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J. Biol. Chem., Vol. 281, Issue 22, 15277-15286, June 2, 2006
Structural and Functional Characterization of HQL-79, an Orally Selective Inhibitor of Human Hematopoietic Prostaglandin D Synthase* 1 1![]() 2
From the
Received for publication, June 13, 2005 , and in revised form, March 15, 2006.
We determined the crystal structure of human hematopoietic prostaglandin (PG) D synthase (H-PGDS) as the quaternary complex with glutathione (GSH), Mg2+, and an inhibitor, HQL-79, having anti-inflammatory activities in vivo, at a 1.45-Å resolution. In the quaternary complex, HQL-79 was found to reside within the catalytic cleft between Trp104 and GSH. HQL-79 was stabilized by interaction of a phenyl ring of its diphenyl group with Trp104 and by its piperidine group with GSH and Arg14 through water molecules, which form a network with hydrogen bonding and salt bridges linked to Mg2+. HQL-79 inhibited human H-PGDS competitively against the substrate PGH2 and non-competitively against GSH with Ki of 5 and 3 µM, respectively. Surface plasmon resonance analysis revealed that HQL-79 bound to H-PGDS with an affinity that was 12-fold higher in the presence of GSH and Mg2+ (Kd, 0.8 µM) than in their absence. Mutational studies revealed that Arg14 was important for the Mg2+-mediated increase in the binding affinity of H-PGDS for HQL-79, and that Trp104, Lys112, and Lys198 were important for maintaining the HQL-binding pocket. HQL-79 selectively inhibited PGD2 production by H-PGDS-expressing human megakaryocytes and rat mastocytoma cells with an IC50 value of about 100 µM but only marginally affected the production of other prostanoids, suggesting the tight functional engagement between H-PGDS and cyclooxygenase. Orally administered HQL-79 (30 mg/kg body weight) inhibited antigen-induced production of PGD2, without affecting the production of PGE2 and PGF2 , and ameliorated airway inflammation in wild-type and human H-PGDS-overexpressing mice. Knowledge about this structure of quaternary complex is useful for understanding the inhibitory mechanism of HQL-79 and should accelerate the structure-based development of novel anti-inflammatory drugs that inhibit PGD2 production specifically.
Prostaglandin (PG)3 D2 is an allergic and inflammatory mediator produced by mast cells (1) and Th2 cells (2). PGD2 activates 2 distinct types of receptor, i.e. DP (DP1) and CRTH2 (DP2). PGD2 causes contraction of airway smooth muscle via DP receptors (3) and mediates the chemotaxis of eosinophils and basophils into the lungs via CRTH2 receptors (4). Thus, PGD2 coordinately regulates allergic reactions, especially airway inflammation, via these 2 receptors (5).
PGD2 is formed from arachidonic acid by successive enzyme reactions mediated by PG endoperoxide synthase (cyclooxygenase, COX) and PGD synthase (PGDS). The former catalyzes 2 consecutive reactions, dioxygenation of arachidonic acid to PGG2 and peroxidation of PGG2 to PGH2, the latter being a common precursor of PGs and thromboxane. PGDS then catalyzes the isomerization of PGH2 to PGD2 in the presence of glutathione (GSH). Two distinct types of PGDS are known: one is lipocalin-type PGDS (L-PGDS); and the other, hematopoietic PGDS (H-PGDS, (6). L-PGDS is localized in the central nervous system, male genital organs, and heart, and is involved in the regulation of sleep (7) and pain (8). On the other hand, H-PGDS is localized in mast cells, Th2 cells, microglia, necrotic muscle fibers, and apoptotic smooth muscle cells and participates in allergic and inflammatory reactions (9). Selective inhibitors of H-PGDS are considered to be more useful to suppress allergic and inflammatory reactions than COX-1 and COX-2 inhibitors, such as aspirin, indomethacin, and coxibs (10); because these COX inhibitors suppress the production of all PGs including the cytoprotective and anti-inflammatory PGs (11, 12). Selective inhibitors of H-PGDS may block the inflammatory signal mediated by both DP and CRTH2 receptors. Therefore, H-PGDS is a good target for anti-allergic and anti-inflammatory drugs (13). We have already cloned the cDNA for human H-PGDS (14) and determined its x-ray crystallographic structure (15). Furthermore, in a previous study (16), we determined the x-ray crystallographic structure of human H-PGDS in a complex with a prototype of the H-PGDS inhibitor, 2-(2'-benzothiazolyl)-5-styryl-3-(4'-phthalhydrazidyl) tetrazolium chloride (BSPT). However, BSPT inhibits H-PGDS only in vitro and is not effective in vivo or even in cultured cells. On the other hand, the novel orally active anti-allergic drug 4-benzhydryloxy-1-[3-(1H-tetrazol-5-yl)-propyl]-piperidine (HQL-79) was reported a few years ago (17). Although HQL-79 was originally developed as an antagonist for histamine H1 receptors (H1R), a part of the anti-allergic and anti-asthmatic effects of HQL-79 was proposed to be mediated by the inhibition of PGD2 production, because HQL-79 inhibited the conversion of PGH2 to PGD2 in crude extracts of mouse spleen (18). However, the biochemical characterization of HQL-79 as an inhibitor of either of the 2 types of PGDS has remained to be made. In the present study, we show that HQL-79 is a specific inhibitor of human H-PGDS with higher potency and biological availability than those of BSPT. Kinetic analyses revealed HQL-79 to be a competitive inhibitor against PGH2 and a non-competitive one against GSH. HQL-79 highly selectively inhibited the production of PGD2 catalyzed by H-PGDS with little effect on the production of other PGs in cultured human and rat cell lines or in the lungs of ovalbumin (OVA)-immunized mice transgenic for human H-PGDS. The lack of shunting of PGH2 to downstream prostanoids other than PGD2 after H-PGDS inhibition by HQL-79 suggests a tight functional engagement between H-PGDS and COX. Both in vivo and in vitro pharmacological and biochemical experiments indicate that HQL-79 is a promising lead compound for the development of new H-PGDS inhibitors to be used as anti-allergic and anti-inflammatory drugs. Finally we determined the x-ray crystallographic structure of human H-PGDS as a quaternary complex with HQL-79 and 2 cofactors, GSH and Mg2+, whose determination is useful for understanding the inhibitory mechanism of HQL-79 and for further drug design.
