Institute for Glycomics, Griffith University (Gold Coast Campus), PMB 50 Gold Coast Mail Centre, Queensland, 9726, Australia
Received on April 2, 2004; revised on May 21, 2004; accepted on June 2, 2004
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Abstract |
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Key words: Chagas' disease / NMR spectroscopy / sialic acid / Trypanosoma cruzi
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Introduction |
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Trypanosomes are unable to synthesize sialic acids and use the trans-sialidase to scavenge sialic acids from exogenous cell surface glycoconjugates. Acquisition of the Neu5Ac moieties results in the T. cruzi parasite acquiring a negatively charged glycopeptide coat that allows it to survive in the bloodstream (Engstler and Schauer, 1993; Schauer et al., 1995
). The trypanosomes transfer sialic acids to mucin-like acceptors present in their plasma membrane (Ferrero-Garcia et al., 1993
; Schenkman et al., 1991
; Scudder et al., 1993
) and these mucins have been implicated in cell adhesion and invasion (Pollevick et al., 2000
; Schenkman et al., 1991
).
Interestingly, the capacity of T. cruzi to acquire sialic acids from host cells is a feature shared by a restricted set of protozoa, including Trypanosoma brucei and Trypanosoma congolense (Engstler et al., 1993, 1995
; Medina-Acosta et al., 1994a
, b
; Schenkman et al., 1991
). The regiospecificity of the trans-sialidase appears to be absolute, with the enzyme only transferring
(2,3)-linked sialic acids (Ferrero-Garcia et al., 1993
; Schenkman et al., 1991
; Vandekerckhove et al., 1992
) from the host to terminal ß-linked galactoside residues in the mucin-like glycoproteins of the parasite. This enzyme is, however, considered to be a modified sialidase rather than a sialyltransferase, because it does not utilize CMP-N-acetylneuraminic acid as the sialosyl donor (Paulson and Colley, 1989
). Interestingly, no other sialidase is as efficient at transferring N-acetylneuraminic acid; in fact, very few glycosidases are more efficient in glycotransfer rather than glycohydrolysis of a terminal sugar residue.
Presently there is a paucity of therapeutic agents able to adequately arrest the infection by the T. cruzi parasite and the progression of Chagas' disease (Buschiazzo et al., 2002; Croft and Karbwang, 2000
; Morello, 1988
; Urbina, 2000
). The T. cruzi trans-sialidase (TcTS) is considered a valid target for drug design because it appears to play a pivotal role in the successful life cycle of the parasite that has had such a significant health impact on the human population.
Recently the X-ray structure of TcTS and TcTS in complex with substrates and sialidase inhibitors has been published (Buschiazzo et al., 2002). A significant number of amino acid residues are conserved within the active site of TcTS that are common to all known sialidases, reflecting a strong evolutionary link to other microorganisms. However, critical amino acid residue differences between well-known viral, bacterial, and mammalian sialidases and the parasite trans-sialidase provide a basis for an explanation of the interesting glycotransfer enzymatic activity of TcTS. Interestingly, these structural studies revealed that N-acetylneuraminic acid binding triggers a conformational switch that further activates TcTS and modulates the binding affinity of the acceptor substrate (Buschiazzo et al., 2002
).
For native TcTS, the side chain of Tyr-119 is found to adopt a conformation where the aromatic ring is directed toward the floor of the catalytic pocket and is stabilized by water-mediated hydrogen bonds, occupying some of the region where N-acetylneuraminic acid would be expected to reside. In effect, this side chain is observed to block substrate binding in the active site. Tyr-119 is only one of a number of residues contributing to a hydrophobic environment located within the catalytic site. On the occupation of the catalytic site by substrates or inhibitors, the aromatic ring of Tyr-119 is found to adopt two alternative positions. In one orientation, the side chain moves to participate in a hydrogen-bond interaction with the glycerol sidechain of N-acetylneuraminic acid ligand, and in so doing is able to orient itself more favorably to exploit the hydrophobic environment defined by a number of hydrophobic residues. In the second orientation, the aromatic side chain resides completely outside the N-acetylneuraminic acidbinding cleft. In the absence of N-acetylneuraminic acid, no lactose association to the enzyme had been detected (Buschiazzo et al., 2002). However when N-acetylneuraminic acid binds the active site residue Tyr-119 side chain rotates to the outside location. This switching mechanism allows an asialo acceptor to enter the active site (Buschiazzo et al., 2002
).
