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Harpalycin 2 inhibits the enzymatic and platelet aggregation activities of PrTX-III, a D49 phospholipase A2 from Bothrops pirajai venom



Harpalycin 2 (HP-2) is an isoflavone isolated from the leaves of Harpalyce brasiliana Benth., a snakeroot found in northeast region of Brazil and used in folk medicine to treat snakebite. Its leaves are said to be anti-inflammatory. Secretory phospholipases A2 are important toxins found in snake venom and are structurally related to those found in inflammatory conditions in mammals, as in arthritis and atherosclerosis, and for this reason can be valuable tools for searching new anti-phospholipase A2 drugs.


HP-2 and piratoxin-III (PrTX-III) were purified through chromatographic techniques. The effect of HP-2 in the enzymatic activity of PrTX-III was carried out using 4-nitro-3-octanoyloxy-benzoic acid as the substrate. PrTX-III induced platelet aggregation was inhibited by HP-2 when compared to aristolochic acid and p-bromophenacyl bromide (p-BPB). In an attempt to elucidate how HP-2 interacts with PrTX-III, mass spectrometry, circular dichroism and intrinsic fluorescence analysis were performed. Docking scores of the ligands (HP-2, aristolochic acid and p-BPB) using PrTX-III as target were also calculated.


HP-2 inhibited the enzymatic activity of PrTX-III (IC50 11.34 ± 0.28 μg/mL) although it did not form a stable chemical complex in the active site, since mass spectrometry measurements showed no difference between native (13,837.34 Da) and HP-2 treated PrTX-III (13,856.12 Da). A structural analysis of PrTX-III after treatment with HP-2 showed a decrease in dimerization and a slight protein unfolding. In the platelet aggregation assay, HP-2 previously incubated with PrTX-III inhibited the aggregation when compared with untreated protein. PrTX-III chemical treated with aristolochic acid and p-BPB, two standard PLA2 inhibitors, showed low inhibitory effects when compared with the HP-2 treatment. Docking scores corroborated these results, showing higher affinity of HP-2 for the PrTX-III target (PDB code: 1GMZ) than aristolochic acid and p-BPB. HP-2 previous incubated with the platelets inhibits the aggregation induced by untreated PrTX-III as well as arachidonic acid.


HP-2 changes the structure of PrTX-III, inhibiting the enzymatic activity of this enzyme. In addition, PrTX-III platelet aggregant activity was inhibited by treatment with HP-2, p-BPB and aristolochic acid, and these results were corroborated by docking scores.

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Medicinal plants have been used in traditional medicine as an alternative and supplementary therapy to treat snakebite poisoning, and many other health problems, such as inflammatory disorders[1]. In 1982, Nakagawa et al.[2] tested the anti-ophidian activity of “Específico Pessoa”, a Brazilian phytotherapic tincture used in folk medicine to treat snakebite, mainly in the Amazon region. Two prenylated pterocarpans, the cabenegrins A-I and A-II, had been pointed out as responsible for this activity. Several years later, the same compounds were found in Harpalyce brasiliana Benth (Papilionoideae), popularly known in the Northeast of Brazil as “raiz-de-cobra” (Port. Lit.: snakeroot). Its roots have been used to treat snakebite[3], while its leaves are claimed to be anti-inflammatory [Personal ethnopharmacological survey].

Secretory phospholipases A2 (sPLA2) are present in most snake venoms and show important neurotoxic and myotoxic activities, and most of them are not fully neutralized by commercial antivenom sera[4]. Flavonoids exhibit different inhibitory levels in group I sPLA2s from porcine pancreas and Naja naja venom, and in group II sPLA2s from Vipera russelii and Crotalus atrox venoms. The most important regions involved in the inhibition of sPLA2 have been reported to be the hydroxyl groups at 30- and 40-positions[5, 6]. Iglesias et al.[7] showed that flavonoids such as morin can modify the secondary structure of the snake venom sPLA2. Toyama et al.[8] showed that 7-hydroxycoumarin interacts with sPLA2 and causes some structural modifications, indicating its potential use to suppress inflammation induced by sPLA2.

Group II sPLA2 enzymes have been found in inflammatory sites in animal models, as well as in synovial fluids from patients with rheumatoid arthritis and a number of inflammatory diseases, in which, a correlation between serum sPLA2 levels and disease activity has been observed[9, 10]. Exogenous administration of sPLA2, such as snake venom sPLA2, induces and/or exacerbates inflammatory response in animals[11, 12]. Structural analyses revealed that snake venom sPLA2s have a similar molecular profile to those of human secretory PLA2s as well as a conserved catalytic site[13], thus making them useful tools for the search of new anti-phospholipase A2 drugs.