ChemicalsHQL-79 was purchased from CaymanChemical. AnimalsHuman H-PGDS-overexpressing transgenic (TG) mice (FVB strain) were generated according to the method described previously (7), although human H-PGDS cDNA was used as the transgene instead of human L-PGDS cDNA. H1R gene knock-out (KO) mice (C57BL/6 strain) were provided by Dr. Takeshi Watanabe, RIKEN (19).
Allergic Airway InflammationHuman H-PGDS-TG mice, H1R-KO mice, and wild-type (WT) mice (male, 89 weeks old) were actively sensitized by intraperitoneal injections of 10 µg of OVA (Sigma) in 0.2 ml of aluminum hydroxide gel given on days 0 and 14. On day 21, the mice were exposed to OVA (2.5% w/v in saline) for 20 min. Bronchoalveolar lavage fluid (BALF) was collected 10 min after the end of the OVA exposure. PGD2, PGE2, and PGF2 Expression and Purification of Recombinant H-PGDSHuman H-PGDS (15), rat H-PGDS, and its mutants of Y8F, R14E, W104I, K112E, C156L, or K198E were expressed and purified as described previously (20). In brief, Escherichia coli BL21 (DE3) cells were transformed with the prepared plasmids. The cells were collected and disrupted by sonication in phosphate-buffered saline. After removal of cell debris by centrifugation, the supernatant was applied to the GSH-Sepharose 4B column. After the column had been washed with PBS, the protein bound to the GSH-Sepharose 4B was eluted with 50 mM Tris-HCl, pH 9.0 containing 10 mM GSH. Protein concentrations were determined by the BCA method with bovine serum albumin used as a standard. Enzyme AssayThe activities of H-PGDS (15), L-PGDS (21), and microsomal PGE synthase (m-PGES, (22) were measured with 40 µM [1-14C]PGH2 as substrate in 100 mM Tris-HCl, pH 8.0 in the presence of 2 mM GSH, 2 mM MgCl2, and 0.1 mg/ml IgG, unless otherwise stated. The activities of COX-1 and COX-2 were measured as described (23) with 50 µM [1-14C]arachidonic acid (PerkinElmer Life Sciences) used as substrate in 100 mM Tris-HCl, pH 8.0 containing 2 µM hematin, 5 mML-tryptophan, 1 mM GSH, and 0.1 mg/ml IgG. The kinetic constants were determined by Lineweaver-Burk plots prepared by using GraphFit software (version 3.0.8. for Windows, Erithacus Software Ltd., Horley, UK).
Cell CultureHuman megakaryoblastic cells (MEG-01S), human medulloblastoma cells (TE-671), and rat mastocytoma cells (RBL-2H3) were purchased from American Type Culture Collection. Human embryonic kidney (HEK)-293 cells stably transfected with human L-PGDS and COX-1 cDNAs were kindly provided by Dr. M. Murakami, the Tokyo Metropolitan Institute of Medical Science. MEG-01S cells were induced to differentiate by treatment with 12-O-tetradecanoylphorbol-13-acetate to express H-PGDS and COX-1, as described previously (24). MEG-01S, TE-671, and HEK-293 cells (5 x 105/well) were seeded into multiplates and cultured in Dulbecco's modified Eagle's medium supplemented with 10% heat-inactivated fetal bovine serum, 4 mM L-glutamine, 4.5 g/liter glucose, 100 units/ml penicillin, and 100 µg/ml streptomycin sulfate. After having been cultured for 1 day, the cells were stimulated with 5 µM calcium ionophore A23187
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(Sigma) for 15 min in the absence or presence of HQL-79 (3300 µM). RBL-2H3 cells (2.5 x 105/well) were seeded into multiplates and cultured in RPMI 1640 medium containing 10% heat-inactivated fetal bovine serum, 2 mM L-glutamine, 100 units/ml penicillin, and 100 µg/ml streptomycin sulfate. After the sensitization of these cells with 50 ng/ml monoclonal anti-dinitrophenyl IgE, the cells were stimulated with 20 ng/ml dinitrophenyl-bovine serum albumin or 5 µM A23187
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for 15 min in the absence or presence of HQL-79 (1100 µM). In some experiments, cells were pre-labeled with [1-14C]arachidonic acid (3.7 kBq/well) for 12 h before the assay. PGD2, PGE2, and PGF2 Surface Plasmon Resonance (SPR) Binding AnalysisSPR measurements were carried out with BIAcore 2000 (BIAcore AB). Recombinant human H-PGDS, rat H-PGDS, or mutants of the latter were coupled to a CM-5 sensor chip by the amine coupling method. An empty flow cell was used as a negative control. The binding of HQL-79 to the immobilized H-PGDS (12 ng of protein giving 10,000 response units per flow cell) was measured by using the co-injection mode at a flow rate of 30 µl/min. Before the loading of HQL-79, the chip was equilibrated for 90 s with 50 mM Tris-HCl, pH 7.4, containing 2 mM MgCl2, 150 mM NaCl, and various concentrations of GSH (02 mM). HQL-79 at various concentrations in the same buffer was injected for 90 s. The sensorgram for the empty surface was subtracted from that for the H-PGDS-immobilized surface with control software to obtain the sensorgram for the specific interaction. The Kd values were derived from the sensorgrams after subtraction of linear, non-saturated baseline responses by