Our long-standing interest in the trans-sialidase, in particular the use of nuclear magnetic resonance (NMR) spectroscopic techniques to study this enzyme (Wilson et al., 2000) has led us to perform an extensive NMR-based investigation of TcTS with a variety of substrate and acceptor molecules. We felt that this study may provide new insight into the preference of the enzyme for various donor substrates as well as possibly shedding light on how these donor substrates and other ligands interact with the enzyme at the molecular level.
Docking studies of the sialic acid donor molecule 4-methylumbelliferyl -D-N-acetylneuraminide (MUN) into the binding site of TcTS using the AutoDock program were also performed to provide an explanation of our determined NMR-based relative rates. Additionally, 1H saturation transfer difference (STD) NMR experiments of fully active TcTS in complex with lactose and lactose in the presence with N-acetylneuraminic acid provide direct evidence that lactose in the absence of other ligands does not bind TcTS.
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Results |
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In this study, an extensive NMR-based enzyme reaction analysis using a broad variety of N-acetylneuraminosyl donor and acceptor molecules is presented. As stated earlier and as reported by others, TcTS is far more efficient at transferring N-acetylneuraminic acid residues to acceptor molecules than to water (Parodi et al., 1992; Schenkman et al., 1992
). To determine relative rates, 1H NMR spectra were acquired for each of the N-acetylneuraminic acidbased substrates in the presence of N-acetylneuraminosyl acceptor molecules and TcTS over time. Figure 1 shows the evolution of reaction i using MUN as N-acetylneuraminic acid donor and Galß1Me as N-acetylneuraminic acid acceptor molecule over time. It can be clearly seen that after a 35-min incubation period, the product Neu5Ac(2,3)Galß1Me has been formed and the H1Gal proton signal at 4.39 ppm is visible. With increasing incubation times, this signal shows a clearly greater intensity, whereas the signal intensity of the N-acetylneuraminic acid donor molecule MUN (e.g., H3eq at 2.87 ppm, CH3 at 2.47 ppm) noticeably decreases.
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The TcTS catalyzed hydrolysis of N-acetylneuraminosyl donors
The primary catalytic function of TcTS in the life cycle of T. cruzi is the transfer of Neu5Ac from host cell sialylglycoconjugates to terminal ß-Gal residues of mucin-like molecules on the parasite surface. In the absence of suitable Neu5Ac acceptor molecules, TcTS catalyzes sialoside hydrolysis, cleaving the Neu5Ac residue from sialyl donors to liberate Neu5Ac and asialoglyco conjugates. It has previously been shown (Todeschini et al., 2000) that the hydrolysis of substrates such as MUN and
(2,3)-sialyllactose by TcTS proceed with retention of anomeric configuration. In an attempt to better understand this reaction, the present study investigates the capacity of TcTS to act as a glycohydrolase on a range of synthetic and naturally occurring substrates (Table I). 1H NMR spectra were acquired for each of the N-acetylneuraminic acidbased substrates in the presence of TcTS over time. Integral values for key resonances of the substrate (such as methyl group of the methylumbelliferyl aglycon in MUN) and catalysis products (the H-3eq proton of ß-Neu5Ac,
2.22 ppm) were monitored during the catalytic reaction. The use of the integral value for the thermodynamically more stable ß-Neu5Ac anomer is an indirect approach to the quantification of relative rates, because the TcTS acts with retention of configuration and releases the
-Neu5Ac anomer that mutarotates to the ß-Neu5Ac anomer. However it is not unreasonable to assume that the mutarotation rate is similar for all investigated reactions, and this is further supported by the fact that the relative rates (as determined by use of the integral value for the methyl group of the methylumbelliferyl aglycon in MUN) are in very good agreement with the rates determined from the H-3eq proton of ß-Neu5Ac (Table I). From these data the relative rate of hydrolysis compared to MUN was calculated (Table I).