Pterocarpans have been pointed out as possible compounds involved in snakebite protection of “Específico Pessoa”. These molecules are characterized as a group of isoflavonoids formed from isoflavones. Here, the anti-phospholipasic activity of harpalycin 2 (HP-2), an isoflavone isolated from the leaves of Harpalyce brasiliana Benth., against PrTX-III was investigated. Aristolochic acid and p-bromophenacyl bromide were used as gold standards sPLA2 inhibitors. PrTX-III is a catalytically active, hemolytic and platelet aggregant D49 sPLA2, isolated from the Bothrops pirajai venom[14].



Bothrops pirajai venom was purchased from Bio-Agents Serpentarium in the city of Batatais (São Paulo, Brazil).

Plant material

Leaves of Harpalyce brasiliana Benth. were collected at the Chapada do Araripe, Barbalha (Ceará, Brazil) by Prof. Edilberto Rocha Silveira. Botanical authentication was made by Prof. Edson P. Nunes of the Department of Biology, Federal University of Ceará. Voucher specimen (number: 32 525) has been deposited at the Prisco Bezerra Herbarium (EAC), Department de Biology, Federal University of Ceará, Fortaleza (Ceará, Brazil).

General procedures

The mass spectra were obtained on a Hewlett-Packard 5971 mass spectrometer by electron impact ionization (70 eV). 1 H and 13C NMR spectra were recorded on a Bruker Avance DRX-500 (500 MHz for 1 H and 125 MHz for 13C); chemical shifts were expressedin scale and were referenced to residual DMSO (2.5 and 39.5 ppm). Silica Gel 60 (Merck, 70–230 mesh) was used for analytical TLC. Column chromatographies were performed over silica gel (Merck, 60 F254 230–400 mesh).

Extraction and isolation of harpalycin 2

Leaves of Harpalyce brasiliana were pulverized and extracted with EtOH at room temperature. The solvent was removed under reduced pressure which produced a dark viscous extract (HBFE). Liquid-liquid partition of a water suspension of HBFE (110 g) using petrol ether, CHCl3, EtOAc and n-BuOH yielded five fractions after solvent evaporation or lyophilization: HBFEEp (24.5 g), HBFEC (22.4 g), HBFEA (6.8 g), HBFEB (30.4 g) and HBFEAq (21.2 g).

Flash chromatography of HBFEC (12.0 g) using n-hexane and EtOAc as binary mixtures of increasing polarity afforded 30 fractions, which were pooled in 9 fractions after thin layer chromatography (TLC) analysis. HBFEC (10–12) presented a yellow precipitate, yielding 120.0 mg of a white amorphous solid (m.p. 206.9-208.9°C). Spectrometric analysis showed the structure of the isoflavone harpalycin 2. The fractions HBFEC (8–9) and HBFEC (13–17) were purified, using the same method, yielding more 200.0 mg of harpalycin 2 (HP-2).

Purification of PrTX-III

Bothrops pirajai venom was first fractioned in two consecutive chromatographic steps as described by Toyama et al.[15]. Approximately 20 mg of the lyophilized venom was dissolved in 250 μL of 0.05 M ammonium bicarbonate, pH 7.8 (Buffer A). After homogenization, venom solution was clarified by centrifugation at 10,000 rpm for 3 min. The supernatant was inserted into a Protein Pack SP 5PW column (0.78 x 7.0 cm) and the elution performed using a linear gradient of concentration between 0.05 and 1.0 M ammonium bicarbonate with 750 μL of 0.1% (v/v) trifluoroacetic acid (Buffer B). The fractions were collected, lyophilized and clarified by centrifugation and the supernatant inserted into a μ-Bondapack C18 column (0.78 cm x 30 cm) (Waters 991-PDA system). Elution of peaks proceeded with a linear gradient between 0% and 66.5% (v/v) acetonitrile (solvent B) in 0.1% (v/v) trifluoroacetic acid, at a flow rate of 2.0 mL/min. Absorbances were monitored at 280 nm. Fractions were collected, lyophilized and stored at −20°C. The PrTX-III fraction was identified by the retention time and the measurement of the catalytic activity (since PrTX-III is the activity isoform of B. pirajai venom). The purity degree of PrTX-III was evaluated by Tricine SDS-PAGE and by mass spectrometry on a MALDI-TOF mass spectrometer, as previously described[12, 16].

