Human Carbonic Anhydrase II Research Articles

Identification, crystallization, and first X-ray structure analyses of phenyl boronic acid-based inhibitors of human carbonic anhydrase-II

Human carbonic anhydrases (hCAs) play a central role in various physiological processes in the human body. HCAs catalyze the reversible hydration of CO2 into HCO3−, and hence maintains the fluid and pH balance. Overexpression of CA II is associated with diseases, such as glaucoma, and epilepsy. Therefore, CAs are important clinical targets and inhibition of different isoforms, especially hCA II is used in treatment of glaucoma, altitude sickness, and epilepsy. Therapeutically used CA inhibitors (CAI) are sulfonamide-based, such as acetazolamide, dichlorphenamide, methazolamide, ethoxzolamide, etc. However, they exhibit several undesirable effects such as numbness, tingling of extremities, malaise, metallic taste, fatigue, renal calculi, and metabolic acidosis. Therefore, there is an urgent need to identify safe and effective inhibitors of the hCAs. In this study, different phenyl boronic acids 1–5 were evaluated against bovine (bCA II) and hCA II. Among all, compound 1 (4-acetylphenyl boronic acid) was found to be active against bCAII and hCA II with IC50 values of 246 ± 0.48 and 281.40 ± 2.8 μM, respectively, while the remaining compounds were found in-active. Compound 1 was identified as competitive inhibitor of hCA II enzyme (Ki = 283.7 ± 0.002 μM). Additionally, compound 1 was found to be non-toxic against BJ Human fibroblast cell line. The X-ray crystal structure for hCA II in-complex with compound 1 was evaluated to a resolution of 2.6 Å. In fact, this the first structural analysis of a phenyl boron-based inhibitor bound to hCA II, allowing an additional structure-activity analysis of the compounds. Compound 1 was found to be directly bound in the active site of hCA II by interacting with His94, His119, and Thr199 residues. In addition, a bond of 3.11 Å between the zinc ion and coordinated boron atom of the boronic acid moiety of compound 1 was also observed, contributing to binding affinity of compound 1 for hCA II. PDB ID8IGF.

In-silico Studies of Quinazolinone Analogues to Distinguish their Hypothetical Binding Mode using the X-ray crystal Structure Human carbon Anhydrase II (HCAII) Enzyme Complex with Sugar Sulfamate for Anticonvulsant Activity

The quinazolinone moiety is a significant pharmacophore that depicts various types of pharmacological activities as shown in recent exhaustive ligatures. Quinazolinone exhibit potent central nervous system (CNS) activities like anti-anxiety, analgesic, anti-inflammatory and anticonvulsant. To develop these views and application profiles, attempt have been made to report a drug/ligand or receptor/protein interactions by identifying the suitable active site against X-ray crystal structure of Human Carbonic Anhydrase II (HCA II) enzyme for anticonvulsant activity using Vlife MDS version 4.6 Software because the protein-ligand interaction plays a significant role in structural based drug designing. The interaction was evaluated based on the score comparison between quinazolinone derivatives with sugar sulfamate. The quinazolinone ring forms hydrophobic and hydrogen bond contacts amino acid residues. The ligands 4t and 4s were shown to possess minimum dock score i.e. minimum binding energy in Kcal/mole i.e. these molecules has more affinity for the active site of the receptor. Molecules with low dock score and binding energy show more affinity towards the receptor. The data reported in this article may be helpful for the medicinal chemists who are working in this area.

Biochemical and in silico inhibition of bovine and human carbonic anhydrase-II by 1H-1,2,3-triazole analogs.

