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Article

Anion Inhibition Studies of the β-Class Carbonic Anhydrase CAS3 from the Filamentous Ascomycete Sordaria macrospora

by
Daniela Vullo
1,
Ronny Lehneck
2,
William A. Donald
3,
Stefanie Pöggeler
2,* and
Claudiu T. Supuran
3,4,*
1
Dipartimento di Chimica Ugo Schiff, Università degli Studi di Firenze, 50019 Sesto Fiorentino (Florence), Italy
2
Institute of Microbiology and Genetics, Department of Genetics of Eukaryotic Microorganisms, Georg-August-University Göttingen, 37077 Gottingen, Germany
3
University of New South Wales, School of Chemistry, Sydney, NSW 2052, Australia
4
Neurofarba Dept., Section of Pharmaceutical and Nutriceutical Sciences, Università degli Studi di Firenze, 50019 Sesto Fiorentino (Florence), Italy
*
Authors to whom correspondence should be addressed.
Metabolites 2020, 10(3), 93; https://doi.org/10.3390/metabo10030093
Submission received: 13 February 2020 / Revised: 2 March 2020 / Accepted: 3 March 2020 / Published: 5 March 2020
(This article belongs to the Special Issue Carbonic Anhydrases and Metabolism Volume 2)
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Abstract

:
CAS3 is a newly cloned cytosolic β-class carbonic anhydrase (CA, EC 4.2.1.1) from the filamentous ascomycete Sordaria macrospora. This enzyme has a high catalytic activity for the physiological CO2 hydration reaction and herein, we report the inhibition profile of CAS3 with anions and small molecules. The most effective CAS3 anions/small molecule inhibitors were diethyl-dithiocarbamate, sulfamide, sulfamate, phenyl boronic and phenyl arsonic acids, with KIs in the range of 0.89 mM–97 µM. Anions such as iodide, the pseudohalides, bicarbonate, carbonate, nitrate, nitrite, hydrogensulfide, stannate, selenate, tellurate, tetraborate, perrhenate, perruthenate, selenocyanide and trithiocarbonate were low millimolar CAS3 inhibitors. The light halides, sulfate, hydrogensulfite, peroxydisulfate, diphosphate, divanadate, perchlorate, tetrafluoroborate, fluorosulfonate and iminodisulfonate did not significantly inhibit this enzyme. These data may be useful for developing antifungals based on CA inhibition, considering the fact that many of the inhibitors reported here may be used as lead molecules and, by incorporating the appropriate organic scaffolds, potent nanomolar inhibitors could be developed.

1. Introduction

Anions constitute an important class of inhibitors for many metalloenzymes due to their capacity to bind to the metal ion within their enzyme active site, which thereafter interferes with the catalytic process [1,2,3,4,5]. Anion inhibitors, although usually not highly effective, are relevant both for understanding, in detail, the inhibition mechanisms of metalloenzymes and for drug design purposes. This is because such simple chemical entities are easily modifiable for developing more elaborate scaffolds which leads to highly effective inhibitors. An example of this type of small molecules inhibitor is trithiocarbonate (CS32-), a weak, millimolar anion inhibitor [6] of the zinc enzyme carbonic anhydrase (CA, EC 4.2.1.1) [7,8], which led to the discovery of three effective, nanomolar classes of CA inhibitors (CAIs), the dithiocarbamates [9], the monothiocarbamates [10] and the xanthates [11]. Trithiocarbonate has a KIs in the range of 8.7–9.9 µM for human (h) isoforms hCA I-III, 36.15 mM for hCA VII and 0.43 mM for hCA XIII [6], whereas the three classes of organic inhibitors achieved low nanomolar inhibition for pharmaceutically relevant CA isoforms, such as hCA I, II, IV, IX and XII [9,10,11,12,13]. Thus, many anion inhibitors have been investigated for their interaction with CAs from various organisms, such as mammals (humans) [4,7,8,14], bacteria [15,16,17,18], protozoans [19,20,21], corals [22] fungi [23,24,25,26,27] and Archaea [28].
Fungi encode for CAs belonging to the α- and β-CA genetic families (of the eight CA classes presently known [29]) and these enzymes play crucial roles in the growth, development, virulence and survival of these organisms [30,31]. Modulation of their activity with inhibitors and/or activators has been proposed as a new approach for designing antifungals [32,33,34,35].
The filamentous ascomycete Sordaria macrospora is a coprophilous fungus that naturally lives on herbivore dung and was shown to encode for at least three β- and one α-class CAs [24,30,36,37,38,39,40]. Two of the β-CAs, CAS1 and CAS2, and their X-ray crystal structures [24], were investigated in detail by some of us. Sulfonamide [34] inhibition profiles have also been reported. Unlike other fungal β-CAs, CAS1 and CAS2 were shown to be tetrameric enzymes (dimers of dimers), possessing a rather moderate CO2 hydrase activity. They are moderately inhibited by most anions and sulfonamides [24,34]. As S. macrospora is a model organism for studying the fruiting-body development in fungi [36], and as it has been shown that some of the CAs encoded in its genome are involved in biosynthetic pathways, as in other patogenic fungi (e.g., Candida spp. [25,27] and Cryptococcus neoformans [41]), it appeared of interest to study in more detail the CAs encoded in its genome.
Here, we report that CAS3, the third β-CA found in the S. macrospora genome, is a highly active catalyst for the physiologic CO2 hydration reactions and we present the first anion inhibition study of this enzyme, comparing it to those of CAS1 and CAS2 investigated earlier [24]. Our findings may be relevant for developing alternative antifungals to those that are clinically used, for which extensive resistance has been documented [42].