steady-state analysis with BIA evaluation 3.1 software (BIAcore AB). Crystallization and Structure DeterminationThe crystallization of the quaternary complex comprising human H-PGDS, HQL-79, GSH, and Mg2+ was achieved by a soaking method. The crystals of the ternary complex of the enzyme with GSH and Mg2+ were first obtained by the hanging drop vapor diffusion method (15), and then HQL-79 powder was added to the hanging-drop. In a few days the powder disappeared from the mother liquor, which consisted of 17% (w/v) PEG 6000, 50 mM Tris-HCl, pH 8.4, 5 mM GSH, 5 mM dithiothreitol, and 1% (v/v) dioxane. The crystals were then soaked in a cryoprotectant solution containing 23% glycerol and flash-frozen in a stream of nitrogen gas at 100 K prior to data collection. Diffraction data beyond 1.45-Å resolution were collected at beamline 41XU at SPring-8, Japan. The complex structure was determined by the molecular replacement method with AMoRE (25) by using the native structure as the search model (PDB code: 1IYH; Ref. 15). The model rebuilding and the refinement of the structure were performed with O (26) and CNS (27) giving the final R-factor and Rfree-factor of 0.192 and 0.207, respectively. The results on data collection and refinement of the complex with HQL-79 are summarized in Table 1.
Statistical AnalysisDifferences arising from comparisons were analyzed for statistical significance by Student's t test or Dunnett's multicomparison test. p < 0.05 was considered significant.
Inhibition of Allergic Lung Inflammation and PGD2 Production by HQL-79 in VivoWe applied HQL-79 (Fig. 1) to the allergic-airway inflammation model of human H-PGDS overexpressing TG mice and WT mice (FVB strain) sensitized to OVA, and determined the contents of PGD2, PGE2, and PGF2 in the BALF obtained from these mice (Fig. 2A). The inhalation of antigen significantly increased the PGD2 content in the BALF by 1.6-fold in WT mice (from 30 to 50 pg/lung) and by 4.9-fold in TG mice (from 52 to 253 pg/lung). The PGE2 and PGF2 contents in the BALF were increased by 2.9- and 2.5-fold, respectively, in WT mice (from 17 and 19 to 48 and 46 pg/lung, respectively) and by 2.4- and 1.5-fold in TG mice (from 53 and 75 to 131 and 110 pg/lung, respectively). Orally administered HQL-79 at doses of 10 and 30 mg/kg decreased the PGD2 content in WT mice to the basal level and that in TG mice to 65 and 40%, respectively, of the content without HQL-79 treatment. However, PGE2 and PGF2 contents in the BALF were not decreased by the inhibitor. Orally administered HQL-79 (30 mg/kg) decreased the total cell number and mononuclear cell number in BALF to 58 and 64%, respectively, in WT and to 62 and 66%, respectively, in H-PGDS-TG mice. HQL-79 also inhibited the infiltration of eosinophils to 31% in WT but had no effect in H-PGDS-TG mice (Fig. 2B). The suppressive effect of HQL-79 on the infiltration of the total cells and eosinophils in BALF was also observed in H1R-KO and WT (C57BL/6 strain) mice. Orally administered HQL-79 (30 mg/kg) decreased the numbers of total cells and eosinophils in BALF to 62 and 54%, respectively, in WT and to 60 and 52%, respectively, in H1R-KO mice (Fig. 2B). The administration of HQL-79 also decreased the PGD2 content in both H1R-KO and WT (C57BL/6 strain) mice, similarly as in the WT (FVB strain) mice (data not shown).
These results indicate that HQL-79 is an orally active H-PGDS inhibitor and a new candidate of anti-asthmatic drugs that suppress PGD2 production. These results also indicate that the anti-asthmatic effect of HQL-79 was not attributed to its antagonist activity toward H1R, although HQL-79 had been developed as an H1R antagonist (17).
Specific Inhibition of H-PGDS in Cell Lines by HQL-79Quantification by EIA of the amounts of PGD2, PGE2, and PGF2 released into the culture medium revealed that HQL-79 selectively inhibited the PGD2 production catalyzed by H-PGDS and only marginally affected the production of other prostanoids (Fig. 3). HQL-79 (3100 µM) dose-dependently inhibited either antigen- or Ca2+-ionophore-induced production of PGD2 in rat mastocytoma RBL-2H3 cells (Fig. 3A), which express predominantly H-PGDS (28). HQL-79 at a concentration of 100 µM statistically significantly decreased antigen-induced PGD2 production to 7.6 ng/106 cells from the 12.2 ng/106 vehicle-treated cells, whereas it slightly increased PGE2 production to 0.33 ng/106 cells from the 0.05 ng/106 vehicle-treated cells and decreased PGF2 production to 1.4 ng/106 cells from the 1.5 ng/106 vehicle-treated cells. HQL-79 (100 µM) also significantly decreased Ca2+-ionophore-induced PGD2 production to 23 ng/106 cells from the 48 ng/106 vehicle-treated cells, whereas it increased PGE2 production to 0.76 ng/106 cells from the 0.19 ng/106 vehicle-treated cells and decreased PGF2 production to 4.5 ng/106 cells from the 5.4 ng/106 vehicle-treated cells.