A series of 1H-1,2,3-triazole analogs (7a-7d and 9a-9s) were synthesized via "click" chemistry and evaluated for in vitro carbonic anhydrase-II (bovine and human) inhibitory activity. The synthesis of intermediates, 7a and 7c, was achieved by using (S)-(-)ethyl lactate as a starting material. These compounds (7a and 7c) underwent Suzuki-Miyaura cross-coupling reaction with different arylboronic acids in 1,4-dioxane, reflux at 90-120°C for 8h using Pd(PPh3)4 as a catalyst (5mol%), and K2CO3 (3.0 equiv)/K2PO4 (3.0 equiv) as a base to produce target 1H-1,2,3-triazole molecules (9a-9s) for a good yield of 67-86%. All the synthesized compounds were characterized through NMR spectroscopic techniques. Furthermore, all those compounds have shown significant inhibitory potential for both sources of carbonic anhydrase-II (CA-II). In the case of bCA-II, compounds 9i, 7d, 9h, 9o, 9g, and 9e showed potent activity with IC50 values in the range of 11.1-17.8µM. Whereas for hCA-II, compounds 9i, 9c, 9o, and 9j showed great potential with IC50 values in the range of 10.9-18.5µM. The preliminary structure-activity relationship indicates that the presence of the 1H-1,2,3-triazole moiety in those synthesized 1H-1,2,3-triazole analogs (7a-7d and 9a-9s) significantly contributes to the overall activity. However, several substitutions on this scaffold affect the activity to several folds. The selectivity index showed that compounds 9c, 9k, and 9p are selective inhibitors of hCA-II. Kinetics studies showed that these compounds inhibited both enzymes (bCA-II and hCA-II) in a competitive manner. Molecular docking indicates that all the active compounds fit well in the active site of CA-II. This study has explored the role of 1H-1,2,3-triazole-containing compounds in the inhibition of CA-II to combat CA-II-related disorders.

Computational Studies on Isolated Compounds of Sclerochloa dura; their Efficacy towards Carbonic Anhydrase Inhibition and Anti-cancer Drug Targets

Background: In the previous study, we reported the isolation of six compounds from Sclerochloa dura and their in-vitro anti-inflammatory potential by their ability to inhibit phospholipase A2 (PLA2). The objective of current study is to inspect the effect of these compounds on other expected targets. Methods: For this purpose, various targets and percentage activities are predicted through CoFFer (QSAR) web service. All six compounds under investigation represented 99-100% activity towards carbonic anhydrases (CAs) and 90-100% activity towards anti-cancer drug targets. As active site of most of the carbonic anhydrase isozymes is conserved, we selected cytosolic human carbonic anhydrase II (hCA II) for docking studies which is ubiquitous and involved in various human disorders such as glaucoma, pulmonary edema and epilepsy. Anticancer drug targets include vascular endothelial growth factor receptor 2 (VEGFR2), glucocorticoid receptor (GR) and tyrosine protein kinase (c- SRC). Interaction of these compounds with hCA II (PDB ID:3P4V) and anti-cancer drug targets such as VEGFR2 (ID:3WZD), GR (ID:5G5W) and c-SRC (ID:2SRC), were analyzed through molecular docking studies using MOE (Molecular Operating Environment). Results: The findings suggested that most of these compounds represent excellent binding affinity with hCA II by making interaction with zinc-coordinated water molecule through sulfonic acid group or hydroxyl group present in the compounds. Similarly, five out of six compounds represented excellent interaction with VEGFR2. Interactions with GR indicated that compounds 2, 3, and 6 bind effectively as compared to their co-crystallized ligands. However, among these, the excellent binding affinity with c-SRC was demonstrated by compounds 3 and 6. Conclusion: This study revealed that all these compounds exhibited excellent interaction with the active site of hCA II, however in the light of previously reported data and due to membrane barrier, only compound 1 (due to long hydrophobic tail) and compound 4 (due to absence of bulky carbohydrate groups), can only penetrate inside the cytosol. Compounds 2, 3, 4, and 6 containing bulky carbohydrate moieties cannot penetrate inside the cell, therefore, they might have selective nature towards membrane-bounded tumor-associated hCA IX. This anti-tumor property of compounds was also proved by docking studies with VEGFR2, GR and c-SRC. Therefore, these compounds may have synergistic effects against inflammation and cancer. The ADMET studies show that compounds have moderate absorption and permeability along with slight toxicity.