2. Results and Discussion

The cas3 gene encodes for a 174 amino acid residue protein, CAS3, which is the shortest of the three β-CAs found in S. macrospora [37,38]. As seen in Figure 1, CAS1 is a 234 amino acid protein and CAS2 has 284 residues, whereas CAS3 is much shorter, as described above.
However, an alignment of the three proteins reveals that as all β-Cas and CAS3 have the features characteristic of an enzymatically active CA, i.e., (i) three zinc ion residues (Cys41, His93 and Cys96, CAS3 numbering system, see Figure 1), with the fourth coordination site presumably being occupied by a water molecule/hydroxide ion; and (ii) the catalytic dyads Asp43 and Arg45 (CAS3 numbering system), conserved in all known β-CAs and involved in activating the zinc-bound water molecule for catalysis [27,41]. In contrast, for the closed active site β-CAs [15,44,45], the Arg is also involved in the “opening” of the active site, as documented for the Mycobacterium tuberculosis enzymes [46,47] and shown in Figure 2. On the other hand, as observed in Figure 1, there are many conserved amino acid residues among the three enzymes, except for the amino-terminal and carboxy-terminal parts, in which both the length of the polypeptide and the composition are rather different.
Thus, we investigated the CO2 hydrase activity of CAS3 and compared it to that of other α- and β-class enzymes, as shown in Table 1.
CAS3 has been shown earlier [37,38] to belong to the Cab-type β-CAs. As Cab has an open active site [28,48], we assume that this is also the case for CAS3. However, all kinetic and inhibition measurements were performed at a pH value of 8.3, in which the active site should be opened even for the closed active site of β-CAs [45,46,47]. The activity of CAS3 was compared to that of other β-CAs from fungi/yeasts/archaea (Can2 from Cryptococcus neoformans [41], CalCA from Candida albicans [27], SceCA from Saccharomyces cerevisiae [26]), Cab from as Methanobacterium thermoautotrophicum [28], CAS1 and CAS2 from S. macrospora [24]), as well as with the widespread α-class human isoforms hCA I and II [7]. As seen from the data of Table 1, CAS3 shows an order of magnitude higher catalytic activity compared to CAS1, CAS2 and Cab, with the following kinetic parameters: kcat of (7.9 ± 0.2) × 105 s−1, and kcat/Km of (9.5 ± 0.12) × 107 M−1 × s−1. The activity of CAS3 is thus similar to that of CalCA and SceCA, being almost two times higher than that of the “slow” human isoform hCA I, a highly abundant enzyme in red blood cells [27]. The most effective among these enzymes is hCA II, a “perfectly” evolved catalyst [49].
With this active enzyme in hand, we performed an anion inhibition study of CAS3, with a rather large number of simple and complex inorganic anions, as well as several small molecules known to inhibit CAs, such as sulfamide, sulfamic acid, phenyl boronic and phenyl arsenic acids [4,24,25,26,27,28,29,30] (Table 2).
As shown in Table 2, and as expected, most of the investigated anions/small molecules act as weak–medium potency CAS3 inhibitors. The following results will be highlighted as they seem to provide interesting information on the features of this enzyme:
(i)
The following anions did not significantly inhibit CAS3 up to a concentration of 100 mM in the assay system: the halides (except iodide); sulfate, hydrogensulfite and peroxydisulfate; diphosphate and divanadate; perchlorate, tetrafluoroborate, fluorosulfonate and iminodisulfonate (Table 2). Some of the anions, such as perchlorate and tetrafluoroborate, are known to possess a low affinity for binding metal ions, both in solution and within the metalloenzyme active sites [4]. However, the halides generally inhibit CAs, as seen in Table 2 in which millimolar inhibition was reported for CAS1 and hCA II (except fluoride).
(ii)
Most of the investigated anions were low millimolar, weak CAS3 inhibitors, with inhibition constants in the range of 3.2–9.9 mM. They include iodide, the pseudohalides, bicarbonate, carbonate, nitrate, nitrite, hydrogensulfide, stannate, selenate, tellurate, tetraborate, perrhenate, perruthenate, selenocyanide and trithiocarbonate.
(iii)
Submillimolar inhibition was observed with diethylditiocarbamate (KI of 0.89 mM), as well as sulfamide, sulfanate, phenyl boronic and phenyl arsonic acids (KIs of 91–97 µM). As expected, the weak inhibitor trithiocarbonate (KI of 8.6 mM) led to an order of magnitude more effective inhibitor when the diethylamino fragment was introduced, with N,N-diethyl-ditiocarbamate showing a KI of 0.89 mM (Table 2).
(iv)
The inhibition profile of CAS3 is rather different from that of the related isoforms, CAS1 and CAS2, and also from hCA II. However, no CAS3-selective inhibitors have been detected so far among these simple anions and small molecules. On the other hand, the identification of submillimolar or high micromolar inhibitors (diethyl-ditiocarbamate, sulfamide, sulfamate, phenyl boronic and phenyl arsonic acids) shows that it is probably possible to design compounds with an enhanced activity. In fact, acetazolamide (5-acetamido-1,3,4-thiadiazole-2-sulfonamide), which incorporates the sulfonamide fragment present in sulfamide and sulfamic acid, is a nanomolar CAS3 inhibitor (Table 1).