HQL-79 (3300 µM) dose-dependently inhibited Ca2+-ionophore (A23187
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)-induced production of PGD2 from [1-14C]arachidonic acid in human megakaryocytes, MEG-01S cells (Fig. 3B), which also express predominantly H-PGDS (29). However, the production of other 14C-labeled metabolites was not inhibited by HQL-79 used up to 300 µM. Moreover, HQL-79 had no effect on the production of PGD2 by L-PGDS-overexpressing HEK-293 cells (Fig. 3B) or human TE-671 cells (data not shown), both of which predominantly express L-PGDS (30). The IC50 value of HQL-79 for inhibition of PGD2 production in megakaryocytes was calculated by EIA to be 102 µM. HQL-79 at a concentration of 300 µM decreased PGD2 production to 3.1 ng/106 cells from the 10.1 ng/106 vehicle-treated cells; whereas it increased PGE2 production to 0.32 ng/106 cells from the 0.17 ng/106 vehicle-treated cells and decreased PGF2 These results, taken together, indicate that the inhibition of H-PGDS decreased PGD2 production selectively without significantly affecting the biosynthesis of other PGs. Once the downstream H-PGDS was inhibited, the upstream COX was also inhibited, suggesting that H-PGDS and COX were functionally tightly engaged with each other. Kinetic Analysis of H-PGDS Inhibition by HQL-79The selective inhibition of H-PGDS by HQL-79 was confirmed by assays conducted on various types of the purified enzymes in the arachidonate cascade. HQL-79 inhibited the activity of purified recombinant human H-PGDS with an IC50 of 6 µM, but had almost no effect on the activities of the purified COX-1, COX-2, m-PGES, or L-PGDS used up to 300 µM (Fig. 4A). As we previously reported (15), Mg2+ activates human H-PGDS about 2-fold and increases its affinity for GSH about 4-fold. When we determined the inhibition of H-PGDS by HQL-79 in the absence of Mg2+, the IC50 value was increased about 3-fold from 6 µM to 16 µM (Fig. 4A). This is quite different from the manner of inhibition of H-PGDS by BSPT (16), because the IC50 value of BSPT was increased from 36 µM in the absence of Mg2+ to 98 µM in its presence. Kinetic analysis using the purified human H-PGDS revealed that HQL-79 inhibited the H-PGDS activity in a competitive manner against PGH2 (Fig. 4B, left panel), giving a Ki of 5 µM, and in a non-competitive one against GSH (Fig. 4B, right panel) with a Ki of 3 µM, in the presence of 1 mM MgCl2. In the absence of Mg2+, HQL-79 showed the same kinetic profile of the H-PGDS inhibition as that in the presence of Mg2+; however, the Ki value was increased to 55 µM for PGH2 and to 40 µM for GSH (data not shown). These results indicate that HQL-79 bound to the PGH2 binding site but not to the GSH-binding site and also suggest that the binding of HQL-79 to H-PGDS was enhanced in the presence of Mg2+ by increasing the affinity of H-PGDS for GSH.
SPR Analysis of Binding of HQL-79 to H-PGDSSPR analysis showed that HQL-79 bound to H-PGDS in a concentration-dependent, saturable, and Mg2+- and GSH-accelerated manner and dissociated from the enzyme-inhibitor complex immediately when washed (Fig. 5A). In the presence of 2 mM MgCl2 and 2 mM GSH, HQL-79 bound to human H-PGDS in a concentration-dependent manner, with almost complete saturation up to 25 µM (Fig. 5B). From the association and dissociation curves, the Kd for HQL-79 was calculated to be 0.8 µM. In the absence of MgCl2 and in the presence of 2 mM GSH, the HQL-79 binding to human H-PGDS significantly decreased, showing saturation at 50 µM and a Kd of 5 µM, indicating that the affinity of H-PGDS for HQL-79 decreased 6-fold in the absence of MgCl2. In the absence of GSH, the HQL-79 binding decreased the total capacity to about 50% and increased the Kd to 11 µM in the presence of MgCl2 and to 10 µM in its absence. When we determined the GSH dependence on the HQL-79 binding to human H-PGDS in the presence of MgCl2, the binding affinity increased in a GSH concentration-dependent manner (Fig. 5C). The half-effective concentration of GSH for an increase in the affinity for HQL-79 and a decrease in the Kd was calculated to be 0.09 mM (Fig. 5D), which is similar to the Km of the H-PGDS activity for GSH (0.14 mM, Ref. 15), suggesting that GSH binding to the catalytic site of H-PGDS was involved in the increase in the binding affinity for HQL-79. We then analyzed the binding of HQL-79 to rat H-PGDS and its mutants, i.e. Y8F, R14E, W104I, K112E, C156L, and K198E, by SPR analysis (Fig. 5E). Our previous study (20) with these mutants indicated that Lys112, Cys156, and Lys198 are involved in the binding of PGH2, that Trp104 is critical for structural integrity of the catalytic center for GSH transferase and H-PGDS activities, and that Tyr8 and Arg14 are essential for activation of the thiol group of GSH. The three-dimensional geometry of these amino acid residues within the catalytic cleft is well conserved between rat H-PGDS (31) and human H-PGDS (15). As shown in Fig. 5E, in the presence of 2 mM MgCl2 and 2 mM GSH, rat H-PGDS and its Y8F mutant showed almost identical HQL-79 binding curves with a Kd of 0.7 µM. Similar to the human H-PGDS, rat H-PGDS, and the Y8F mutant showed a 5-fold decrease in their binding affinity