Quinazolinones as Competitive Inhibitors of Carbonic Anhydrase-II (Human and Bovine): Synthesis, in-vitro, in-silico, Selectivity, and Kinetics Studies.

Carbonic anhydrase-II (CA-II) is associated with glaucoma, malignant brain tumors, and renal, gastric, and pancreatic carcinomas and is mainly involved in the regulation of the bicarbonate concentration in the eyes. CA-II inhibitors can be used to reduce the intraocular pressure usually associated with glaucoma. In search of potent CA-II inhibitors, a series of quinazolinones derivatives (4a-p) were synthesized and characterized by IR and NMR spectroscopy. The inhibitory potential of all the compounds was evaluated against bovine carbonic anhydrase-II (bCA-II) and human carbonic anhydrase-II (hCA-II), and compounds displayed moderate to significant inhibition with IC50 values of 8.9–67.3 and 14.0–59.6 μM, respectively. A preliminary structure-activity relationship suggested that the presence of a nitro group on the phenyl ring at R position contributes significantly to the overall activity. Kinetics studies of the most active inhibitor, 4d, against both bCA-II and hCA-II were performed to investigate the mode of inhibition and to determine the inhibition constants (Ki). According to the kinetics results, 4d is a competitive inhibitor of bCA-II and hCA-II with Ki values of 13.0 ± 0.013 and 14.25 ± 0.017 μM, respectively. However, the selectivity index reflects that the compounds 4g and 4o are more selective for hCA-II. The binding mode of these compounds within the active sites of bCA-II and hCA-II was investigated by structure-based molecular docking. The docking results are in complete agreement with the experimental findings.

The devil is in the C-tail: a NBCe1-carbonic anhydrase bicarbonate transport metabolon?