3. Materials and Methods

CA Activity and Inhibition Measurements

An Applied Photophysics stopped-flow instrument was used for assaying the CA catalyzed CO2 hydration activity [44]. Phenol red or bromothymol blue (at a concentration of 0.2 mM) were used as indicators following the initial rates of the CA-catalyzed CO2 hydration reaction for a period of 10–100 s. The indicators worked at the absorbance maximum of 557 nm, with 10–20 mM TRIS (pH 8.3) as buffer, and 10 mM NaClO4 for maintaining the ionic strength. The CO2 concentrations ranged from 1.7 mM to 17 mM for the determination of the kinetic parameters and inhibition constants. For each inhibitor, at least six traces of the initial 5%–10% of the reaction were used for determining the initial velocity. The uncatalyzed rates were determined in the same manner and subtracted from the total observed rates. Stock solutions of inhibitors (10 mM) were prepared in distilled-deionized water and dilutions up to 0.01 µM were done thereafter with distilled-deionized water. Inhibitor and enzyme solutions were preincubated together for 15 min at room temperature prior to the assay in order to allow for the formation of the E–I complex. The inhibition constants were obtained by the non-linear least-squares method using PRISM 3 and the Cheng–Prusoff equation, whereas the kinetic parameters for the uninhibited enzymes from Lineweaver–Burk plots, as reported earlier [24,25,26,27,28,29], represent the mean from at least three different determinations. All inhibitors (sodium salts of the anions from Table 2, as well as the other small molecules) were commercially available, highest purity compounds from Sigma-Aldrich (Milan, Italy) and were used as received. CAS3 has been obtained in recombinant form [50], as reported earlier for the related isoforms CAS1 and CAS2 [24,34]. In particular, production of the CAS3 protein was performed in E. coli strains, Rosetta (DE3) (Invitrogen, Germany). An overnight pre-culture was used to inoculate 4 × 0.5 L of Luria broth (LB) medium supplemented with 100 mg/L ampicillin and 0.5 mM ZnSO4. The cultures were grown to an OD600 of 0.1. Heterologous gene expression was then induced by the addition of 1 mM IPTG during the exponential phase of growth and lasted for 3–4 h at 30 °C. Subsequently, the cells were harvested (4000 g, 30 min, 4 °C) and flash frozen with liquid nitrogen and stored at −20 °C. For purification of CAS3, 10 g of E. coli cells were re-suspended in 30 mL lysis buffer (20 mM imidazole, 50 mM NaH2PO4 pH 8, 300 mM NaCl, 0.02 mM MgCl2, 1 “Protease Inhibitor Cocktail” Tablet (Roche, Germany)) and subsequently incubated for 30 min at 4 °C with a spatula tip of lysozyme (Serva, Germany, 28,262.03) and DNase I. After incubation, the cells were disrupted using a microfluidizer 110S (Microfluids, Germany). After centrifugation (50,000 × g, 30 min, 4 °C), the clarified lysate was applied on a Ni-NTA agarose (Qiagen, Germany, 1,018,244) column equilibrated with lysis buffer. Unbound proteins were removed by washing gradually with 3 column volumes (CV) of lysis buffer containing 40 mM, 60mM, 80 mM and 100 mM imidazole, respectively. The bound CAS3 was eluted with lysis buffer containing 250 mM imidazole. Elution fractions were analyzed by SDS-PAGE, pooled, concentrated in a “Spin-X® UF 20” (Corning, Germany) and stored at 4 °C. After purification, 5–7.5 mg of CAS3 could be obtained per L of culture [50].

4. Conclusions

Fungal CAs are of great interest for both biotechnological and pharmaceutical applications [30], since some of these enzymes are stable, relatively easy to produce and may be used as model enzymes for testing inhibitors/activators. Sordaria macrospora, an organism used as a genetic model to study fruiting body development of filamentous fungi, encodes for at least four different CAs, two of which, CAS1 and CAS2, have been thoroughly investigated earlier. Here, we proved that CAS3, another representative enzyme from this organism, belonging to the β-CA class, may be of interest for better understanding the roles these proteins play in various physiologic processes of fungi. Unlike CAS1 and CAS2 which showed rather low catalytic activity for the hydration of CO2 to bicarbonate and protons, CAS3 is a highly effective catalyst, showing kinetic parameters comparable to those of other fungal/mammalian enzymes, i.e., kcat of (7.9 ± 0.2) × 105 s−1 and kcat/Km of (9.5 ± 0.12) × 107 M−1 × s−1. A detailed inhibition study of CAS3 with anions and other small molecules known to bind to metalloenzymes is reported here. The most effective anions/small molecule inhibitors were diethyl-ditiocarbamate, sulfamide, sulfamate, phenyl boronic and phenyl arsonic acids, with KIs in the range of 0.89 mM–97 µM. Anions such as iodide, the pseudohalides, bicarbonate, carbonate, nitrate, nitrite, hydrogensulfide, stannate, selenate, tellurate, tetraborate, perrhenate, perruthenate, selenocyanide and trithiocarbonate were low millimolar inhibitors. The light halides, sulfate, hydrogensulfite, peroxydisulfate, diphosphate, divanadate, perchlorate, tetrafluoroborate, fluorosulfonate and iminodisulfonate did not significantly inhibit this enzyme. These data may be useful for developing antifungals based on CA inhibition, considering the fact that many of the relatively effective inhibitors reported here may be used as lead molecules and, by adding the appropriate scaffolds, they could generate potent, nanomolar inhibitors.