for HQL-79, being 3.4 µM in the absence of MgCl2, without a change in the maximum binding capacity. In the absence of GSH, both enzymes showed a decrease in their total binding capacities to about 50% and an increase in their Kd value to 22 µM in the presence of MgCl2 and to 21 µM in its absence (Fig. 5F). These results indicate that the Tyr8 residue was not essential for the HQL-79-binding. The R14E mutant gave a binding curve quite different from those curves of the WT and other mutant enzymes, showing a remarkably decreased affinity for HQL-79 with a Kd of 20 µM in the presence of 2 mM MgCl2 and 2 mM GSH (Fig. 5G). Although the HQL-79-binding was not saturated up to 100 µM, the maximum soluble concentration of HQL-79 in the assay buffer, the calculated maximum binding capacity was almost the same as those capacities of the WT and Y8F mutant enzymes. In the absence of MgCl2 and in the presence of 2 mM GSH, the Kd was slightly decreased to be 22 µM, but the calculated maximum binding capacity remained unchanged (Fig. 5G). In the absence of GSH, the HQL-79 binding was decreased to half of that in the presence of GSH, and the Kd value was calculated to be 48 and 47 µM with and without 2 mM MgCl2, respectively. These results suggest that Arg14 was important for the Mg2+-mediated increase in the binding affinity of H-PGDS for HQL-79 by increasing the affinity for GSH, as previously suggested from kinetic analysis (15). The W104I, K112E, and K198E mutants showed HQL-79-binding curves similar to each other, with a decrease in the maximum binding capacity to 26, 48, and 64%, respectively, of that of the WT enzyme and a 35-fold increase in the Kd value (3.6, 2.3, and 3.1 µM, respectively) in the presence of 2 mM MgCl2 and 2 mM GSH (Fig. 5E). In the absence of MgCl2, these mutants showed an approx. 5-fold increase in their Kd values for HQL-79 without a change in their maximum binding capacities. In the absence of GSH, their maximum binding capacities decreased to half of those in the presence GSH; and their Kd values for HQL-79 decreased to about 1619 µM. Typical results obtained with the K198E mutant are shown in Fig. 5H. These results suggest that the Trp104, Lys112, and Lys198 residues are important for maintaining the HQL binding pocket. The C156L mutant lost almost completely its HQL-79 binding activity (Fig. 5E), indicating that the HQL-79 binding pocket is fatally damaged by this mutation, although this mutant shows the about 50% of the GSH transferase activity of the WT enzyme (20). Crystallographic Structure of H-PGDS·HQL-79 ComplexTo elucidate the structural basis of the H-PGDS inhibition by HQL-79, we determined the crystal structure of human H-PGDS as a quaternary complex with Mg2+, GSH, and HQL-79. The crystal of the complex was obtained with a space group of P1, in which 2-dimer molecules of H-PGDS (Mol-A and D, Mol-B and C) were located in an asymmetric unit (Fig. 6A), similar to the crystal of the enzyme complex with BSPT (16). The 2 dimer packing in the HQL-79 complex of human H-PGDS was essentially the same as that of Ca2+- or Mg2+-bound native form without inhibitors (15) or as that of the complex with BSPT (16). The high resolution structure gave a clear electron density map for the HQL-79 molecule at 1.45 Å (Fig. 6B). Four independent molecules of HQL-79 and 4 of GSH were well superimposed within Mol-A to -D of human H-PGDS, in which the tetrazole tail of HQL-79 showed slightly different conformations among the 4 molecules (Fig. 6C). This finding is consistent with the fact that the averaged temperature factor for the tetrazole ring of HQL-79 was the highest, 27.0 Å2, and that for the glutamate residue of GSH was, the lowest, 8.4 Å2 (Table 2). Among the 4 molecules, the tetrazole tail of Mol-A and -D on the outside in the packing unit (Fig. 6A) had more deviation than that of Mol-B and -C on the inside, probably because of the interaction with molecules in the neighboring packing units.
We further describe the structural characteristics of the quaternary complex in Mol-C, which had the lowest temperature factors for both GSH and HQL-79 (Fig. 6D). The HQL-79 molecule was inserted in the catalytic cleft between Trp104 and GSH (Fig. 6E, top). No steric hindrance was detected between HQL-79 and the GSH molecule. H-PGDS has 3 pockets (pockets 1, 2, and 3) in its catalytic cleft (20, 31). Phenyl-1 and phenyl-2 of the diphenyl of HQL-79 penetrated into pocket 1 and pocket 2, respectively (Fig. 6E). The HQL-79 molecule was stabilized by weak hydrogen bonding (32) with Met99, Phe102, Trp104, and Tyr152 located within a distance of 3.5 Å (indicated by the blue-dotted lines in the bottom panel of Fig. 6E), and by Arg14, Thr159, and Leu199, including GSH (by non-bonding interactions including salt bridges and hydrogen bonding) through water molecules (colored yellow). The tetrazole ring of HQL-79 was located at the entrance of pocket-3 and did not directly interact with the positively charged amino acid cluster of Lys112 and Lys198 in pocket-3. No direct interaction was detected around the tetrazole ring, suggesting that the tetrazole group of HQL-79 interacted with Lys112 and Lys198 via diffusible water molecules in pocket 3.