The concept of metabolons is well established in biochemistry as structural–metabolic complexes in cells that facilitate substrate channelling through the complex and is best exemplified by the citric acid cycle enzymes. Similarly, an arrangement of enzymes was suggested to promote the transport of acid/base equivalents across the plasma membrane by the Reithmeier group. The concept was supported by direct evidence of physical interaction of an acid/base transporter and carbonic anhydrase (Vince & Reithmeier, 1998) and emboldened by the demonstration of a functional advantage for such an arrangement called a ‘transport metabolon’ (Sterling et al. 2001). The direct protein interaction was first reported for the C-terminal of anion exchanger AE1 (band 3) and the cytosolic ubiquitous carbonic anhydrase II (CAII). Since then, the field has evolved to other acid/base transporters of the SLC4 gene family of HCO3− transporters, the Na+/H+ exchangers (NHE) and monocarboxylate transporters interacting with soluble or membrane-bound CA isozymes in various expression systems and native tissues. Discrepancies have since evolved both regarding the direct physical interaction of acid/base transporters and CA enzymes, and regarding the functional interaction between the individual molecules of such complexes. This ‘Perspectives’ article only addresses the case of the functional interaction of the human renal form of the electrogenic Na+:HCO3− cotransporter NBCe1-A (kNBCe1) and CAII when expressed in Xenopus laevis oocytes, but may prove highly relevant for the metabolon field as such. In one study, the NBCe1 function determined as the current slope conductance (Gm INBC) was not affected by injection of CAII protein or the expression of either NBCe1-CAII or eGFP-NBCe1-CAII fusion proteins (Lu et al. 2006). No effect of the cell-permeant CA inhibitor ethoxyzolamide (EZA) on the Gm INBC was observed. In a separate and opposing study, NBCe1 function assessed as the changes in membrane current (Im), the Na+ flux (d[Na+]i/dt), as well as the membrane conductance (Gm) was augmented by bovine CA protein injection or CAII co-expression (Becker & Deitmer 2007). The induced changes in current and Na+ fluxes were EZA-sensitive in this study. Thus, although the two studies applied similar methodological set-ups at first glance, the results were contrasting. Each paper is compelling to the reader, and both studies were carefully and elegantly performed. Moss and Boron (2020) first carefully replicate the findings by Lu et al. (2006) and then elegantly rule out differences in the amount of injected cRNA, CAII protein and eGFP tag as contributing factors to conflicting results by the two groups. Furthermore, they show that prolonged EZA exposure or the high EZA concentration by Lu et al. were not causing the inconsistency between the previous studies. It also appears that the variations in voltage-clamping protocols cannot explain the contradicting results per se (Moss & Boron 2020). Remarkably, the authors are able to closely replicate the fundamental observations by Becker & Deitmer (2007) that injection of bovine CA in oocytes expressing untagged NBCe1 increases the Na+ flux (d[Na+]i/dt)max as well as the membrane current Im, effects that are sensitive to CA inhibition by EZA. This is apparently only possible 1) in the absence of eGFP tag, 2) by bovine CA injection instead of human CAII, and 3) applying the prolonged -40mV voltage clamp and 10 s step duration of I-V ramps. Surprisingly, Moss and Boron demonstrate that injection of either human CAII or bovine CA alone in oocytes induces an electroneutral process that increases Na+ uptake and acid extrusion upon CO2-induced acid loading. The authors ascribe the effects to the induction of endogenous NHE activity, as this process is inhibited by EIPA. Interestingly, EIPA also prevents the EZA-sensitive change in Im and (d[Na+]i/dt)max induced by injection of bovine CA using the prolonged -40 mV voltage clamp protocol. Thus, Moss and Boron explain the discrepancy between the previous studies (Lu et al. 2006 vs. Becker & Deitmer 2007) by the induction of native NHE activity by exogenous CA in Xenopus oocytes. With the study by Moss and Boron (2020), the specific controversy regarding enhanced NBCe1 activity by CA in oocytes has most likely been fully resolved. The authors accomplished a systematic comparison of experimental approaches resulting in a study with high internal consistency presented in a respectful and transparent manner. The take-home message is that even the most careful studies by world-renowned laboratories can reach conflicting conclusions and that unexpected sources of discrepancies can be identified by hard and meticulous work. The findings by Moss and Boron (2020) should impact the broader transport metabolon field; however, the conclusions can probably not be extrapolated to all other cases of acid/base transporters, CA forms and cell types for which transport metabolons have been suggested. Hopefully, time will tell. None. Sole author. None.

Structure and mechanism of copper-carbonic anhydrase II: a nitrite reductase.

Nitric oxide (NO) promotes vasodilation through the activation of guanylate cyclase, resulting in the relaxation of the smooth muscle vasculature and a subsequent decrease in blood pressure. Therefore, its regulation is of interest for the treatment and prevention of heart disease. An example is pulmonary hypertension which is treated by targeting this NO/vasodilation pathway. In bacteria, plants and fungi, nitrite (NO2 -) is utilized as a source of NO through enzymes known as nitrite reductases. These enzymes reduce NO2 - to NO through a catalytic metal ion, often copper. Recently, several studies have shown nitrite reductase activity of mammalian carbonic anhydrase II (CAII), yet the molecular basis for this activity is unknown. Here we report the crystal structure of copper-bound human CAII (Cu-CAII) in complex with NO2 - at 1.2 Å resolution. The structure exhibits Type 1 (T-1) and 2 (T-2) copper centers, analogous to bacterial nitrite reductases, both required for catalysis. The copper-substituted CAII active site is penta-coordinated with a 'side-on' bound NO2 -, resembling a T-2 center. At the N terminus, several residues that are normally disordered form a porphyrin ring-like configuration surrounding a second copper, acting as a T-1 center. A structural comparison with both apo- (without metal) and zinc-bound CAII (Zn-CAII) provides a mechanistic picture of how, in the presence of copper, CAII, with minimal conformational changes, can function as a nitrite reductase.

Structure-activity relationship of human carbonic anhydrase-II inhibitors: Detailed insight for future development as anti-glaucoma agents.

