring enzyme ketosteroid isomerase (KSI) also catalyzes the Kemp elimination. Surprisingly, mutations of D38, the residue that acts as a general base for its natural substrate, produced variants that catalyze the Kemp elimination up to 7000-fold better than wild-type KSI does, and some of these variants accelerate the Kemp elimination more than the computationally designed Kemp eliminases. Analysis of the D38N general base KSI variant suggests that a different active site carboxylate residue, D99, performs the proton abstraction. Docking simulations and analysis of inhibition by active site binders suggest that the Kemp elimination takes place in the active site of KSI and that KSI uses the same catalytic strategies of the computationally designed enzymes. In agreement with prior observations, our results strengthen the conclusion that significant rate accelerations of the Kemp elimination can be achieved with very few, nonspecific interactions with the substrate if a suitable catalytic base is present in a hydrophobic environment. Computational design can fulfill these requirements, and the design of more complex and precise environments represents the next level of challenges for protein design.


Subject(s)
Bacterial Proteins/chemistry , Comamonas testosteroni/chemistry , Intramolecular Lyases/chemistry , Ketosteroids/chemistry , Oxazoles/chemistry , Protons , Steroid Isomerases/chemistry , Arginine/chemistry , Arginine/metabolism , Aspartic Acid/chemistry , Aspartic Acid/metabolism , Bacterial Proteins/antagonists & inhibitors , Bacterial Proteins/genetics , Bacterial Proteins/metabolism , Biocatalysis , Cloning, Molecular , Comamonas testosteroni/enzymology , Enzyme Inhibitors/chemical synthesis , Enzyme Inhibitors/chemistry , Escherichia coli/genetics , Escherichia coli/metabolism , Gene Expression , Hydrophobic and Hydrophilic Interactions , Intramolecular Lyases/antagonists & inhibitors , Intramolecular Lyases/genetics , Intramolecular Lyases/metabolism , Ketosteroids/metabolism , Kinetics , Molecular Docking Simulation , Mutation , Oxazoles/metabolism , Protein Engineering , Recombinant Proteins/chemistry , Recombinant Proteins/genetics , Recombinant Proteins/metabolism , Steroid Isomerases/antagonists & inhibitors , Steroid Isomerases/genetics , Steroid Isomerases/metabolism , Structure-Activity Relationship
14.
Toxicol Mech Methods ; 27(2): 151-163, 2017 Feb.
Article in English | MEDLINE | ID: mdl-27997270

ABSTRACT

Dioxins and dioxin-like compounds (DLCs) are the ones with poor water solubility and low volatility, resistant to physical, chemical and biological processes, persistent in the environment even under extreme conditions. Due to lipophilic nature, they get adhered to the fatty material and concentrate through biomagnification and bioaccumulation, thereby easily getting incorporated into food chains, paving the way to endocrine disruption via modulation of various human receptors. This in turn leads to certain adverse health effects. In the present study, a total of 100 dioxins and DLCs were taken and their binding pattern was assessed with the ketosteroid receptors, i.e. androgen (hAR), glucocorticoid (hGR), progesterone (hPR) and mineralocorticoid (hMR) in comparison to the corresponding natural steroids and a known endocrine disrupting xenobiotic, Bisphenol A (BPA). Most of the DLCs, particularly those bearing hydroxyl (-OH) group showed considerable affinities with ketosteroid receptors. On comparing D scores of all the dioxins and DLCs against all four receptors, compound 8-hydroxy-3,4-dichlorodibenzofuran(8-OH-DCDF) exhibited least D score of -9.549 kcal mol-1 against hAR. 3,8-Dihydroxy-2-chlorodibenzofuran(3,8-DiOH-CDF), 4'-hydroxy-2,3,4,5-tetrachlorobiphenyl (4'-OH-TCB) and 4-hydroxy-2,2',5'-trichlorobiphenyl(4-OH-TCB) also showed comparable molecular interactions with the ketosteroid receptors. These interactions mainly include H-bonding, π-π stacking, hydrophobic, polar and van der Waals' interactions. In contrast, BPA and some natural ligands tested in this study showed lower binding affinities with these receptors than certain DLCs reported herein, i.e. certain DLCs might be more toxic than the proven toxic agent, BPA. Such studies play a pivotal role in the risk assessment of exposure to dioxins and DLCs on human health.