In the catalytic cleft, a phenyl ring of the diphenyl of HQL-79 exhibited van der Waals interaction with the indole ring of Trp104 including weak hydrogen bonding with the ring nitrogen. In comparison with the native structure of the enzyme, the HQL-79 molecule penetrated into the ceiling of the catalytic cleft and pushed out the indole ring of Trp104, resulting in the rotation of the indole ring by 48 degrees with a 4.3-Å shift (Fig. 6F). The movement of Trp104 induced twisting of loop7, which linked to a long kinked
Crystallographic and Biochemical Characterization of HQL-79 as a Competitive Inhibitor for Human H-PGDSThe crystallographic structure of the quaternary complex revealed that HQL-79 was inserted between Trp104 and GSH in the catalytic cleft of H-PGDS, where the substrate PGH2 is predicted to be captured (15, 20). The binding of HQL-79 to the catalytic site did not cause steric hindrance of GSH due to indirect interaction via bound water molecules (Fig. 6E). These results are completely consistent with the kinetic analyses showing that HQL-79 was a competitive inhibitor against the substrate, PGH2, and a non-competitive inhibitor for GSH (Fig. 4B). The identification of the binding mode of PGH2 should reveal the reaction mechanism of H-PGDS. Structural analysis of the complex with PGH2 is difficult because of the instability of PGH2. Therefore, more stable analogues of PGH2 would be useful to understand the exact binding mode of PGH2. Because HQL-79 was crystallographically shown to be bound to the PGH2 binding site of H-PGDS, the competitive binding assay using H-PGDS and HQL-79, as a chemically stable decoy instead of the very labile substrate PGH2, will be useful for screening for novel H-PGDS inhibitors. The crystallographic structure also showed good agreement with the results of the SPR analyses (Fig. 5). Although our previous study with the Y8F mutant demonstrated that Tyr8 residue is essential for activation of the thiol group of GSH (20), this mutant showed HQL-79 binding curves almost identical to those of the WT enzyme, indicating that Tyr8 residue was not essential for the HQL-79-binding. In fact, no interaction was detected between Tyr8 and HQL-79 in the crystallographic structure of H-PGDS·HQL-79 complex. On the other hand, 1 phenyl group of the diphenyl of HQL-79 penetrated into the ceiling of pocket 1 within the catalytic cleft and interacted with Trp104 through a weak hydrogen bonding with the ring nitrogen. This binding mode is consistent with the fact that the W104I mutant showed a decrease in its maximum capacity for HQL-79-binding to 26% and a 5-fold increase in its Kd value (Fig. 5E). The other phenyl group of the diphenyl of HQL-79 reached to the bottom of pocket 2, which contains Cys156, so that the substitution of this residue by Leu with its bulky side chain resulted in the complete loss of the HQL-79 binding activity.
In the crystal of the H-PGDS·HQL-79·GSH·Mg2+ complex, the HQL-79 molecule was stabilized by the interaction of its piperidine group with GSH and Arg14 through water molecules (Fig. 6E). The interaction was linked to Mg2+ ion through a network of non-bonding interactions including salt bridges and hydrogen bonding among the thiol group of the cysteine residue, the carboxyl group of the -glutamyl residue of GSH, the guanido group of Arg14, and the carboxyl group of Asp96. These results indicate that the GSH molecule stabilized the binding pocket for HQL-79 and increased the affinity for the inhibitor in the presence of Mg2+ ion. This interpretation is consistent with the fact that the crystallographic temperature factor of the glycine residue of GSH at the entrance of the catalytic cleft was 1.72.0-fold higher than that of the -glutamyl residue of GSH at the bottom of the cleft (Fig. 6C), whereas those values in both parts were unchanged in the native structure without inhibitors (Table 2). These results are also in agreement with the following facts: crystals of the complex with HQL-79 have never been obtained in the absence of GSH, the maximum binding capacity and the binding affinity of HQL-79 was about 2- and 14-fold, respectively, higher in the presence of GSH and MgCl2 than those in their absence (Fig. 5B), and the IC50 value of HQL-79 was improved from 16 µM in the absence of Mg2+ to 6 µM in the presence of Mg2+ (Fig. 4A). In the catalytic cleft of H-PGDS, Arg14 residue was identified to be located at a pivotal position in the salt bridge and hydrogen bonding network among HQL-79, GSH, and Mg2+ ion (Fig. 6E). Arg14 is important for the Mg2+-mediated increase in the binding affinity of H-PGDS for HQL-79, by increasing the affinity for GSH, as previously suggested from kinetic analysis (15). The SPR binding assay (Fig. 5, C and D) showed that the higher the concentration of GSH, the more specifically and tightly HQL-79 bound to the active site; i.e. a better binding pocket for HQL-79 was formed in the presence of GSH and Mg2+. The R14E mutant did not show the Mg2+-mediated increase in the binding affinity of H-PGDS for HQL-79 (Fig. 5G). We previously demonstrated that the Km value of human H-PGDS for GSH is decreased from 0.6 mM in the presence of EDTA to 0.14 mM in the presence of Mg2+ (15) and that Arg14 is essential for activation of the thiol group of GSH (20). Taken together, these results indicate that the Arg14 residue is the key residue for both the catalytic reaction and the Mg2+-mediated increase in HQL-79 binding. The binding site of HQL-79 in the catalytic cleft of H-PGDS was similar to that of another H-PGDS inhibitor, BSPT (16), but differed in a sense that BSPT shows steric hindrance with GSH and does not interact with bound Mg2+, GSH, and