Human carbonic anhydrase-II (hCA-II) is the most dominant physiologic isoform amongst the sixteen reported hCA isoforms. Because of its high availability in the different anatomical, and cellular sites of the eye like retina and lens, it plays a more prominent role in the regulation of intraocular pressure than the other twelve catalytically active hCA isoforms. This isoform is also located in the brain, kidney, gastric mucosa, osteoclasts, RBCs, skeletal muscle, testes, pancreas, lungs, etc. Earlier, hCA-II inhibitors were designed based on the sulfonamides e.g. acetazolamide, dichlorphenamide, methazolamide, ethoxzolamide, etc. and they were used systemically in antiglaucoma therapy. Many successful attempts have been made by the researchers in order to design more potent and effective inhibitors by incorporating various moieties in sulphonamides. Some novel scaffolds like chalcones, thiophenes, organotellurium compounds, dithiocarbamate, selenide, and 2-benzylpyrazine, etc. were also designed as hCA-II inhibitors and their inhibitory efficacy was proved in the nanomolar range. In order to obtain relevant information from the insights of their structure-activity relationship, the reported hCA-II inhibitors from the year 1989 to 2019 were critically analysed. It gave a complete insight into the relationship between their structure-activity and hCA-II inhibition. The broad spectrum of our investigation may help researchers to summarize all the crucial structural information required for the development of more potent hCA-II inhibitors for glaucoma.

Effect of disease-linked mutations on the structure, function, stability and aggregation of human carbonic anhydrase II

Point mutations in gene sequence often lead to protein misfolding or destabilization which is a well-known cause of a number of loss-of-function diseases. The carriers of point mutations in the human carbonic anhydrase II (HCAII) gene have been recognized to display carbonic anhydrase II deficiency syndrome (CADS). Two such single point mutations linked with CADS involve Gly145Arg and His94Tyr substitution. In the present study, we obtained these two single mutants of HCAII using site-directed mutagenesis, and successfully expressed and purified them. To examine the effect of mutations on the structure and function of HCAII, we carried out circular dichroism, intrinsic fluorescence, NMR measurements and activity assays. Studies suggest that the mutant proteins undergo local structural perturbations and have compromised native state stability. HCAIIH94Y (H94Y), being an active site mutant, shows larger destabilization effect as compared to HCAIIG145R (G145R). GdnHCl-denaturation studies showed that HCAII unfolding is a two-step process (N ⇌ I ⇌ U) and the free energy of first transition (N ⇌ I) decreases by 1.5 kJ mol−1 and 4.9 kJ mol−1 for G145R and H94Y, respectively. Conformational changes and enzyme activity were established through various spectroscopic techniques.

The Human Carbonic Anhydrase II in Platelets: An Underestimated Field of Its Activity.

Carbonic anhydrases constitute a group of enzymes that catalyse reversible hydration of carbon dioxide leading to the formation of bicarbonate and proton. The platelet carbonic anhydrase II (CAII) was described for the first time in the '80s of the last century. Nevertheless, its direct role in platelet physiology and pathology still remains poorly understood. The modulation of platelet CAII action as a therapeutic approach holds promise as a novel strategy to reduce the impact of cardiovascular diseases. This short review paper summarises the current knowledge regarding the role of human CAII in regulating platelet function. The potential future directions considering this enzyme as a potential drug target and important pathophysiological chain in platelet-related disorders are described.

Evaluation of toxicological, diuretic, and laxative properties of ethanol extract from Macrothelypteris Torresiana (Gaudich) aerial parts with In silico docking studies of polyphenolic compounds on carbonic anhydrase II: An enzyme target for diuretic activity