Measurement of sPLA2 activity

sPLA2 activity was measured following the protocols described by Lee et al.[13] and modified by Toyama et al.[12] for 96-well plate, using 4-nitro-3-octanoyloxy-benzoic acid (4N3OBA, manufactured by BIOMOL, USA) as the substrate. Enzyme activity was calculated based on the increase in absorbance after 20 min. All assays were performed using n = 12 and absorbances at 425 nm were measured using a SpectraMax 340 multiwell plate reader (Molecular Devices, Sunnyvale, CA). After the addition of sPLA2 (20 μg), the reaction mixture was incubated for 40 min at 37°C, and the absorbance read at 10 min intervals. For the estimation of the IC50 of harpalycin 2 for PrTX-III, different concentrations of HP-2 (5, 10, 20, 40 and 80 μg) were added to each well. The remaining enzymatic assay was conducted as described above. Harpalycin 2 was previously dissolved in DMSO 1%.

Incubation of sPLA2 with harpalycin 2 and purification of HP-2 treated sPLA2 (PrTX-III: HP-2) and amino acid analysis

The incubation of sPLA2 with HP-2 (w: w; 4:1), followed the procedures described by Iglesias et al.[7]. Briefly, HP-2 was dissolved in DMSO 1%. 250 μL of HP-2 solution was added to 1,000 μL of homogenized solution of PrTX-III. The mixed solution was incubated for 60 min in a water bath at 37°C. Samples of 200 μL of this mixture were loaded into a preparative reverse phase HPLC column to separate the treated enzyme (PrTX-III: HP-2) from HP-2. After column equilibration with buffer A (aqueous solution of 0.1% TFA), samples were eluted using a discontinuous gradient of buffer B (66.6% of acetonitrile in 0.1% TFA) at a constant flow rate of 2.0 mL/min. The chromatographic run was monitored at 214 nm for detection of PrTX-III, PrTX-III: HP-2 and HP-2. 1 nmol of purified protein (PrTX-III or PrTX-III: HP-2) was hydrolyzed with 6 N HCl (200 μL) in the presence of 10μL of phenol solution for prevention of unspecific amino acid oxidation. Amino acid hydrolysis was performed at 106°C for 24 h. After this time, the excess HCl was removed and the hydrolyzed amino acids were rehydrated with a solution of ethanol: water: triethylamine (v: v; 2:2:1). Post-column derivatization was performed with an aqueous solution of phenylisothiocyanate (ethanol: water: triethylamine: phenylisothiocyanate; v: v; 7:1:1:1). Samples and amino acid standards were derivatized using a PICO-TAG amino acid analyzer system (Waters, USA).

Molecular exclusion chromatography

A molecular exclusion chromatography was initially performed using an AP-1 column (Waters, 1x60 cm) previous packed with Superdex 75 (GE Healthcare Pharmacia) as previously described by Oliveira et al.[17]. For molecular exclusion chromatography of the PrTX-III and PrTX-III: HP-2 as well as the protein marker, 1 mg of the protein sample was dissolved in the same buffer used for equilibration of the chromatographic column and sample elution (Potassium phosphate buffer 0.05 M, pH 7.5). Samples were dissolved in 250 μL of this buffer and then centrifuged at 4,500 g for 5 minutes. 200 μL of supernatant was recovered and taken at 37°C for 60 minutes before injection into the column. Injections of 25 μL of each sample were carried out through the column; and elution of fractions was performed under isocratic condition with constant flow rate of 0.2 mL/min and monitored at 280 nm.

Mass spectrometry

The molecular mass of PrTX-III and PrTX-III: HP-2 were determined by matrix-assisted laser desorption ionization-time-of-flight (MALDI-TOF) mass spectrometry using a Voyager-DE PRO MALDI-TOF mass spectrometer (Applied Biosystems®, Life TechnologiesTM, USA). One microliter of samples (PrTX-III and PrTX-III: HP-2) in 0.1% TFA was mixed with 2 μL of the matrix a-cyano-4-hydroxycinnamic acid, 50% acetonitrile, and 0.1% TFA (v/v). The matrix was prepared with 30% acetonitrile and 0.1% TFA (v/v). The equipment conditions were as follows: accelerating voltage of 25 kV, laser fixed at 2,890 μJ/com2, delay of 300 ns and linear analysis mode.