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The TcTS catalyzed transfer of N-acetylneuraminic acid from N-acetylneuraminosyl donors
The transferase activity of TcTS catalyzes the transfer of (2,3)-linked N-acetylneuraminic acid to terminal ß-D-galactose-based acceptors. This reaction is the most important function of the TcTS enzyme because the enzyme is more efficient in the transfer of N-acetylneuraminic acid from donor to acceptor molecules than in the hydrolysis of N-acetylneuraminic acidcontaining molecules. In a recent study (Buschiazzo et al., 2002
), the structural basis for the transferase reaction has been elucidated and an explanation offered as to why TcTS is more efficient in the glycotransfer reaction. In the present study we compare the N-acetylneuraminosyl-based donor capability of seven substrates for TcTS with a range of asialo acceptor molecules. The results from this study are presented in Table II and were obtained by analysis of the 1H NMR spectra for each of the N-acetylneuraminosyl-based substrates in the presence of TcTS and different asialo acceptors over time. Integral values for key resonances of the donor, acceptor, and transfer products were monitored during the course of the reaction. From these data the relative rates were calculated and are presented in Table II.
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In an initial set of experiments (f and g, Table II), it was clearly established that Neu5Ac itself, even in the presence of excellent asialo acceptors such as Lacß1Me and N-acetyllactosamine, is unable to act as an N-acetylneuraminosyl donor, because no transfer products were observed. It is perhaps not surprising that Neu5Ac is not transferred by TcTS, given that a hydroxyl group is not a particularly good leaving group. The capacity of the -methyl glycoside of Neu5Ac (h, Table II) to be hydrolyzed or used as a donor in the transfer reaction by TcTS was also investigated, and it was established that neither hydrolysis nor transfer occurred with this sialoside. The observed lack of transfer reaction with the
-methyl glycoside of Neu5Ac is possibly due to either the poor leaving group properties of the aglycon unit, lack of recognition of the substrate or a combination of both.
A number of donor substrates have been used to investigate trypanosomal trans-sialidase hydrolase and transferase activities (Engstler et al., 1993, 1995
; Harrison et al., 2001
; Ribeirão et al., 1997
). For our own NMR purposes, we decided to examine the transfer capabilities of TcTS with the synthetic
-N-acetylneuraminide, MUN, together with a variety of acceptors. As can be seen in Table II, the relative rate of transfer of Neu5Ac from MUN to different acceptors was indeed influenced by the nature of the acceptor. Thus the transfer of the Neu5Ac moiety from MUN to Lacß1Me (j, Table II) was found to be significantly faster (2.4 times) than to Galß1Me (i, Table II) or to N-acetyllactosamine (k, Table II). Indeed, the latter two acceptors (Galß1Me and N-acetyllactosamine) showed similar transfer rates. Furthermore, when the naturally occurring Neu5Ac acceptor asialofetuin was investigated, similar rates to Galß1Me were also observed (l, Table II). The observations with MUN as the source of Neu5Ac suggest that Lacß1Me is clearly the best acceptor molecule.
The transfer of Neu5Ac from the N-acetylneuraminosyl donor Neu5Ac(2,3)Galß1Me to a variety of acceptors was also investigated. This series of experiments showed that Lacß1Me (m) (36 µM min1) and N-acetyllactosamine (n) were the most competent Neu5Ac acceptor molecules, with relative transfer rates of 1.00 and 0.99, respectively (Table II). Interestingly, the transfer from Neu5Ac
(2,3) Galß1Me to Galß-S-1Me (o, Table II) exhibited a 1.8-fold slower transfer rate as compared to Lac1ßMe. Asialofetuin (p, Table II) showed the poorest Neu5Ac acceptor properties, with an approximately 12.5-fold slower transfer rate when compared with Lac1ßMe.
Similar trends in Neu5Ac acceptor abilities were observed when Neu5Ac(2,3)Lacß1Me was used as the N-acetylneuraminosyl donor molecule (q, r, and s, Table II). In this series of experiments, Galß1Me (q) exhibited the fastest Neu5Ac acceptor rate, with asialofetuin (s)
50-fold slower.
In an attempt to more closely simulate conditions that the TcTS enzyme would encounter on the host cell surface, the ability of the naturally occurring 1-acid glycoprotein to act as N-acetylneuraminosyl donor was investigated. Interestingly, similar rates of Neu5Ac transfer were observed to the acceptors Galß1Me (u) (1.00) and Lacß1Me (v) (0.92). In the case of MUN as the donor a significant (almost 2.5-fold) difference in the acceptor capabilities of Lacß1Me (j) versus Galß1Me (i) was found. The observation that there is essentially no difference in the acceptor capabilities of these sugars when a glycoprotein is used as the source of Neu5Ac is supportive of the notion that the nature of the acceptor molecule could be less important in the natural environment of the enzyme.