Background: Macrothelypteris torresiana (Gaudich) is a species of fern having a wide range of reputed medicinal properties for the treatment of inflammation, fever, renal failure, stomach problems, etc. Objective: The present investigation focused on the evaluation of toxicity profile and diuretic and laxative activities of ethanol extract from M. torresiana aerial parts (EEMTAP), with in silico docking studies of polyphenolic compounds on carbonic anhydrase (CA)-II, an enzyme target for diuretic activity. Materials and Methods: Acute and subacute toxicity was performed according to the Organization for Economic Co-operation and Development guidelines. EEMTAP at doses of 200, 400, and 600 mg/kg, p.o., employed for the assessment of diuretic and laxative activities with loperamide-induced constipation in Wistar albino rats. Furosemide (10 mg/kg, p.o.), agar-agar (300 mg/kg, p.o.), and sodium picosulfate (5 mg/kg, p.o) were used as reference standards, respectively, for activity comparison. During saluretic activity study, total urine volume, body weight before and after the experiment, and urinary levels of Na+, K+ (by flame photometry), and Cl− (by titrimetry) were estimated. Polyphenolic compounds such as caffeic acid and quercetin were successfully detected through chromatographic method of EEMTAP, and to rationalize the results obtained in diuretic activities, we carried out docking studies of the natural phenolic compounds against CA-II enzyme co-complexed with furosemide (Protein Data Bank ID: 1Z9Y CA-II in complex with furosemide as sulfonamide inhibitor). Results: In acute toxicity study, no mortality was observed at 2000 mg/kg, p.o., and in subacute toxicity study, the extract-treated group did not show any significant changes in body weight and organ weights. The hematological and biochemical parameters did not show any significant changes in the sample-treated groups when compared with the control group animals. The laxative activity of the extract was found to be in a dose-dependent increase in fecal output of rats at selected dose levels; similarly, EEMTAP significantly increased the urinary output as well as urinary electrolyte concentration in a dose-dependent manner. The molecular docking studies of phenolic compounds (caffeic acid and quercetin) into the binding site of CA II enzyme reveals that these analogues are having more favourable interaction when compared to the furosemide with better docking scores and hydrogen bonding interactions. Conclusion: The result demonstrated that the EEMTAP possesses a reasonable safety profile and shows promising diuretic and laxative activities in a dose-dependent manner. Abbreviations Used: EEMTAP: Ethanol Extract from M. Torresiana Aerial Parts; CA-I: Carbonic Anhydrase I; CA-II: Carbonic Anhydrase II; hCA-II: Human Carbonic Anhydrase-II; OECD: Organisation for Economic Co-operation and Development; PDB: Protein Data Bank.

Structure-Activity Relationship for Sulfonamide Inhibition of Helicobacter pylori α-Carbonic Anhydrase.

α-Carbonic anhydrase of Helicobacter pylori (HpαCA) plays an important role in the acclimation of this oncobacterium to the acidic pH of the stomach. Sulfonamide inhibitors of HpαCA possess anti-H. pylori activity. The crystal structures of complexes of HpαCA with a family of acetazolamide-related sulfonamides have been determined. Analysis of the structures revealed that the mode of sulfonamide binding correlates well with their inhibitory activities. In addition, comparisons with the corresponding inhibitor complexes of human carbonic anhydrase II (HCAII) indicated that HpαCA possesses an additional, alternative binding site for sulfonamides that is not present in HCAII. Furthermore, the hydrophobic pocket in HCAII that stabilizes the apolar moiety of sulfonamide inhibitors is replaced with a more open, hydrophilic pocket in HpαCA. Thus, our analysis identified major structural features can be exploited in the design of selective and more potent inhibitors of HpαCA that may lead to novel antimicrobials.

Characterization of folding intermediates during urea-induced denaturation of human carbonic anhydrase II

Knowledge of folding/unfolding pathway is fundamental basis to study protein structure and stability. Human carbonic anhydrase II (HCAII) is a ∼29kDa, β-sheet dominated monomeric protein of 259 amino acid residues. In the present study, the urea-induced denaturation of HCAII was carried out which was a tri-phasic process, i.e., N (native) ↔ XI ↔ XII ↔ D (denatured) with stable intermediates XI and XII populated around 2 and 4M urea, respectively. The far-UV CD was used to characterize the intermediate states (XI and XII) for secondary structural content, near-UV CD for tertiary structure, dynamic light scattering for hydrodynamic radius and ANS fluorescence spectroscopy for the presence of exposed hydrophobic patches. Based on these experiments, we concluded that urea-induced XI state has characteristics of molten globule state while XII state bears characteristics features of pre-molten globule state. Characterization of the intermediates on the folding pathway will contribute to a deeper understanding of the structure-function relationship of HCAII. Furthermore, this system may provide an excellent model to study urea stress and the strategies adopted by the organisms to combat such a stress.