Circular dichroism spectroscopy

Purified enzymes - native and HP-2 treated PrTX-III – were dissolved in a 10 mM sodium phosphate buffer (pH 7.4) and the final protein concentrations were adjusted to 8.7 mM. After centrifugation at 4,000 g for 5 min, samples were transferred to a 1 mm pathlength quartz cuvette. Circular dichroism spectra in the wavelength range of 185–300 nm were acquired in-house with a J720 spectropolarimeter (Jasco©, Japan) using a bandwidth of 1 nm and a response time of 1 s. Data collection was performed at room temperature with a scanning speed of 100 nm/min. Nine scans were taken for each sample and all spectra were corrected by subtraction of buffer blanks.

Intrinsic fluorescence

The relative intrinsic fluorescence intensity of native PrTX-III or HP-2 treated PrTX-III (PrTX-III: HP-2) was monitored with a spectrofluorimeter (Shimadzu©, Japan). 2.0 mL of the reaction mixtures, consisting of 100 mM Tris–HCl buffer (pH 7.4), sPLA2 (200 μg/mL) and 5 mM CaCl2, were put into a 10 mm pathlength quartz cuvette. Fluorescence was measured at between 300 and 450 nm after excitation at 280 nm.

Platelet aggregation studies

The platelet aggregation activities were conducted as described by Oliveira et al.[18] and dos Santos et al.[19]. Venous blood was collected with informed consent from healthy volunteers who formally denied taking any medication in the previous 14 days. All experiments using human material were carried out according to Helsinki Declaration and were approved by the Ethical Committee for Human Research of State University of Campinas under the no. 0323. Blood was collected by a two-syringe technique using polypropylene syringes and 19-gauge needles, and immediately transferred into polypropylene tubes containing 1/10 of final volume of 3.8% trisodium citrate. After removing the platelet-rich plasma (PRP), the remaining blood was prepared by centrifugation at 200 g for 10 min and the washed platelet solution (WP) was obtained from the residue by centrifugation of citrated blood at 1,500 g for 20 min. The platelets were left for 1 hour at room temperature to recover their sensitivity to aggregating agents. Platelet counts were performed on a Coulter S Plus (Coulter Electronics, Hialeah, FL) or by phase-contrast microscopy. Platelet aggregation was carried out using 400 μL of the washed platelets solution in a cuvette and kept at 37°C with constant stirring. The desired concentration of protein was added and 3 minutes after to the addition, the aggregation was recorded for 5–10 min by using an aggregometer (Payton Scientific Inc., USA). Aggregation experiments were performed with 10 μg of PrTX-III and PrTX-III: HP-2., PrTX-III: aristolochic acid or PrTX-III: p-bromophenacyl bromide. In order to elucidate HP-2 mode of action, 10 μL of HP-2 (5 mg/mL), AACOCF3 (1 mM) and INDO (1 mM) were added 5 minutes before the addition of native PrTX-III (10 μg) or arachidonic acid (AA, 50 mM).

Docking studies

The structural optimizations of the harpalycin 2 (HP-2), aristolochic acid (Aris Ac) and p-bromophenacyl bromide (p-BPB) ligands were initially achieved using the AM1 method[20] implemented in the BioMedCache program[21] with default values for the convergence criteria. Docking calculations were performed with the GOLD 4.0 program[22] to obtain the in silico affinity of the ligands with respect to the PrTX-III target. The tridimensional coordinates of the target were taken from the RCSB Protein Data Bank (PDB), under the PDB code 1GMZ, as a dimeric quaternary structure. The “A” chain was chosen for all the calculations. The docking calculations were performed to consider the flexibility of all the ligands and the flexibility of the target, in order to represent the induced fit generated by the presence of non-native ligands, using the following approach: the residues Phe5, Ile9, Phe18, Tyr21, Val22, Tyr27, His47, Asp48, Lys60 and Phe96 were configured in such a way that their side-chain torsions were considered active during the calculations. The active site was defined as all the atoms within a radius of 8.0 Å from the co-crystallized isopropyl alcohol (IPA).

Statistical analysis

Results were expressed as mean ± S.E.M. and analyzed by ANOVA followed by Dunnett’s test using GraphPad Prism® 5.0 with significance set at p < 0.05*.