N-acetylneuraminosyl donor substrate specificity
Having investigated the effect of the acceptor for a given N-acetylneuraminic acid donor, we felt it also appropriate to compare the different donors for a given acceptor molecule. The results from this investigation are summarized in Table III, with the N-acetylneuraminic acid donor MUN being set at a rate of 1.0 for each acceptor. As can be seen, for the asialo acceptor Galß1Me/GalßS-1Me, the most efficient transfer rate was observed with Neu5Ac(2,3) Lacß1Me as the source of N-acetylneuraminic acid (6.79-fold better than MUN, q, Table III). Neu5Ac
(2,3) Lacß1Me (q) was over three times better as a donor than Neu5Ac
(2,3)Galß1Me (o, Table III) in donating Neu5Ac, which is consistent with data determined by radiolabeled-based standard biochemical assays previously reported in the literature (Scudder et al., 1993
). Strikingly, the naturally occurring N-acetylneuraminosyl donor,
1-acid glycoprotein, was the least efficient donor (u, Table III), exhibiting a 4.5-fold slower transfer of Neu5Ac compared with MUN. Similar trends were noted for the transfer rates of Neu5Ac to Lacß1Me or N-acetyllactosamine acceptors (compare j, m, v, k, n, r, w, Table III).
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In this study we used the pdb code 1MS0 with Neu5Ac2en (DANA) and lactose bound to the active site (Buschiazzo et al., 2002). We felt that with bound Neu5Ac2en the conformational rearrangement of Tyr-119 should have already occurred, and it is likely that the same rearrangement will happen when MUN binds to the enzyme. Our docking study shows that the N-acetylneuraminic acid component of MUN occupies the same position in the active site as Neu5Ac2en. However, the umbelliferyl aglycon of MUN occupies the same region of the binding site where the acceptor lactose is positioned in the X-ray structure. It is important to note that the torsion angles of MUN were kept flexible during the docking experiment. Figure 3 shows the active site of TcTS and the docked MUN molecule superimposed with bound lactose molecules derived from the X-ray structure.
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In the present study we investigated by STD NMR spectroscopic methods the binding modes of lactose and Neu5Ac to wild-type fully active TcTS. We believe that STD NMR binding experiments using the fully active enzyme instead of an inactive mutant form (Todeschini et al., 2004) may provide very useful information about how the wild-type enzyme interacts with various ligands. Thus we have investigated the binding capability of TcTS and lactose in the absence and in the presence of N-acetylneuraminic acid. The present study clearly shows that wild-type TcTS does not bind lactose in the absence of N-acetylneuraminic acid, but the protein accommodates the acceptor molecule when N-acetylneuraminic acid is present.
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Discussion |
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In the present study, the observation that the rate of decay of donor signals compares well with the rate of aglycon unit release for all of the N-acetylneuraminosyl donors investigated, whether the donor has a carbohydrate or noncarbohydrate aglycon, lends further weight to the general conclusion that aglycon release is indeed the rate-limiting step. The fact that there is no difference between these transfer rates for any of these donors confirms that at least on the NMR time scale, a long-lived sialosylenzyme intermediate is not formed in the usual catalytic cycle of TcTSa conclusion that strongly supports earlier work by the Schenkman group (Ribeirão et al., 1997). Of course it does not rule out the possibility of a shorter-lived intermediate that is not discernible by NMR methods. Elegant kinetic isotope effect studies by the group of Horenstein (Yang et al., 2000
) have clearly demonstrated that although a long-lived sialosyl-enzyme intermediate may not be accumulated (Ribeirão et al., 1997
) in the catalytic process, nucleophilic participation in the development of the transition state is present. Nucleophilic participation could be the result of either an intramolecular event or nucleophilic attack by a suitably positioned amino acid residue within the active site. Very recently the existence of a covalent sialosylenzyme intermediate has been suggested (Watts et al., 2003
). In an attempt to slow the rate of Neu5Ac transfer and therefore extend the life span of any N-acetylneuraminosyl-enzyme intermediates, these workers used the donor substrate 3ß-fluoro-N-acetylneuraminosyl fluoride resulting in the detection by mass spectrometric techniques of a transient covalently linked N-acetylneuraminosylenzyme intermediate. From the TcTS X-ray crystal structure, the likely active site residue nucleophile is Tyr-342, given its proximity to the anomeric center. Taken together, these findings suggest a more sequential mechanism, implying that the binding of the substrate is the first step, followed by cleavage of the sialosidic bond via an active site amino acid residuecatalyzed (nominally Tyr-342) nucleophilic displacement reaction leading to the formation of a transient covalently linked sialosylenzyme intermediate. This intermediate then undergoes a second nucleophilic displacement event by attack of water (hydrolysis) or by the hydroxyl group of an appropriate asialo acceptor (such as lactose or N-acetyllactosamine).