Prediction of binding modes and affinities of 4-substituted-2,3,5,6-tetrafluorobenzenesulfonamide inhibitors to the carbonic anhydrase receptor by docking and ONIOM calculations

Inhibition activities of a series of 4-substituted-2,3,5,6-tetrafluorobenzenesulfonamides against the human carbonic anhydrase II (HCAII) enzyme have been explored by employing molecular docking and hybrid QM/MM methods. The docking protocol has been employed to assess the best pose of each ligand in the active site cavity of the enzyme, and probe the interactions with the amino acid residues. The docking calculations reveal that the inhibitor binds to the catalytic Zn2+ site through the deprotonated sulfonamide nitrogen atom by making several hydrophobic and hydrogen bond interactions with the side chain residues depending on the substituted moiety. A cross-docking approach has been adopted prior to the hybrid QM/MM calculation to validate the docked poses. A correlation between the experimental dissociation constants and the docked free energies for the enzyme-inhibitor complexes has been established. Two-layered ONIOM calculations based on QM/MM approach have been performed to evaluate the binding efficacy of the inhibitors. The inhibitor potency has been predicted from the computed binding energies after taking into account of the electronic phenomena associated with enzyme-inhibitor interactions. Both the hybrid (B3LYP) and meta-hybrid (M06-2X) functionals are used for the description of the QM region. To improve the correlation between the experimental biological activity and the theoretical results, a three-layered ONIOM calculation has been carried out and verified for some of the selected inhibitors. The charge transfer stabilization energies are calculated via natural bond orbital analysis to recognize the donor-acceptor interaction in the binding pocket of the enzyme. The nature of binding between the inhibitors and HCAII active site is further analyzed from the electron density distribution maps.

Bile Acid Conjugated DNA Chimera that Conditionally Inhibits Carbonic Anhydrase-II in the Presence of MicroRNA-21.

In order to tackle the issue of systemic toxicity in chemotherapy, there is a need to develop novel mechanisms for the activation of protein inhibitors using biomarkers overexpressed in cancer cells. Many current strategies focus on using cancer associated enzymes as a triggering agent for prodrugs. Herein, we detail an alternative approach that harnesses a microRNA (miR-21) that is overexpressed in cancers as the trigger that activates an inhibitor of human carbonic anhydrase-II (hCA-II). Specifically, we have developed a DNA-small molecule chimera (DC) composed of an hCA-II binding lithocholic acid amide (LAA) headgroup that can transition from a rigid duplex state (that does not bind appreciably to hCA) to a single-stranded conformation via a miR-21 trigger. The activated single-stranded DC can project the LAA headgroup into the hCA-II active site and is a robust hCA-II inhibitor (K(i) of 3.12 μM). This work may spur research into developing new classes of cancer selective protein inhibitors.

Structural and catalytic effects of proline substitution and surface loop deletion in the extended active site of human carbonic anhydrase II.