Author Contributions

D.V. performed the enzyme kinetic and all the inhibition assays; R.L., performed the cloning, expression and purification of the recombinant coral enzyme; W.A.D., C.T.S. and S.P. supervised the experiments and checked the results of performed experiments, wrote and edited the manuscript. All authors have read and agreed to the published version of the manuscript.

Funding

This research was financed in part by the Australian Research Council for funding to WAD and CTS, and by the Deutsche Forschungsgemienschaft PO523/5-1 to SP.

Conflicts of Interest

The authors declare no conflict of interest.

References

  1. Fukuda, Y.; Tse, K.M.; Nakane, T.; Nakatsu, T.; Suzuki, M.; Sugahara, M.; Inoue, S.; Masuda, T.; Yumoto, F.; Matsugaki, N. Redox-coupled proton transfer mechanism in nitrite reductase revealed by femtosecond crystallography. Proc. Natl. Acad. Sci. USA 2016, 113, 2928–2933. [Google Scholar] [CrossRef] [Green Version]
  2. Schaffner, I.; Hofbauer, S.; Krutzler, M.; Pirker, K.F.; Bellei, M.; Stadlmayr, G.; Mlynek, G.; Djinovic-Carugo, K.; Battistuzzi, G.; Furtmüller, P.G.; et al. Dimeric chlorite dismutase from the nitrogen-fixing cyanobacterium Cyanothece sp. PCC7425. Mol Microbiol. 2015, 96, 1053–1068. [Google Scholar] [CrossRef] [Green Version]
  3. Balasubramanian, A.; Ponnuraj, K. Crystal structure of the first plant urease from jack bean: 83 years of journey from its first crystal to molecular structure. J. Mol. Biol. 2010, 400, 274–283. [Google Scholar] [CrossRef] [PubMed]
  4. De Simone, G.; Supuran, C.T. (In)organic anions as carbonic anhydrase inhibitors. J. Inorg. Biochem. 2012, 111, 117–129. [Google Scholar] [CrossRef] [PubMed]
  5. Supuran, C.T.; Winum, J.Y. Introduction to zinc enzymes as drug targets. In Drug Design of Zinc-Enzyme Inhibitors: Functional, Structural, and Disease Applications; Supuran, C.T., Winum, J.Y., Eds.; Wiley: Hoboken, NJ, USA, 2009; pp. 3–12. [Google Scholar]
  6. Temperini, C.; Scozzafava, A.; Supuran, C.T. Carbonic anhydrase inhibitors. X-Ray crystal studies of the carbonic anhydrase II—Trithiocarbonate adduct—An inhibitor mimicking the sulfonamide and urea binding to the enzyme. Bioorg. Med. Chem. Lett. 2010, 20, 474–478. [Google Scholar] [CrossRef] [PubMed]
  7. Supuran, C.T. Structure and function of carbonic anhydrases. Biochem. J. 2016, 473, 2023–2032. [Google Scholar] [CrossRef]
  8. Supuran, C.T. Carbonic anhydrases: Novel therapeutic applications for inhibitors and activators. Nat. Rev. Drug Discov. 2008, 7, 168–181. [Google Scholar] [CrossRef] [PubMed]
  9. Carta, F.; Aggarwal, M.; Maresca, A.; Scozzafava, A.; McKenna, R.; Supuran, C.T. Dithiocarbamates: A new class of carbonic anhydrase inhibitors. Crystallographic and kinetic investigations. Chem. Commun. 2012, 48, 1868–1870. [Google Scholar] [CrossRef] [Green Version]
  10. Vullo, D.; Durante, M.; Di Leva, F.S.; Cosconati, S.; Masini, E.; Scozzafava, A.; Novellino, E.; Supuran, C.T.; Carta, F. Monothiocarbamates strongly inhibit carbonic anhydrases in vitro and possess intraocular pressure lowering activity in an animal model of glaucoma. J. Med. Chem. 2016, 59, 5857–5867. [Google Scholar] [CrossRef]
  11. Carta, F.; Akdemir, A.; Scozzafava, A.; Masini, E.; Supuran, C.T. Xanthates and trithiocarbonates strongly inhibit carbonic anhydrases and show antiglaucoma effects in vivo. J. Med. Chem. 2013, 56, 4691–4700. [Google Scholar] [CrossRef]
  12. Carta, F.; Aggarwal, M.; Maresca, A.; Scozzafava, A.; McKenna, R.; Masini, E.; Supuran, C.T. Dithiocarbamates strongly inhibit carbonic anhydrases and show antiglaucoma action in vivo. J. Med. Chem. 2012, 55, 1721–1730. [Google Scholar] [CrossRef] [PubMed] [Green Version]
  13. Aspatwar, A.; Hammarén, M.; Koskinen, S.; Luukinen, B.; Barker, H.; Carta, F.; Supuran, C.T.; Parikka, M.; Parkkila, S. β-CA-specific inhibitor dithiocarbamate Fc14-584B: A novel antimycobacterial agent with potential to treat drug-resistant tuberculosis. J. Enzyme Inhib. Med. Chem. 2017, 32, 832–840. [Google Scholar] [CrossRef] [Green Version]