Our present study alongside earlier work (Ribeirão et al., 1997; Yang et al., 2000
) and the evidence for the existence of a N-acetylneuraminosylenzyme covalent intermediate (Watts et al., 2003
; Yang et al., 2000
) suggests that although the rate of decay of donor signals compared to the rate of aglycon unit release are similar for all of N-acetylneuraminosyl donors studied to date, irrespective of the aglycon moiety, the life span of the intermediate is relatively short and cannot be absolutely discerned by traditional kinetic methods, including NMR spectroscopy, for rate comparisons.
Relative rates of transfer
All relative rates of transfer of N-acetylneuraminic acid discussed hereafter are expressed as the rate of donor decay. An analysis of MUN as the N-acetylneuraminosyl donor, comparing the relative rate of transfer to water (hydrolysis) versus transfer to asialo carbohydrate acceptors is shown in Figure 2. From this NMR study the rate of transfer to water (hydrolysis) was in general similar to the rate of transfer to asialo carbohydrate acceptors, irrespective of the acceptor that was employed. This is entirely consistent with the conclusions drawn from classical kinetic data (Ribeirão et al., 1997). It has been reported that the preferential cleavage (hydrolysis) of MUN over N-acetylneuraminyllactose may be attributed to the fact that the 4-methylumbelliferyl aglycon is a better leaving group than the carbohydrate-based aglycon units of natural substrates (Todeschini et al., 2000
). Comparison of the rate of transfer of N-acetylneuraminic acid from Neu5Ac
(2,3) Galß1Me to water (hydrolysis) with the rate of transfer of Neu5Ac to Lacß1Me or N-acetyllactosamine is shown in Figure 2. The rate of transfer of Neu5Ac
(2,3)Galß1Me to water (hydrolysis) is markedly reduced compared to the transfer reactions to either of the lactose-containing asialo acceptors Lacß1Me (7.7 times faster) and N-acetyllactosamine (10.5 times faster). Most striking was the observation (Figure 2) that the rate of transfer of Neu5Ac from Neu5Ac
(2,3)Lacß1Me to water (hydrolysis) as compared to Galß1Me as the asialo acceptor was in the ratio of 1:31. These findings suggest that the aglycon unit of the N-acetylneuraminosyl donor does have an important influence on the overall rate of transfer, as exemplified by the fact that a lactose-containing N-acetylneuraminosyl donor is more effective than the corresponding galactose-containing donor and presumably reflects the preferred specificity of the trans-sialidase (Schenkman et al., 1992
; Vandekerckhove et al., 1992
). An explanation for the improved affinity and preferred specificity for disaccharide aglycon units is evident from an inspection of the active site region (Buschiazzo et al., 2002
) in which it has been concluded that additional active site interactions, in particular stacking interactions with two key aromatic residues Tyr-119 and Trp-312, may occur with the reducing-end sugar moiety (glucose in the case of the aglycon lactose).