Harpalycin 2 (HP-2) was isolated as a white amorphous solid with m.p. 232.6-234.4°C. Its molecular formula of C21H18O7 was established by the molecular ion at m/z 382 Daltons in the MS spectrum. Structure elucidation was performed by spectroscopic means, including 1D and 2D NMR, and comparison with the data from literature[3]. Harpalycin 2 (HP-2) showed a potent inhibitory capacity when compared to the classical sPLA2 inhibitor p-bromophenacyl bromide (p-BPB), with an IC50 calculated at 11.34 ± 0.28 μg per well, whereas p-BPB showed only a marginal inhibition of PrTX-III catalytic active (Figure1a). The isolation of PrTX-III yielded 15% (w: w). Native PrTX-III subjected to molecular mass exclusion chromatography showed the presence of a main fraction with a molecular mass that was estimated at 25,000 Da and a minor fraction with molecular mass estimated at 14,000 Da. The chromatographic profile of PrTX-III: HP-2 revealed the presence of a main fraction, which had its molecular mass estimated at 14,000 Da, and a minor fraction with molecular mass of 20,000 Da. According to our data, the main fraction eluted from the sample of PrTX-III: HP-2 represented approximately 90% of the total. These results showed that HP-2 treatment of PrTX-III induced a reduction of the dimerization of PrTX-III, while the native PrTX-III showed a typical transition from the monomer to dimmer (Figure1b). The chromatographic results were also corroborated using a Tricine SDS-PAGE analysis (Figure1c).

Figure 1

a. Demonstrates the inhibitory effect induced by p-BPB and HP-2 on the enzymatic activity of PrTX-III in presence of 4-nitro-3-octanoyloxy-benzoic acid as substrate of the enzymatic reaction. Phospholipasic A2 activity was expressed as Vo at 425 nm. Each point represents the mean ± SEM (n = 12) and *p < 0.05. b. Shows the molecular exclusion chromatography of the PrTX-III and PrTX-III previously treated with HP-2 (PrTX-III: HP-2). Both samples were subjected to the same chromatographic run conditions. c. Displays the Tricine SDS-PAGE profile where the MK was the low molecular weight marker.

The reverse phase HPLC profile of native PrTX-III indicated that sPLA2 fraction was eluted at 31.7 minutes whereas PrTX-III: HP-2 was eluted at 32.3 minutes, showing a discreet shift in the retention time of this protein (Figure2a). The amino acid analysis of native and PrTX-III previously treated with HP-2 did not revealed changes in the amino acid amount in both samples (Figure2b). Mass spectrometry data from the native PrTX-III and PrTX-III: HP-2 showed masses of 13,750.3 Da and 13,736.2 Da, respectively. These results suggest that binding of the HP-2 with PrTX-III did not involve the formation of stable complexes. The discrepancy between results from the amino acid analysis and spectrometric studies is probably due to the presence of HCl 6 N used for rupturing the amino acid bond that could revert the acid condition of some amino acids or restore the H+ lost in the reaction with HP-2 with PrTX-III. This is true for the PICO-TAG amino acid analysis based in the post column derivatization and the final results also did not differentiate Asp from Asn or Glu from Gln.

Figure 2

a. Shows the reverse phase HPLC profile of the PrTX-III and the PrTX-III from the incubation with HP-2. Both samples were eluted at same chromatographic conditions using a linear discontinuous increasing of buffer b. The amino acid analysis of PrTX-III and PrTX-III: HP-2. The amino acid counting was expresses as number of each amino acid residues found by each mol of protein.

The CD spectra of the PrTX-III: HP-2 showed an evident decrease of total alpha-helix as well as an increase of beta-sheets when compared with the spectra of native PrTX-III, suggesting a partial unfolding of the protein induced by HP-2 treatment (Figure3a). This data was reinforced by the increase in the tryptophan fluorescence of the treated protein as seen in Figure3b.

Figure 3

a. Displays the CD spectra of native PrTX-III and PrTX-III treated with HP-2. Data over the range 185–260 nm is shown and CD spectra are expressed in theta machine units in millidegrees. b. Shows the fluorescence curves of untreated sPLA2 (PrTX-III) and HP-2 treated sPLA2 (PrTX-III: HP-2).