  14. Nguyen, G.T.H.; Tran, T.N.; Podgorski, M.N.; Bell, S.G.; Supuran, C.T.; Donald, W.A. Nanoscale Ion Emitters in Native Mass Spectrometry for Measuring Ligand-Protein Binding Affinities. ACS Cent. Sci. 2019, 5, 308–318. [Google Scholar] [CrossRef] [PubMed] [Green Version]
  15. Murray, A.B.; Aggarwal, M.; Pinard, M.; Vullo, D.; Patrauchan, M.; Supuran, C.T.; McKenna, R. Structural Mapping of Anion Inhibitors to β-Carbonic Anhydrase psCA3 from Pseudomonas aeruginosa. ChemMedChem 2018, 13, 2024–2029. [Google Scholar] [CrossRef] [PubMed]
  16. Del Prete, S.; Vullo, D.; Osman, S.M.; AlOthman, Z.; Donald, W.A.; Winum, J.Y.; Supuran, C.T.; Capasso, C. Anion inhibitors of the β-carbonic anhydrase from the pathogenic bacterium responsible of tularemia, Francisella tularensis. Bioorg. Med. Chem. 2017, 25, 4800–4804. [Google Scholar] [CrossRef]
  17. Supuran, C.T.; Capasso, C. Carbonic Anhydrase from Porphyromonas gingivalis as a Drug Target. Pathogens 2017, 6, 30. [Google Scholar] [CrossRef] [Green Version]
  18. Supuran, C.T. Legionella pneumophila Carbonic Anhydrases: Underexplored Antibacterial Drug Targets. Pathogens 2016, 5, 44. [Google Scholar] [CrossRef] [Green Version]
  19. Haapanen, S.; Bua, S.; Kuuslahti, M.; Parkkila, S.; Supuran, C.T. Cloning, Characterization and Anion Inhibition Studies of a β-Carbonic Anhydrase from the Pathogenic Protozoan Entamoeba histolytica. Molecules 2018, 23, 3112. [Google Scholar] [CrossRef] [Green Version]
  20. Supuran, C.T. Inhibition of carbonic anhydrase from Trypanosoma cruzi for the management of Chagas disease: An underexplored therapeutic opportunity. Future Med. Chem. 2016, 8, 311–324. [Google Scholar] [CrossRef]
  21. Supuran, C.T.; Capasso, C. The η-class carbonic anhydrases as drug targets for antimalarial agents. Expert Opin. Ther. Targets 2015, 19, 551–563. [Google Scholar] [CrossRef]
  22. Del Prete, S.; Bua, S.; Zoccola, D.; Alasmary, F.A.S.; AlOthman, Z.; Alqahtani, L.S.; Techer, N.; Supuran, C.T.; Tambutté, S.; Capasso, C. Comparison of the Anion Inhibition Profiles of the α-CA Isoforms (SpiCA1, SpiCA2 and SpiCA3) from the Scleractinian Coral Stylophora pistillata. Int. J. Mol. Sci. 2018, 19, 2128. [Google Scholar] [CrossRef] [PubMed] [Green Version]
  23. Prete, S.D.; Angeli, A.; Ghobril, C.; Hitce, J.; Clavaud, C.; Marat, X.; Supuran, C.T.; Capasso, C. Anion Inhibition Profile of the β-Carbonic Anhydrase from the Opportunist Pathogenic Fungus Malassezia Restricta Involved in Dandruff and Seborrheic Dermatitis. Metabolites 2019, 9, 147. [Google Scholar] [CrossRef] [PubMed] [Green Version]
  24. Lehneck, R.; Neumann, P.; Vullo, D.; Elleuche, S.; Supuran, C.T.; Ficner, R.; Pöggeler, S. Crystal structures of two tetrameric β-carbonic anhydrases from the filamentous ascomycete Sordaria macrospora. FEBS J. 2014, 281, 1759–1772. [Google Scholar] [CrossRef] [PubMed] [Green Version]
  25. Innocenti, A.; Leewattanapasuk, W.; Mühlschlegel, F.A.; Mastrolorenzo, A.; Supuran, C.T. Carbonic anhydrase inhibitors. Inhibition of the beta-class enzyme from the pathogenic yeast Candida glabrata with anions. Bioorg. Med. Chem. Lett. 2009, 19, 4802–4805. [Google Scholar] [CrossRef]
  26. Isik, S.; Kockar, F.; Arslan, O.; Guler, O.O.; Innocenti, A.; Supuran, C.T. Carbonic anhydrase inhibitors. Inhibition of the beta-class enzyme from the yeast Saccharomyces cerevisiae with anions. Bioorg. Med. Chem. Lett. 2008, 18, 6327–6331. [Google Scholar] [CrossRef]
  27. Innocenti, A.; Mühlschlegel, F.A.; Hall, R.A.; Steegborn, C.; Scozzafava, A.; Supuran, C.T. Carbonic anhydrase inhibitors: Inhibition of the beta-class enzymes from the fungal pathogens Candida albicans and Cryptococcus neoformans with simple anions. Bioorg. Med. Chem. Lett. 2008, 18, 5066–5070. [Google Scholar] [CrossRef]
  28. Innocenti, A.; Zimmerman, S.; Ferry, J.G.; Scozzafava, A.; Supuran, C.T. Carbonic anhydrase inhibitors. Inhibition of the beta-class enzyme from the methanoarchaeon Methanobacterium thermoautotrophicum (cab) with anions. Bioorg. Med. Chem. Lett. 2004, 14, 4563–4567. [Google Scholar] [CrossRef]