Docking of MUN into the active site of TcTS using AutoDock
Our docking study clearly shows that the 4-methylumbelifferyl aglycon unit is stabilized through a pi-stacking event to other aromatic groups of neighboring amino acid residues, in particular Tyr-119 and Trp-312 (Figure 3). As a result of the aromatic nature of the aglycon, this would lead to a significantly improved stacking arrangement over the usual carbohydrate-based aglycon already discussed. Restricted access of acceptor molecules translates into observed slower rate of transfer. In our view this also offers a reasonable explanation as to why the mixed aglycon donor (Harrison et al., 2001), in terms of a relative transfer rates, falls in between N-acetylneuraminosyl donors that have carbohydrate aglycons and those that do not. In the mixed aglycon donor instance, the benefits of the carbohydrate aglycon moiety improve the transfer rate over an aromatic aglycon donor like MUN, whereas the aromatic moiety, through pi-stacking interactions, slows the departure of the aglycon residue after the first nucleophilic displacement event, resulting in a poorer transfer rate when compared with carbohydrate-only aglycon donors (e.g., N-acetylneuraminyllactose). Alternatively or in combination, the positioning of the umbelliferyl aglycon of MUN may simply be slowing the reorientation of the Tyr-119 residue, thus causing a reduction in the transfer rates due to a longer time before the acceptor can bind. Others have also proffered this alternative hypothesis (Ribeirão et al., 1997
).
The relative transfer rates that we have obtained by NMR methods for TcTS appear to be entirely consistent with rates determined by other indirect methods for trans-sialidases from other trypanosomes (Engstler et al., 1993, 1995
). For example the Schauer group have determined, by standard fluorometric or radiolabeled acceptor-based assays, transfer rates of various sialosyl donors and asialo acceptors with trans-sialidases from T. brucei and T. congolense (Engstler et al., 1993
, 1995
). In these studies it was found that N-acetylneuraminic acid from N-acetylneuraminosyl donors that have carbohydrate aglycons is more readily transferred to asialo acceptors than from donors that have noncarbohydrate aglycons (e.g., MUN).
STD NMR investigations of TcTS
In the recent X-ray crystallographic structure determination of TcTS complexed with Neu5Ac2en and lactose, it was observed that the galactose moiety of lactose interacts with Asp-59 and that the glucose moiety resides in an orientation pointing out of the active site cavity (Buschiazzo et al., 2002). The STD NMR shows evidence of lactose binding to TcTS, but because of the signal-to-noise level it is not possible to determine whether the galactose or the glucose moiety is in close proximity to TcTS. Nevertheless the NMR findings (Figure 4) provide for the first time direct evidence in solution that an acceptor molecule is only recognized and bound by the fully active enzyme in the presence of a N-acetylneuraminic acid donor. Others have shown in a surface plasmon resonance study of an enzymatically inactive TcTS mutant (Asp-59 to Asn) (Buschiazzo et al., 2002
) that the asialo acceptor lactose by itself does not bind to the inactive enzyme; however, on addition of N-acetylneuraminic acid or N-acetylneuraminyllactose lactose was clearly observed to associate with TcTS. Our findings are in complete agreement with those observations.
Conclusion
This study has demonstrated that NMR spectroscopy is a valuable tool for providing a direct method for the investigation of the association and rate comparison of TcTS donors and acceptors. From this study we have shown that Neu5Ac(2,3)Lacß1Me as the N-acetylneuraminosyl donor and Galß1Me as the asialo acceptor are clearly the most efficient combination for the transfer of N-acetylneuraminic acid. Whereas for most N-acetylneuraminosyl donors studied the transfer reaction is significantly faster than the hydrolysis reaction, this is not the case when MUN was used as the N-acetylneuraminic acid donor. Molecular modeling studies have provided evidence that suggests a strong pi-stacking interaction of the aromatic umbelliferyl aglycon with Trp-312 that may be the reason for the slow transfer of Neu5Ac from MUN. Significantly, we have been able to provide direct evidence by STD NMR experiments that in the absence of a sialosyl donor the asialo acceptor lactose does not bind.
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Materials and methods |
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TcTS was kindly provided by Professor Carlos Frasch (Unité de Biochimie Structurale, Departement d'Immunologie, Paris). The enzyme was delivered in 85% saturated ammonium sulfate solution. The suspension was centrifuged at 10,000 rpm for 30 min at 4°C, and the pellet was resuspended in 20 mM Tris buffer. After dialysis (overnight) against 20 mM Tris buffer (pH 8), the enzyme was then exchanged into a deuterated 50 mM phosphate buffer using Centricon filters (excluding molecular mass of 10 kDa; Millipore). The enzyme migrated as a homogenous species with a molecular weight of 83 kDa on a 12% sodium dodecyl sulfatepolyacrylamide gel electrophoresis gel. The final protein concentration was determined by the standard Bradford test (purchased from Sigma) using bovine serum albumin as a standard.