Subject(s)
Dioxins/chemistry , Endocrine Disruptors/chemistry , Ketosteroids/chemistry , Receptors, Steroid/chemistry , Hydrogen Bonding , Hydrophobic and Hydrophilic Interactions , Ligands , Molecular Docking Simulation , Protein Binding , Reproducibility of Results , Risk Assessment
15.
J Am Chem Soc ; 138(31): 9902-9, 2016 08 10.
Article in English | MEDLINE | ID: mdl-27410422

ABSTRACT

Proton transfer reactions are ubiquitous in enzymes and utilize active site residues as general acids and bases. Crystal structures and site-directed mutagenesis are routinely used to identify these residues, but assessment of their catalytic contribution remains a major challenge. In principle, effective molarity measurements, in which exogenous acids/bases rescue the reaction in mutants lacking these residues, can estimate these catalytic contributions. However, these exogenous moieties can be restricted in reactivity by steric hindrance or enhanced by binding interactions with nearby residues, thereby resulting in over- or underestimation of the catalytic contribution, respectively. With these challenges in mind, we investigated the catalytic contribution of an aspartate general base in ketosteroid isomerase (KSI) by exogenous rescue. In addition to removing the general base, we systematically mutated nearby residues and probed each mutant with a series of carboxylate bases of similar pKa but varying size. Our results underscore the need for extensive and multifaceted variation to assess and minimize steric and positioning effects and determine effective molarities that estimate catalytic contributions. We obtained consensus effective molarities of ∼5 × 10(4) M for KSI from Comamonas testosteroni (tKSI) and ∼10(3) M for KSI from Pseudomonas putida (pKSI). An X-ray crystal structure of a tKSI general base mutant showed no additional structural rearrangements, and double mutant cycles revealed similar contributions from an oxyanion hole mutation in the wild-type and base-rescued reactions, providing no indication of mutational effects extending beyond the general base site. Thus, the high effective molarities suggest a large catalytic contribution associated with the general base. A significant portion of this effect presumably arises from positioning of the base, but its large magnitude suggests the involvement of additional catalytic mechanisms as well.


Subject(s)
Ketosteroids/chemistry , Steroid Isomerases/chemistry , Aspartic Acid/chemistry , Binding Sites , Carbon/chemistry , Catalysis , Catalytic Domain , Comamonas testosteroni/enzymology , Crystallography, X-Ray , Hydrogen Bonding , Hydrogen-Ion Concentration , Isomerases/metabolism , Kinetics , Mutagenesis, Site-Directed , Mutation , Pseudomonas putida/enzymology
16.
Biochem Biophys Res Commun ; 472(1): 231-6, 2016 Mar 25.
Article in English | MEDLINE | ID: mdl-26920053

ABSTRACT

We report characterization of a member of the short-chain dehydrogenase/reductase superfamily encoded in a human gene, DHRS11. The recombinant protein (DHRS11) efficiently catalyzed the conversion of the 17-keto group of estrone, 4- and 5-androstenes and 5α-androstanes into their 17ß-hydroxyl metabolites with NADPH as a coenzyme. In contrast, it exhibited reductive 3ß-hydroxysteroid dehydrogenase activity toward 5ß-androstanes, 5ß-pregnanes, 4-pregnenes and bile acids. Additionally, DHRS11 reduced α-dicarbonyls (such as diacetyl and methylglyoxal) and alicyclic ketones (such as 1-indanone and loxoprofen). The enzyme activity was inhibited in a mixed-type manner by flavonoids, and competitively by carbenoxolone, glycyrrhetinic acid, zearalenone, curcumin and flufenamic acid. The expression of DHRS11 mRNA was observed widely in human tissues, most abundantly in testis, small intestine, colon, kidney and cancer cell lines. Thus, DHRS11 represents a novel type of 17ß-hydroxysteroid dehydrogenase with unique catalytic properties and tissue distribution.