  29. Nocentini, A.; Supuran, C.T. Advances in the structural annotation of human carbonic anhydrases and impact on future drug discovery. Expert Opin. Drug Discov. 2019, 14, 1175–1197. [Google Scholar] [CrossRef]
  30. Lehneck, R.; Pöggeler, S. Fungal carbonic anhydrases and their inhibition. In Zinc Enzyme Inhibitors—Volume 1: Enzymes from Microorganisms; Supuran, C.T., Capasso, C., Eds.; Topics in Medicinal Chemistry; Springer: Cham, Switzerland, 2017; Volume 22, pp. 95–110. [Google Scholar]
  31. Supuran, C.T.; Capasso, C. Biomedical applications of prokaryotic carbonic anhydrases. Expert Opin. Ther. Pat. 2018, 28, 745–754. [Google Scholar] [CrossRef]
  32. Annunziato, G.; Giovati, L.; Angeli, A.; Pavone, M.; Del Prete, S.; Pieroni, M.; Capasso, C.; Bruno, A.; Conti, S.; Magliani, W.; et al. Discovering a new class of antifungal agents that selectively inhibits microbial carbonic anhydrases. J. Enzyme Inhib. Med. Chem. 2018, 33, 1537–1544. [Google Scholar] [CrossRef] [Green Version]
  33. Del Prete, S.; Angeli, A.; Ghobril, C.; Hitce, J.; Clavaud, C.; Marat, X.; Supuran, C.T.; Capasso, C. Sulfonamide Inhibition Profile of the β-Carbonic Anhydrase from Malassezia restricta, An Opportunistic Pathogen Triggering Scalp Conditions. Metabolites 2020, 10, 39. [Google Scholar] [CrossRef] [PubMed] [Green Version]
  34. Vullo, D.; Lehneck, R.; Pöggeler, S.; Supuran, C.T. Sulfonamide inhibition studies of two β-carbonic anhydrases from the ascomycete fungus Sordaria macrospora, CAS1 and CAS2. J. Enzyme Inhib. Med. Chem. 2018, 33, 390–396. [Google Scholar] [CrossRef] [PubMed] [Green Version]
  35. Hewitson, K.S.; Vullo, D.; Scozzafava, A.; Mastrolorenzo, A.; Supuran, C.T. Molecular cloning, characterization, and inhibition studies of a β-carbonic anhydrase from Malassezia globosa, a potential antidandruff target. J. Med. Chem. 2012, 55, 3513–3520. [Google Scholar] [CrossRef] [PubMed]
  36. Teichert, I.; Nowrousian, M.; Pöggeler, S.; Kück, U. The filamentous fungus Sordaria macrospora as a genetic model to study fruiting body development. Adv. Genet. 2014, 87, 201–246. [Google Scholar]
  37. Elleuche, S.; Pöggeler, S. Evolution of carbonic anhydrases in fungi. Curr. Genet. 2009, 55, 211–222. [Google Scholar] [CrossRef] [Green Version]
  38. Elleuche, S.; Pöggeler, S. β-Carbonic anhydrases play a role in fruiting body development and ascospore germination in the filamentous fungus Sordaria macrospora. PLoS ONE 2009, 4, e5177. [Google Scholar] [CrossRef] [Green Version]
  39. Elleuche, S.; Pöggeler, S. Carbonic anhydrases in fungi. Microbiology 2010, 156, 23–29. [Google Scholar] [CrossRef] [Green Version]
  40. Lehneck, R.; Elleuche, S.; Pöggeler, S. The filamentous ascomycete Sordaria macrospora can survive in ambient air without carbonic anhydrases. Mol. Microbiol. 2014, 95, 931–944. [Google Scholar] [CrossRef]
  41. Schlicker, C.; Hall, R.A.; Vullo, D.; Middelhaufe, S.; Gertz, M.; Supuran, C.T.; Muhlschlegel, F.A.; Steegborn, C. Structure and inhibition of the CO2-sensing carbonic anhydrase Can2 from the pathogenic fungus Cryptococcus neoformans. J. Mol. Biol. 2009, 385, 1207–1220. [Google Scholar] [CrossRef]
  42. Diaz, J.R.; Fernández Baldo, M.; Echeverría, G.; Baldoni, H.; Vullo, D.; Soria, D.B.; Supuran, C.T.; Camí, G.E. A substituted sulfonamide and its Co (II), Cu (II), and Zn (II) complexes as potential antifungal agents. J. Enzyme Inhib. Med. Chem. 2016, 31, 51–62. [Google Scholar] [CrossRef] [Green Version]
  43. Thompson, J.D.; Gibson, T.J.; Higgins, D.G. Multiple sequence alignment using ClustalW and ClustalX. Curr. Protoc. Bioinform. 2002, 2, 2–3. [Google Scholar] [CrossRef] [PubMed]
  44. Khalifah, R.G. The carbon dioxide hydration activity of carbonic anhydrase. I. Stop-flow kinetic studies on the native human isoenzymes B and C. J. Biol. Chem. 1971, 246, 2561–2573. [Google Scholar] [PubMed]
  45. Ferraroni, M.; Del Prete, S.; Vullo, D.; Capasso, C.; Supuran, C.T. Crystal structure and kinetic studies of a tetrameric type II β-carbonic anhydrase from the pathogenic bacterium Vibrio cholerae. Acta Crystallogr. D Biol. Crystallogr. 2015, 71, 2449–2456. [Google Scholar] [CrossRef] [PubMed]