Hydrolysis reactions
For the hydrolysis reactions the following solutions (a to e) were prepared, with the sialyl donor dissolved in deuterated 50 mM phosphate buffer (600 µl, pH 7.0): a: 1.125 mg (2.41 µmol) MUN (3.89 mM); b: 2 mg (4.12 µmol) Neu5Ac(2,3)Galß1Me (6.65 mM); c: 2.0 mg (3.09 µmol) Neu5Ac(2,3)Lacß1Me (4.98 mM); d: 3.66 mg (0.08 µmol) 1-acid glycoprotein (0.13 mM); e: 1.65 mg (2.55 µmol) Neu5Ac(2,6)Lacß1Me (4.11 mM); f: 3.4 mg (10.49 µmol) Neu5Ac
1Me (16.92 mM). In a typical experiment, a spectrum of the sialyl donor dissolved in 600 µl deuterated phosphate buffer (50 mM) was recorded (t = 0 min). Subsequently, to each sample 20 µl protein solution containing 12 µg TcTS was then added. After addition of enzyme, 1H NMR experiments were recorded at regular time intervals (every 10 min over a time period of
2000 min).
Transfer reactions
For transfer reactions the following solutions (f to w) were prepared with the sialyl donor and sialyl acceptor dissolved in deuterated 50 mM phosphate buffer (600 µl, pH 7.0): f: 1.24 mg (4.01 µmol) Neu5Ac (donor) (6.47 mM) and 2.14 mg (6.01 µmol) Lacß1Me (acceptor) (9.61 mM); g: 0.74 mg (2.39 µmol) Neu5Ac (donor) (3.85 mM) and 1.47 mg (3.70 µmol) N-acetyllactosamine (acceptor) (5.97 mM); h: 3.4 mg (10.52 µmol) Neu5Ac2Me (donor) (16.97 mM) and 7.49 mg (21.03 µmol) Lacß1Me (acceptor) (33.92 mM); i: 1.125 mg (2.41 µmol) MUN (3.89 mM) (donor) and 0.93 mg (4.79 µmol) of Galß1Me (7.73 mM) (acceptor); j: 1.125 mg (2.41 µmol) MUN (3.89 mM) (donor) and 1.7 mg (4.77 µmol) of Lacß1Me (7.69 mM) (acceptor); k: 1.125 mg (2.41 µmol) MUN (3.89 mM) (donor) and 1.47 mg (3.70 µmol) N-acetyllactosamine (5.97 mM) (acceptor); l: 2.25 mg (4.82 µmol) MUN (7.77 mM) (donor) and 2.6 mg (0.06 µmol) asialofetuin (0.1 mM) (acceptor); m: 1.41 mg (2.91 µmol) Neu5Ac(2,3)Galß1Me (4.69 mM) (donor) and 1.33 mg (3.73 µmol) of Lacß1Me (6.02 mM) (acceptor); n: 1.163 (2.4 µmol) of Neu5Ac(2,3)Galß1Me (3.87 mM) (donor) and 1.47 mg (3.70 µmol) N-acetyllactosamine (5.97 mM) (acceptor); o: 2.56 mg (5.27 µmol) Neu5Ac(2,3)Galß1Me (8.50 mM) (donor) and 7.07 mg (33.6 µmol) Galß-S-1Me (54.19 mM) (acceptor); p: 4.0 mg (8.24 µmol) Neu5Ac(2,3)Galß1Me (13.29 mM) (donor) and 3.66 mg (0.08 µmol) asialofetuin (0.13 mM) (acceptor); q: 2.0 mg (3.09 µmol) Neu5Ac(2,3)Lacß1Me (4.98 mM) (donor) and 1.2 mg (6.18 µmol) Galß1Me (9.97 mM) (acceptor); r: 2.5 mg (3.94 µmol) Neu5Ac(2,3)Lacß1Me (6.35 mM) (donor) and 2.9 mg (7.30 µmol) N-acetyllactosamine (11.80 mM) (acceptor); s: 5.8 mg (8.13 µmol) Neu5Ac(2,3)Lacß1Me (13.1 mM) (donor) and 3.66 mg (0.08 µmol) asialofetuin (0.13 mM) (acceptor); t: 1.25 mg (2.52 µmol) Neu5Ac(2,6)Lacß1Me (4.06 mM) (donor) and 1.32 mg (3.70 µmol) Lacß1Me (5.97 mM) (acceptor); u: 2.9 mg (0.07 µmol)
1-acid glycoprotein (0.13 mM) (donor) and 0.77 mg (4.00 µmol) Galß1Me (6.45 mM); v: 2.90 mg (0.07 µmol)
1-acid glycoprotein (0.13 mM) (donor) and 1.27 mg (3.56 µmol) Lacß1Me (5.74 mM); w: 2.14 mg (0.05 µmol)
1-acid glycoprotein (0.08 mM) (donor) and 2.43 mg (6.11 µmol) N-acetyllactosamine (9.85 mM).