water molecules in the crystal structure. BSPT is a competitive inhibitor for GSH, and the binding efficiency of BSPT is decreased in the presence of MgCl2 and GSH, increasing the IC50 value of BSPT from 36 µM to 98 µM upon binding of Mg2+. In contrast, HQL-79 increased the binding affinity and the inhibition potency against H-PGDS in the presence of MgCl2 and GSH as described above. Moreover, the intracellular concentrations of GSH and MgCl2 are considered to be several mM (33). Thus, HQL-79 may be considered to be a better lead compound than BSPT to design novel inhibitors for H-PGDS. The crystal structure of the H-PGDS·HQL-79 complex, together with the results of the kinetic and SPR analyses, suggests the possible strategy for drug designing. The tetrazol ring of HQL-79 was located at the entrance of pocket-3 and did not directly interact with the positively charged amino acid cluster in pocket-3, although the SPR analysis with the K112E and K198E mutants showed that Lys112 and Lys198 residues were important for HQL binding (Fig. 5, E and H). Thus, one of promising modifications of HQL-79 would be the elongation of the side chain of the tetrazol group to provide a better interaction with the positively charged residues. The HQL-79 binding activity was almost completely lost by substitution of Cys156 by Leu in pocket 2, indicating that this pocket is almost occupied by the phenyl group of the diphenyl group of HQL-79 and suggesting that only minor modification with a small-sized group would be possible for this phenyl group. On the other hand, the other phenyl group of HQL-79 penetrated into the ceiling of pocket 1, resulting in the rotation of the indole ring of Trp104 and the twisting of loop7 (Fig. 6F). Moreover, the substitution of Trp104 in pocket 1 by Ile resulted in 26% of the HQL-79 binding (Fig. 5E). Therefore, derivatization is more acceptable for the phenyl group of HQL-79 within pocket-1 than that in pocket-2. The development of novel H-PGDS inhibitors with increased selectivity and inhibitory potency is now being extensively pursued by our group and others, based on the crystal structure of the H-PGDS·HQL-79 complex.
Tight Functional Coupling between H-PGDS and COXThe most interesting and unexpected our finding was that HQL-79 inhibited the H-PGDS-catalyzed PGD2 production without shunting PGH2 toward the production of other PGs either in vivo (Fig. 2) or in cultured cells (Fig. 3). This situation is quite different from the previous prediction about the utility of inhibitors for the terminal PG synthase including PGDS; i.e. those inhibitors may alter the metabolic flow within the PG cascade without changing the total amount of PGs. However, as shown in Fig. 3, HQL-79 inhibited highly selectively PGD2 production while causing only a marginal change in other PGs in human megakaryocyte MEG-01S cells and rat mastocytoma RBL-2H3 cells. For example, in MEG-01S cells, 300 µM HQL-79 decreased the Ca2+ ionophore-induced PGD2 production from 10.1 to 3.1 ng/106 cells but increased the PGE2 production from 0.17 to 0.32 ng/106 cells and decreased the PGF2 The functional coupling between H-PGDS and COX may arise from the complex formation of these 2 enzymes within the membrane. We previously found that H-PGDS was translocated from the cytoplasm to the perinuclear region or to a membranous structure in the cytoplasm of H-PGDS-overexpressing HEK-293 cells, where COX-1 or COX-2 exists, after stimulation with A23187 [GenBank] or IL-1 (34). Similar translocation of the protein to the nuclear envelope was observed in the leukotriene synthesis pathway composed of cytosolic phospholipase A2 (cPLA2), 5-lipoxygenase, and 5-lipoxygenase-activating protein (3537). In the case of the PGD2 synthetic pathway, a complex comprising COX and H-PGDS may be produced by translocation of H-PGDS to the membrane in order to achieve the efficient conversion from arachidonic acid to PGD2. Further biochemical and structural studies of the interaction between H-PGDS and COX are needed to confirm the functional and topological coupling between these 2 enzymes that we have proposed here. Pharmacological Characterization of HQL-79 as an Excellent Lead Compound for Development of Orally Effective Inhibitors for Human H-PGDSHere, we demonstrated pharmacologically and biochemically that HQL-79 is an orally effective inhibitor selective for H-PGDS. Especially, it should be noted that HQL-79 specifically inhibited the production of PGD2 catalyzed by H-PGDS but only marginally affected the production of other prostanoids. In this sense, HQL-79 is an even better PG-blocking compound than those available today (13). Non-steroidal anti-inflammatory drugs (NSAIDs) are the most widely used as anti-inflammatory drugs that ameliorate pain, fever, and inflammation by blocking PG production. However, NSAIDs accelerate asthmatic reactions by leading to a shunting of arachidonic acid metabolism toward the production of lipoxins and leukotrienes. Moreover, NSAIDs inhibit the production of all prostanoids, including the cytoprotective and anti-inflammatory PGs. For example, aspirin and indomethacin induce gastrointestinal toxicity by blocking PGE2 production (11, 12). The anti-inflammatory action of PGE2 mediated by EP3 receptors was also very recently reported (38). We have previously demonstrated that PGD2 produced by L-PGDS prevents neuronal and oligodendroglial apoptosis during neuroinflammation in a genetic demyelination mouse model, i.e. twitcher (39). Thus, HQL-79 may be predicted to selectively suppress the inflammatory reaction mediated by H-PGDS-catalyzed PGD2 without various side effects caused by the suppression of cytoprotective and