  46. Suarez Covarrubias, A.; Larsson, A.M.; Hogbom, M.; Lindberg, J.; Bergfors, T.; Bjorkelid, C.; Mowbray, S.L.; Unge, T.; Jones, T.A. Structure and function of carbonic anhydrases from Mycobacterium tuberculosis. J. Biol. Chem. 2005, 280, 18782–18789. [Google Scholar] [CrossRef] [PubMed] [Green Version]
  47. Suarez Covarrubias, A.; Brgfors, T.; Jones, T.A.; Hogbom, M. Structural mechanics of the pH-dependent activity of the β-carbonic anhydrase from Mycobacterium tuberculosis. J. Biol. Chem. 2006, 281, 4993–4999. [Google Scholar] [CrossRef] [Green Version]
  48. Smith, K.S.; Ingram-Smith, C.; Ferry, J.G. Roles of the conserved aspartate and arginine in the catalytic mechanism of an archaeal beta-class carbonic anhydrase. J. Bacteriol. 2002, 184, 4240–4245. [Google Scholar] [CrossRef] [Green Version]
  49. Tufts, B.L.; Esbaugh, A.; Lund, S.G. Comparative physiology and molecular evolution of carbonic anhydrase in the erythrocytes of early vertebrates. Comp. Biochem. Physiol. A Mol. Integr. Physiol. 2003, 136, 259–269. [Google Scholar] [CrossRef]
  50. Vullo, D.; Lehneck, R.; Donald, W.A.; Pöggeler, S.; Supuran, C.T. Sulfonamide Inhibition Studies of the β-Class Carbonic Anhydrase CAS3 from the Filamentous Ascomycete Sordaria macrospora. Molecules 2020, 25, 1036. [Google Scholar] [CrossRef] [Green Version]
Metabolites 10 00093 g001 550
Figure 1. Alignment of three β-class CAs from Sordaria macrospora. Sequences were aligned to using ClustalX [43]. Residues, which are conserved in all three sequences, are indicated in white and highlighted in black, and identical amino acids in the two sequences are highlighted in grey. Conserved amino acids that are predicted to be important for zinc-coordination (Cys41, His93 and Cys96 in CAS3) are marked by an asterisk, and residues of the catalytic dyad (Asp43 and Arg45 in CAS3) are marked by a dot. Amino acid positions are given as numbers at the right side of the alignment. The N-terminal mitochondrial target sequence (aa 1–59) of CAS2 is boxed.
Figure 1. Alignment of three β-class CAs from Sordaria macrospora. Sequences were aligned to using ClustalX [43]. Residues, which are conserved in all three sequences, are indicated in white and highlighted in black, and identical amino acids in the two sequences are highlighted in grey. Conserved amino acids that are predicted to be important for zinc-coordination (Cys41, His93 and Cys96 in CAS3) are marked by an asterisk, and residues of the catalytic dyad (Asp43 and Arg45 in CAS3) are marked by a dot. Amino acid positions are given as numbers at the right side of the alignment. The N-terminal mitochondrial target sequence (aa 1–59) of CAS2 is boxed.
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Metabolites 10 00093 g002 550
Figure 2. Active site architecture of a generic β-CA: (A) a closed-active site enzyme [45,46,47] with the zinc ion (magenta sphere) coordinated by a His residue (in blue), two Cys residues (in green) and an Asp residue of the catalytic dyad (in red). (B) Open active site. The His and Cys residues remain coordinated to the Zn(II) ion whereas the Asp makes a pH dependent salt bridge interaction with the Arg of the dyad. Thus, the fourth coordination position of Zn(II) will be occupied by a water molecule (not shown). In the case of CAS3, Cys41, His93 and Cys96, the residues are shown in panels A and B, and the Asp43 in panel A is coordinated to the Zn(II) ion or forms a salt bridge with Arg45 in panel B.
Figure 2. Active site architecture of a generic β-CA: (A) a closed-active site enzyme [45,46,47] with the zinc ion (magenta sphere) coordinated by a His residue (in blue), two Cys residues (in green) and an Asp residue of the catalytic dyad (in red). (B) Open active site. The His and Cys residues remain coordinated to the Zn(II) ion whereas the Asp makes a pH dependent salt bridge interaction with the Arg of the dyad. Thus, the fourth coordination position of Zn(II) will be occupied by a water molecule (not shown). In the case of CAS3, Cys41, His93 and Cys96, the residues are shown in panels A and B, and the Asp43 in panel A is coordinated to the Zn(II) ion or forms a salt bridge with Arg45 in panel B.