In a typical experiment, a mixture of sialyl donor and acceptor was dissolved in 600 µl deuterated phosphate buffer (50 mM) and the 1H NMR spectra were recorded at t = 0 min. Subsequently, to each 600-µl NMR sample 20 µl protein solution containing 12 µg TcTS was then added to give a total volume of 620 µl (23.32 nM protein). After addition of enzyme, 1H NMR experiments were recorded at regular time intervals (every 5 min over a time period of 1500 min).
Molecular docking of MUN using AutoDock
For docking studies, the molecular structure of MUN was built with INSIGHTII software. The Neu5Ac moiety was used in a boat chair conformation as observed in the crystal structure of the complex between sialic acid and influenza virus sialidase (1MWE). For the docking procedure, the program AutoDock 3.0 (Morris et al., 1998) was used to explore the binding conformation of MUN. The pdb code 1MS0 (Buschiazzo et al., 2002
) was used and all water molecules, bound Neu5Ac2en (DANA), and lactose were removed. Twelve active torsions have been selected to be fully flexible during the docking experiment. For the docking a grid spacing of 0.375 Å and 60 x 60 x 60 numbers of points were used. The Lamarckian genetic algorithm was adopted using the default settings, except for the number of energy evaluation, which was set to 1.25 Mio. Amber united atoms were assigned to the protein using the program AutoDock Tools. AutoDock generated 10 possible binding conformations for MUN that show all similar binding conformations. The bound conformation of MUN was then superimposed with the lactose and DANA bound to TcTS (Figure 3). To validate the use of the AutoDock program, the docking studies were performed on the reference compound, DANA. AutoDock successfully reproduced the experimental binding conformation of the reference ligand.
NMR spectroscopy
All NMR experiments were performed on a Bruker Avance DRX 600 MHz spectrometer at 298 K. Suppression of the residual HDO signal was achieved by presaturation with a weak rf field for 2 s during the relaxation delay. Data acquisition and processing were performed with XWINNMR software (Bruker) run on a Silicon Graphics O2 workstation. Fourier transformation and base line correction was performed for the 1H NMR experiment at t = 0 min. Automatic processing and baseline correction was then applied using the same parameters for all 1H NMR experiments. Relative integration was performed manually for the 1H NMR spectrum at t = 0 min using the XWINNMR integration submenu. Integration for all 1H NMR spectra was achieved by applying the same integration range using the automation program multi_int eg.
An AWK script was applied to interchange columns to rows and the data were then transferred to Excel (Microsoft) running on a Macintosh computer. Relative integrals were normalized to 1.0 for the maximum integral value observed. Graphs were plotted with proFit. Initial slopes were obtained by linear regression analysis of the curves in the linear region of the function and were then calculated to relative rates.
STD NMR experiments
The protein was saturated on resonance at 7.5 ppm and off resonance at 40 ppm with a cascade of 40 selective Gaussian-shaped pulses, of a 50-ms duration with a 100-µs delay between each pulse in all STD experiments. The total duration of the saturation time was 2 s. The reaction cocktail for the STD NMR experiments was comprised of 30 µg TcTS in 600 µl deuterated phosphate buffer (50 mM, pH 7.0). Addition of 350 µg (0.98 µmol) Lacß1Me gave a molecular ratio of TcTS:LacßMe of 1:2750. A further experiment was performed after addition of 300 µg (0.97 µmol) Neu5Ac to give a molecular ratio of TcTS : Lacß1Me : Neu5Ac of 1:2750:2686. A total of 512 scans per STD NMR experiment was acquired in conjunction with a WATERGATE sequence to suppress the residual HDO signal.
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