Subject(s)
17-Hydroxysteroid Dehydrogenases/genetics , 17-Hydroxysteroid Dehydrogenases/metabolism , Oxidoreductases/genetics , Oxidoreductases/metabolism , 17-Hydroxysteroid Dehydrogenases/antagonists & inhibitors , Alternative Splicing , Enzyme Inhibitors/pharmacology , Enzyme Stability , Female , Hot Temperature , Humans , Hydrogen-Ion Concentration , Isoenzymes/antagonists & inhibitors , Isoenzymes/genetics , Isoenzymes/metabolism , Ketosteroids/chemistry , Ketosteroids/metabolism , Kinetics , Male , NADP/metabolism , Oxidoreductases/antagonists & inhibitors , RNA, Messenger/genetics , RNA, Messenger/metabolism , Recombinant Proteins/genetics , Recombinant Proteins/metabolism , Substrate Specificity , Tissue Distribution
17.
Chem Biodivers ; 12(7): 1068-74, 2015 Jul.
Article in English | MEDLINE | ID: mdl-26172327

ABSTRACT

Three new Δ(1) -3-ketosteroids characterized with a 9-OH, subergosterones A-C (1-3), together with five known analogs 4-8, were obtained from the gorgonian coral Subergorgia rubra collected from the South China Sea. The structures of 1-3, including their absolute configurations, were determined by comprehensive spectroscopic methods and electronic circular dichroism (ECD) experiments. Compounds 2 and 3 exhibited inhibitory antibacterial activities against Bacillus cereus with MIC values of 1.56 µM.


Subject(s)
Anthozoa/chemistry , Anti-Bacterial Agents/pharmacology , Bacillus cereus/drug effects , Ketosteroids/pharmacology , Animals , Anti-Bacterial Agents/chemistry , Anti-Bacterial Agents/isolation & purification , Dose-Response Relationship, Drug , Ketosteroids/chemistry , Ketosteroids/isolation & purification , Microbial Sensitivity Tests , Molecular Conformation , Structure-Activity Relationship
18.
J Biol Chem ; 290(2): 872-82, 2015 Jan 09.
Article in English | MEDLINE | ID: mdl-25406313

ABSTRACT

Catabolism of host cholesterol is critical to the virulence of Mycobacterium tuberculosis and is a potential target for novel therapeutics. KstR2, a TetR family repressor (TFR), regulates the expression of 15 genes encoding enzymes that catabolize the last half of the cholesterol molecule, represented by 3aα-H-4α(3'-propanoate)-7aß-methylhexahydro-1,5-indane-dione (HIP). Binding of KstR2 to its operator sequences is relieved upon binding of HIP-CoA. A 1.6-Å resolution crystal structure of the KstR2(Mtb)·HIP-CoA complex reveals that the KstR2(Mtb) dimer accommodates two molecules of HIP-CoA. Each ligand binds in an elongated cleft spanning the dimerization interface such that the HIP and CoA moieties interact with different KstR2(Mtb) protomers. In isothermal titration calorimetry studies, the dimer bound 2 eq of HIP-CoA with high affinity (K(d) = 80 ± 10 nm) but bound neither HIP nor CoASH. Substitution of Arg-162 or Trp-166, residues that interact, respectively, with the diphosphate and HIP moieties of HIP-CoA, dramatically decreased the affinity of KstR2(Mtb) for HIP-CoA but not for its operator sequence. The variant of R162M that decreased the affinity for HIP-CoA (ΔΔG = 13 kJ mol(-1)) is consistent with the loss of three hydrogen bonds as indicated in the structural data. A 24-bp operator sequence bound two dimers of KstR2. Structural comparisons with a ligand-free rhodococcal homologue and a DNA-bound homologue suggest that HIP-CoA induces conformational changes of the DNA-binding domains of the dimer that preclude their proper positioning in the major groove of DNA. The results provide insight into KstR2-mediated regulation of expression of steroid catabolic genes and the determinants of ligand binding in TFRs.