The platelet aggregation observed for native PrTX-III was blocked by treatment of PrTX-III with HP-2, and partially inhibited by the treatment with aristolochic acid (Aris Ac) p-BPB (Figure4a). Figure4a also shows that the PrTX-III treated with HP-2 was able to trigger an initial platelet aggregation of approximately 20%, which was rapidly reverted. This effect was not very evident for the treatment of PrTX-III with aristolochic acid. HP-2 previously added to the platelets inhibited the aggregating effect induced by arachidonic acid as well as the effect induced by PrTX-III (Figure4b). The effect of HP-2 was similar that of AAOCF3 (arachidonyl trifluoromethyl ketone), a specific PLA2 inhibitor. Previous treatment with indomethacin only partially inhibited the aggregation induced by PrTX-III (Figure4c), showing that the phospholipase A2 activity is crucial to full platelet aggregation but that the PLA2 downstream cascade is also involved, which was corroborated by the fact that HP-2 also inhibited arachidonic acid induced platelet aggregation.

Figure 4

Aggregation assays were performed using a protein concentration of 10 μg of native PrTX-III or PrTX-III previously treated with harpalycin 2 (HP-2), aristolochic acid (Aris Ac) or p-bromophenacyl bromide (p-BPB) (a). The effect of previous incubation of platelets with HP-2 before the administration of PrTX-III or arachidonic acid is showed in (c). Previous incubation with AACOCF3 or INDO before the administration of PrTX-III is showed in (e). (b), (d) and (f) demonstrate the platelet aggregation results after 8 minutes of experimental condition and each point in the respective table represent the mean ± SEM (n = 4) and *p < 0.05.

The superposition of the best docking solutions for the harpalycin 2 (HP-2), aristolochic acid and p-bromophenacyl bromide ligands can be observed in Figure5. The docking scores for these calculations were 36.78, 35.29 and 26.63, respectively, showing a better affinity between the PrTX-III target and harpalycin 2, in comparison with aristolochic acid and p-bromophenacyl bromide. A detailed inspection of the binding mode of HP-2 in PrtX-III can be found in Figure6. The molecular reasons for the greater stability (greater docking score) of the harpalycin 2 ligand in the active site of the PrTX-III can be explained mainly by the presence of some important intermolecular interactions, in particular, a hydrogen bond that harpalycin 2 establishes with the residue Asp48, with 2.88 Å (see Figure6). The detailed comparison between the docking results obtained for these three ligands can be found in Table1.

Figure 5

Superposition of the best docking solution for the ligands harpalycin 2, aristolochic acid and p-bromophenacyl bromide (stick models in orange, red and green colors, respectively). The co-crystallized isopropyl alcohol (IPA) is showed as a gray ball model. The hydrogen atoms were omitted for clarity reasons.

Figure 6

Detailed view of the best docking solution for the harpalycin 2 ligand. The hydrogen bonds are showed in black lines. The hydrogen atoms were omitted for clarity reasons.

Table 1 Details of the docking results and the intermolecular interactions identified for the harpalycin 2 (HP-2), aristolochic acid (Aris Ac) and p-bromophenacyl bromide (p-BPB) ligands with the PrTX-III target


Snake venoms are rich sources of phospholipase A2 and PLA2-homologues, active calcium-binding Asp49 enzymes and essentially inactive Lys49 proteins, respectively. They are responsible for multiple pharmacological effects, some of which are dependent on catalytic activity and others of which are not. The pharmacological or biological effects that do not depend on enzymatic activity are driven by other pharmacological regions or sites that include calcium-binding loop, beta-wing and C-terminal region[16, 19, 23, 24]. The precise location or mapping of these pharmacological sites is not easy to find due to the fact that the residues involved in myotoxicity and neurotoxicity significantly overlap, suggesting that multiple biological effects observed in many snake venom PLA2s are a consequence of superposed structural determinants on the protein surface[24]. However, the consensual idea is that enzymatic activity of PLA2 is the major factor responsible for the majority of the pharmacological activity induced by the PLA2 in snake venom, such as inflammatory activity, especially due to the arachidonic acid cleavage[25]. PrTX-III showed a sigmoidal behavior on the substrate concentration, which implies cooperation of substrate binding. This effect has been described for other sPLA2 such as those isolated from Bothrops jararacussu[26] and Crotalus durissus terrificus[17] venoms. The transition between the monomers to dimmers increases the phospholipasic A2 activity 100 times, which could explain in part the inhibition of PrTX-III by HP-2, since the treatment with HP-2 showed an increase of the monomer form over the dimmeric form.