Metabolites 10 00093 g002
Table
Table 1. Kinetic parameters for the CO2 hydration reaction [44] catalyzed by the three CAS enzymes. CAS1-CAS3, the human cytosolic isozymes hCA I and II (α-class CAs) at 20 °C and pH 7.5 in 10 mM HEPES buffer (for the α-CAs), as well as Can2 (from C. neoformans), CalCA (from C. albicans), SceCA (from S. cerevisiae) and Cab (from the archaeon Methanobacterium thermoautotrophicum) measured at 20 °C, pH 8.3 in 20 mM TRIS buffer and 20 mM NaClO4. (for all β-CAs). Inhibition data with the clinically used sulfonamide acetazolamide (5-acetamido-1,3,4-thiadiazole-2-sulfonamide) are also provided.
Table 1. Kinetic parameters for the CO2 hydration reaction [44] catalyzed by the three CAS enzymes. CAS1-CAS3, the human cytosolic isozymes hCA I and II (α-class CAs) at 20 °C and pH 7.5 in 10 mM HEPES buffer (for the α-CAs), as well as Can2 (from C. neoformans), CalCA (from C. albicans), SceCA (from S. cerevisiae) and Cab (from the archaeon Methanobacterium thermoautotrophicum) measured at 20 °C, pH 8.3 in 20 mM TRIS buffer and 20 mM NaClO4. (for all β-CAs). Inhibition data with the clinically used sulfonamide acetazolamide (5-acetamido-1,3,4-thiadiazole-2-sulfonamide) are also provided.
IsozymeActivity Levelkcat (s−1) kcat/Km (M−1 × s−1)KI (Acetazolamide) (nM)
hCA I amoderate2.0 × 1055.0 × 107250
hCA II avery high1.4 × 1061.5 × 10812
Can2 bmoderate3.9 × 1054.3 × 10710.5
CalCAchigh8.0 × 1059.7 × 107132
SceCA dhigh9.4 × 105 9.8 × 107 82
Cab elow3.1 × 1041.82 × 10612,100
CAS1 flow1.2 × 1041.30 × 106445
CAS2 flow1.3 × 1041.21 × 106816
CAS3 ghigh(7.9 ± 0.2) × 105(9.5 ± 0.12) × 10794 ± 3
a From refs. [7,8]; b From ref. [41]; c From ref. [27]; d From ref. [26]; e From ref. [28]; f From ref. [24]; g This work.
Table
Table 2. Inhibition constants of anionic inhibitors against α-CA isozymes of human origin (hCA II), and the three β-CAs from Sordaria macrospora, CAS1, CAS2 and CAS3, at 20 °C by a stopped flow CO2 hydrase assay [44].
Table 2. Inhibition constants of anionic inhibitors against α-CA isozymes of human origin (hCA II), and the three β-CAs from Sordaria macrospora, CAS1, CAS2 and CAS3, at 20 °C by a stopped flow CO2 hydrase assay [44].
Inhibitor §hCA II aKI [mM] # CAS1 bCAS2 bCAS3 c
F->300>100>100>100
Cl-2009.2>100>100
Br-639.3>100>100
I-268.67.79.9
CNO-0.030.90.823.2
SCN-1.65.45.67.3
CN-0.020.940.758.7
N3-1.51>1006.17.2
HCO3-856.55.53.4
CO32-73>1008.88
NO3-35>100>1008.5
NO2-63>100>1008.3
HS-0.040.898.58.3
HSO3-893.37.3>100
SO42->200>1004.8>100
SnO32-0.834.30.927.9
SeO42-1122.49.23.4
TeO42-0.922.56.38.1
P2O74-48.53.10.96>100
V2O74-0.57>1001.4>100
B4O72-0.956.76.95.9
ReO4-0.758.2>1008.8
RuO4-0.693.9>1009.2
S2O82-0.0845>100>100
SeCN-0.0862.99.37.1
CS32-0.00880.79>1008.6
Et2NCS2-3.10.380.930.89
ClO4->200> 100> 100>100
BF4->200> 100> 100>100
FSO3-0.460.938.4>100
NH(SO3)22-0.760.889.2>100
H2NSO2NH21.130.0840.0480.094
H2NSO3H0.390.0690.0720.095
Ph-B(OH)223.10.0090.0560.097
Ph-AsO3H249.20.0350.0540.091
§ As sodium salts, except sulfamide and phenylboronic acid; # Errors were in the range of 3%–5% of the reported values from three different assays (data not shown).a From refs. [7,8]; b From ref. [24]; c This work.

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Vullo, D.; Lehneck, R.; Donald, W.A.; Pöggeler, S.; Supuran, C.T. Anion Inhibition Studies of the β-Class Carbonic Anhydrase CAS3 from the Filamentous Ascomycete Sordaria macrospora. Metabolites 2020, 10, 93. https://doi.org/10.3390/metabo10030093

AMA Style

Vullo D, Lehneck R, Donald WA, Pöggeler S, Supuran CT. Anion Inhibition Studies of the β-Class Carbonic Anhydrase CAS3 from the Filamentous Ascomycete Sordaria macrospora. Metabolites. 2020; 10(3):93. https://doi.org/10.3390/metabo10030093

Chicago/Turabian Style

Vullo, Daniela, Ronny Lehneck, William A. Donald, Stefanie Pöggeler, and Claudiu T. Supuran. 2020. "Anion Inhibition Studies of the β-Class Carbonic Anhydrase CAS3 from the Filamentous Ascomycete Sordaria macrospora" Metabolites 10, no. 3: 93. https://doi.org/10.3390/metabo10030093

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