anti-inflammatory PGs. HQL-79 suppressed OVA-induced allergic airway inflammation in WT, human H-PGDS-TG, and H1R-KO mice (Fig. 2). The anti-asthmatic and anti-allergic properties of HQL-79 were originally explained by the antagonistic activity of the drug against H1R (17, 18). However, HQL-79 exhibited a 10-fold more potent anti-allergic effect than other anti-H1R drugs, such as epinastine and ketotifen; although the anti-histaminic effect of HQL-79 was 10-fold less potent than that of the latter drugs (17, 18). Because HQL-79 inhibited allergic reaction even in H1R-KO mice, the anti-allergic effect was not caused by the anti-H1R antagonistic activity but to the anti-H-PGDS activity. In other word, HQL-79 is a unique dual functional drug associated with both anti-H-PGDS and anti-H1R activities. In the OVA-induced asthma model, antigen provocation increased the PGD2 content in the BALF (Fig. 2) and induced a variety of PGD2-mediated biological actions, including vasodilation and bronchoconstriction (1). The asthmatic reaction is reduced in DP1 receptor-KO mice (3) and suppressed by ramatroban, an antagonist against DP2 (CRTH2) receptor (40), indicating that PGD2 coordinately regulates allergic reactions, especially airway inflammation, via these 2 receptors (5). Therefore, H-PGDS inhibitors such as HQL-79 may be considered to more effectively suppress the PGD2-mediated asthmatic and inflammatory reactions than the antagonist of each DP receptor and to function as a non-selective antagonist against DP1 and DP2 receptors. Recently, we and many other research groups reported that PGD2 produced by H-PGDS is involved in a variety of allergic and non-allergic disorders (9). For example, H-PGDS is expressed in mast cells that accumulate in the nasal mucosa of patients with polyposis (41); in infiltrates of mast cells, eosinophils, macrophages, and lymphocytes in the nasal mucosa of patients with allergic rhinitis (42); in necrotic muscle fibers of patients with Duchenne's muscular dystrophy or polymyositis (43); in microglial cells around the demyelinating region of twitcher mice (44), an animal model of human Krabbe's disease; and in rat and mouse brains after stab-wounding or traumatic brain injury.4 Therefore, H-PGDS inhibitors would also be predicted to suppress the progression of those diseases. In fact, we have already confirmed that HQL-79 administration suppressed the muscular necrosis of mdx mice, an animal model of Duchenne's muscular dystrophy, and the astrogliosis found in the twitcher brain (44) or after stab-wounding brain injury.4 Therefore, HQL-79 is an excellent lead compound for the development of novel H-PGDS inhibitors that promise to be new concept drugs against a variety of allergic and non-allergic diseases.
* This work was supported by the Applied Research Pilot Project for the Industrial Use of Space promoted by JAXA and Japan Space Utilization Promotion Center (JSUP), a grant from Japan Foundation for Applied Enzymology (to Y. U.), the 21st Century Center of Excellence (21COE) Program "Creation of Integrated EcoChemistry" of Osaka University (to Y. K.), a Grant-in-aid for Scientific Research of MEXT (17659022) (to K. A.), PRESTO (to T. I.), Japan Science and Technology Agency, and the National Project on Protein Structural and Functional Analyses (to T. I.), and Osaka City. The costs of publication of this article were defrayed in part by the payment of page charges. This article must therefore be hereby marked "advertisement" in accordance with 18 U.S.C. Section 1734 solely to indicate this fact.
The atomic coordinates and structure factors (code 2CVD) have been deposited in the Protein Data Bank, Research Collaboratory for Structural Bioinformatics, Rutgers University, New Brunswick, NJ (http://www.rcsb.org/).
1 These authors contributed equally to this work. 2 To whom correspondence should be addressed: Dept. of Molecular Behavioral Biology, Osaka Bioscience Institute, 6-2-4, Furuedai, Suita, Osaka 565-0874, Japan. Tel.: 81-6-6872-4851; Fax: 81-6-6872-2841; E-mail: uradey{at}obi.or.jp.
3 The abbreviations used are: PG, prostaglandin; COX, cyclooxygenase; PGDS, prostaglandin D synthase; L-PGDS, lipocalin-type prostaglandin D synthase; H-PGDS, hematopoietic prostaglandin D synthase; BSPT, 2-(2'-benzothiazolyl)-5-styryl-3-(4'-phthalhydrazidyl) tetrazolium chloride; HQL-79, 4-benzhydryloxy-1-[3-(1H-tetrazol-5-yl)-propyl]-piperidine; H1R, histamine H1 receptor; GSH, glutathione; OVA, ovalbumin; TG, transgenic; KO, knock-out; W T, wild-type; BALF, bronchoalveolar lavage fluid; HEK, human embryonic kidney; SPR, surface plasmon resonance; m-PGES, microsomal PGE synthase; NSAIDs, non-steroidal anti-inflammatory drugs; r.m.s., root mean-squared.
4 K. Aritake and Y. Urade, unpublished results.
We thank the brave men and women astronauts of the space shuttle COLUMBIA, participants in a joint NASA-Japan Aerospace Exploration Agency (JAXA) collaboration to crystallize H-PGDS protein in space, for their selfless sacrifice in the name of science. We express appreciation to O. Hayaishi (Osaka Bioscience Institute) and N. Eguchi (Waseda-Olympus Bioscience Institute, Singapore) for their generous support of this study. We also thank T. Watanabe (RIKEN) for providing H1-R KO mice, M. Murakami (the Tokyo Metropolitan Institute of Medical Science) for providing HEK-293 cells stably transfected with human L-PGDS and COX-1 cDNAs, N. Uodome and I. Okazaki (Osaka Bioscience Institute) for assistance in enzyme assays and SPR analysis, respectively, and N. Katsuyama, S. Kinugasa, H. Shishitani, and H. Matsumura (Osaka University) for x-ray data collection.
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