Crystallographic studies showed that PrTX-III has putative dimmer interface identified in the crystal lattice which brings together the calcium-binding loops of neighboring molecules, along with the C-terminal regions which are disulfide bonded to those loops, thereby offering a possible route of communication between active sites. The interaction of HP-2 with PrTX-III seems to induce a chemical modification of crucial amino acid residues involved in the sPLA2 catalysis. It could also modify some important residues related to the dimmer formation, agreeing in CD spectra and fluorescence measurement which suggests that HP-2 induced a partial unfolding of PrTX-III. The N-terminal region as well as the calcium-binding loop and the alpha-helix of sPLA2 play an important role for the sPLA2 catalysis. The modification in these region leads to an irreversible lost of enzymatic activity of sPLA2 and/or its ability for binding to cell membrane[27].

PrTX-III induced a platelet aggregation in a dose dependent manner and this effect was abolished by previous treatment with HP-2. At the beginning of the experiment, however, we observed a slight aggregation that was quickly reverted. Previous report by Polgár et al.[28] suggests that a glycophosphatidylinositol-anchored platelet-membrane heparan sulphate proteoglycan is the binding site for sPLA2 on platelets. Some specific mutation studies carried out with PLA2 have shown that the binding of secretory PLA2 to this receptor involves a specific recognition of the CRD region of this receptor, which is located near the catalytic site of PLA2 and calcium-binding loop[18]. The binding of HP-2 to the active site of PrTX-III could interfere with this ability. The HP-2 effect on the platelet resembles the effect induced by AACOCF3, which is a selective PLA2 inhibitor, showing a potential anti-inflammatory effect of harpalycin 2 that could be derived from PLA2 inhibition. Indomethacin partially inhibited the aggregating effect of PrTX-III pointing to the role of cyclooxygenases in this pharmacological action. HP-2 could also being acting in this pathway, since it can block the platelet aggregating effect induced by arachidonic acid, which is a step forward in the downstream cascade of PLA2/COX-1/2/eicosanoids.

These experimental results corroborate with the in silico observations, where harpalycin 2 ligand presented a greater affinity for the PrTX-III active site, in comparison with the two other ligands (aristolochic acid and p-BPB). This trend implies that the ligands with the best activities have greater stabilities (high docking scores) within the PrTX-III target according to the docking results, and the ligands with the worst activities have weak interactions (low scores) with the same target. These results suggest that the inhibition of platelet aggregation is due to the inhibition of the interaction between platelet substrate and the sPLA2.


Our results of the harpalycin 2 effect on PrTX-III are important as they indicate a possible anti-ophidian and anti-inflammatory activity of this compound and, as well as in part, corroborate the ethnobotanical use that is described for H. brasiliana in the Northeast of Brazil. The in silico results also gave us clues about how these molecules interact in the active site of phospholipases A2 inhibiting their enzymatic activity.



Arachidonic Acid


Arachidonyl Trifluoromethyl Ketone

Aris Ac:

Aristolochic Acid




Harpalycin 2




p-Bromophenacyl Bromide

PLA2 :

Phospholipase A2



sPLA2 :

Secretory Phospholipase A2.


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This work was financially supported by CAPES (Conselho de Aperfeiçoamento de Pessoal de Ensino Superior), CNPq (Conselho Nacional de Desenvolvimento Científico e Tecnológico), FAPESP (Fundação de Amparo a Pesquisa do Estado de São Paulo) e FUNCAP (Fundação Cearense de Apoio a Pesquisa). Authors also thank to Sidney Ann Pratt for language revision.

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Correspondence to Marcos H Toyama.

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The authors declare that they have no competing interests to disclose.

Authors’ contributions

RMX, RSA, TPP, VCGS, DB, CLP and HHG were students who were responsible for the biochemical and pharmacological experiments. MMR and MZH were responsible for the docking studies. RMA and ERS collected the botanical material and isolated the compound. DOT, HSAM and MHT were the coordinators and designed all the studies assays. RMX and MHT drafted the manuscript. All authors read and approved the final manuscript.

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Ximenes, R.M., Alves, R.S., Pereira, T.P. et al. Harpalycin 2 inhibits the enzymatic and platelet aggregation activities of PrTX-III, a D49 phospholipase A2 from Bothrops pirajai venom. BMC Complement Altern Med 12, 139 (2012).

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  • PrTX-III
  • Phospholipase A2
  • Bothrops pirajai
  • Harpalyce brasiliana
  • Isoflavone