Subject(s)
Bacterial Proteins/chemistry , Cholesterol/metabolism , Mycobacterium tuberculosis/genetics , Repressor Proteins/genetics , Tuberculosis/enzymology , Bacterial Proteins/genetics , Bacterial Proteins/metabolism , Coenzyme A/chemistry , Crystallography, X-Ray , DNA-Binding Proteins/chemistry , DNA-Binding Proteins/genetics , Humans , Ketosteroids/chemistry , Ketosteroids/metabolism , Ligands , Mycobacterium tuberculosis/chemistry , Mycobacterium tuberculosis/pathogenicity , Protein Binding , Protein Conformation , Tetracycline Resistance/genetics , Tuberculosis/genetics , Tuberculosis/microbiology
19.
J Am Chem Soc ; 136(21): 7643-54, 2014 May 28.
Article in English | MEDLINE | ID: mdl-24787954

ABSTRACT

Hydrogen bonds are ubiquitous in enzyme active sites, providing binding interactions and stabilizing charge rearrangements on substrate groups over the course of a reaction. But understanding the origin and magnitude of their catalytic contributions relative to hydrogen bonds made in aqueous solution remains difficult, in part because of complexities encountered in energetic interpretation of traditional site-directed mutagenesis experiments. It has been proposed for ketosteroid isomerase and other enzymes that active site hydrogen bonding groups provide energetic stabilization via "short, strong" or "low-barrier" hydrogen bonds that are formed due to matching of their pKa or proton affinity to that of the transition state. It has also been proposed that the ketosteroid isomerase and other enzyme active sites provide electrostatic environments that result in larger energetic responses (i.e., greater "sensitivity") to ground-state to transition-state charge rearrangement, relative to aqueous solution, thereby providing catalysis relative to the corresponding reaction in water. To test these models, we substituted tyrosine with fluorotyrosines (F-Tyr's) in the ketosteroid isomerase (KSI) oxyanion hole to systematically vary the proton affinity of an active site hydrogen bond donor while minimizing steric or structural effects. We found that a 40-fold increase in intrinsic F-Tyr acidity caused no significant change in activity for reactions with three different substrates. F-Tyr substitution did not change the solvent or primary kinetic isotope effect for proton abstraction, consistent with no change in mechanism arising from these substitutions. The observed shallow dependence of activity on the pKa of the substituted Tyr residues suggests that the KSI oxyanion hole does not provide catalysis by forming an energetically exceptional pKa-matched hydrogen bond. In addition, the shallow dependence provides no indication of an active site electrostatic environment that greatly enhances the energetic response to charge accumulation, consistent with prior experimental results.


Subject(s)
Amino Acids/chemistry , Ketosteroids/chemistry , Steroid Isomerases/metabolism , Anions , Catalytic Domain , Hydrogen Bonding , Ketosteroids/metabolism , Protein Conformation , Steroid Isomerases/chemistry
20.
Chem Phys Lipids ; 178: 45-51, 2014 Feb.
Article in English | MEDLINE | ID: mdl-24309193

ABSTRACT

Mild and regioselective conversion of 3-keto-5α- and 3-keto-5ß-steroids (trans A/B- and cis A/B-ring juncture, respectively) to the corresponding enones (Δ(1)- and Δ(4)-3-ketones) by treatment with o-iodoxybenzoic acid (IBX) catalyzed by trifluoroacetic acid (TFA) in DMSO, is described. The IBX-mediated reaction involved dehydrogenation of the α- and ß-hydrogen atoms of the 3-ketones to give the enones regioselectively in good isolated yields without concomitant formation of related dienones and trienones.


Subject(s)
Iodobenzenes/chemistry , Ketones/chemistry , Ketosteroids/chemistry , Trifluoroacetic Acid/chemistry , Dimethyl Sulfoxide/chemistry , Ketones/chemical synthesis , Stereoisomerism
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