Bioengineering of a thermophilic enzyme starting from a mesophilic scaffold has proven to be a significant challenge, as several stabilizing elements have been proposed to be the foundation of thermal stability, including disulfide bridges, surface loop reduction, ionic pair networks, proline substitutions and aromatic clusters. This study emphasizes the effect of increasing the rigidity of human carbonic anhydraseII (HCAII; EC 4.2.1.1) via incorporation of proline residues at positions 170 and 234, which are located in surface loops that are able to accommodate restrictive main-chain conformations without rearrangement of the surrounding peptide backbone. Additionally, the effect of the compactness of HCAII was examined by deletion of a surface loop (residues 230-240) that had been previously identified as a possible source of thermal stability for the hyperthermophilic carbonic anhydrase isolated from the bacterium Sulfurihydrogenibiumyellowstonense YO3AOP1. Differential scanning calorimetry analysis of these HCAII variants revealed that these structural modifications had a minimum effect on the thermal stability of the enzyme, while kinetic studies showed unexpected effects on the catalytic efficiency and proton transfer rates. X-ray crystallographic analysis of these HCAII variants showed that the electrostatic potential and configuration of the highly acidic loop (residues 230-240) play an important role in its high catalytic activity. Based on these observations and previous studies, a picture is emerging of the various components within the general structural architecture of HCAII that are key to stability. These elements may provide blueprints for rational thermal stability engineering of other enzymes. Structural data have been submitted to the Protein Data Bank under accession numbers 4QK1 (K170P), 4QK2 (E234P) and 4QK3 (Δ230-240).

ChemInform Abstract: Design and Synthesis of Azobenzene Template Based Sulfonamide for Capture of HCAII: Dependence of Efficiency on E—Z Geometry.

Abstract We report the synthesis of azobenzene template based sulfonamides 1 and 2 for capture of Human Carbonic Anhydrase II (HCAII). Out of these, 1 showed successful capturing of the protein, only when it is photo-isomerized to the Z form thus demonstrating the importance of spatial proximity of the reactive and selective functionalities.

Inactivation and adsorption of human carbonic anhydrase II by nanoparticles.

The enzymatic activity of human carbonic anhydrase II (HCAII) was studied in the presence of nanoparticles of different nature and charge. Negatively charged nanoparticles inhibit HCAII whereas no effect is seen for positively charged particles. The kinetic effects were correlated with the strength of binding of the enzyme to the particle surface as measured by ITC and adsorption assays. Moreover, conformational changes upon adsorption were observed by circular dichroism. The main initial driving force for the adsorption of HCAII to nanoparticles is of electrostatic nature whereas the hydrophobic effect is not strong enough to drive the initial binding. This is corroborated by the fact that HCAII do not adsorb on positively charged hydrophobic polystyrene nanoparticles. Furthermore, the dehydration of the particle and protein surface seems to play an important role in the inactivation of HCAII by carboxyl-modified polystyrene nanoparticles. On the other hand, the inactivation by unmodified polystyrene nanoparticles is mainly driven by intramolecular interactions established between the protein and the nanoparticle surface upon conformational changes in the protein.

Intermediate conformation between native β-sheet and non-native α-helix is a precursor of trifluoroethanol-induced aggregation of Human Carbonic Anhydrase-II

In the present work, we examined the correlation between 2,2,2-trifluoroethanol (TFE)-induced conformational transitions of human carbonic anhydrase II (HCAII) and its aggregation propensity. Circular dichroism data indicates that protein undergoes a transition from β-sheet to α-helix on addition of TFE. The protein was found to aggregate maximally at moderate concentration of TFE at which it exists somewhere between β-sheet and α-helix, probably in extended non-native β-sheet conformation. Thioflavin-T (ThT) and Congo-Red (CR) assays along with fluorescence microscopy and transmission electron microscopy (TEM) data suggest that the protein aggregates induced by TFE possess amyloid-like features. Anilino-8-naphthalene sulfonate (ANS) binding studies reveal that the exposure of hydrophobic surface(s) was maximum in intermediate conformation. Our study suggests that the exposed hydrophobic surface and/or the disruption of the structural features protecting a β-sheet protein might be the major reason(s) for the high aggregation propensity of non-native intermediate conformation of HCAII.

Design and synthesis of azobenzene template based sulfonamide for capture of HCAII: dependence of efficiency on E–Z geometry

We report the synthesis of azobenzene template based sulfonamides 1 and 2 for capture of Human Carbonic Anhydrase II (HCAII). Out of these, 1 showed successful capturing of the protein, only when it is photo-isomerized to the Z form thus demonstrating the importance of spatial proximity of the reactive and selective functionalities.