Abstract
Keywords: Thermus flavus, glycerol metabolism, glycerol kinase, PEP:sugar phosphotransferase system
Abbreviations: HPr, histidine-containing protein; MTP, multiphosphoryl transfer protein; PEP, phosphoenolpyruvate; PTS, phosphoenolpyruvate:sugar phosphotransferase system
Recently, glpK, the gene encoding glycerol kinase, and a fragment of glpF, which encodes the first 156 amino acids of the glycerol facilitator of Thermus flavus, have been cloned and sequenced (Huang et al., 1998a ). Surprisingly, the thermostable glycerol kinase from T. flavus, which belongs to the Thermus/Deinococcus group, showed an unusually high degree of sequence identity (80·6%) when compared to glycerol kinase of B. subtilis and 64·0% when compared to glycerol kinase of Ent. casseliflavus. An equivalent of His-232, the site of PEP-dependent phosphorylation in glycerol kinase from Ent. casseliflavus, is present in glycerol kinase of T. flavus and the surrounding sequence is well-conserved. We therefore wanted to study whether T. flavus is capable of transporting glycerol and whether glucose exerts a repressive effect on glycerol transport and metabolism. We also wanted to test whether T. flavus possesses the general PTS components enzyme I and HPr allowing PEP-dependent phosphorylation of purified T. flavus glycerol kinase, whether purified enzyme I and HPr from B. subtilis can phosphorylate T. flavus glycerol kinase and whether this PEP-dependent phosphorylation would have an influence on T. flavus glycerol kinase activity.
Strains and growth conditions.T. flavus strain TE3420 (DSM 674) (Huang et al., 1998a ) was obtained from the Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH, Braunschweig, Germany. It was grown with shaking at 50 °C in 2x YT medium (Sambrook et al., 1989 ) in the absence of carbohydrates or in the presence of either 1% glycerol, 1% glucose, or 1 % glycerol plus 1% glucose. Esc. coli strains M15 (containing the plasmid pREP4; Qiagen) and DH5α (containing plasmid pGYK12) (Huang et al., 1997 , 1998a ) were grown at 37 °C in LuriaBertani (LB) medium (Sambrook et al., 1989 ). For the growth of cells transformed with the plasmids pREP4 and either pAG2 or pAG3 (Galinier et al., 1997 ), the LB medium also contained 25 µg kanamycin ml-1 and 100 µg ampicillin ml-1.
Protein purification.
Recombinant T. flavus glycerol kinase was produced in the Esc. coli strain DH5α transformed with plasmid pGYK12 and purified by sequential chromatography on DEAE-Toyopearl and Toyopearl HW650 columns as previously described (Huang et al., 1997 , 1998a ). The Esc. coli strain M15 carrying the plasmid pREP4 (Qiagen) and transformed with plasmids pAG2 or pAG3 was used for the overproduction of B. subtilis His-tagged HPr and His-tagged enzyme I, respectively (Galinier et al., 1997 ).
Glycerol-transport assay.
A 150 ml culture of T. flavus TE3420 cells was grown to mid-exponential phase and cells were harvested by centrifugation at 4 °C, washed twice with MM medium (Anagnostopoulos & Spizizen, 1961 ) and resuspended in the same medium at a concentration corresponding to an OD600 of 2. A peptone solution was added (1% final concentration) and the mixture was prewarmed at 50 °C for 10 min before [1,3-14C]glycerol [ICN; 0·5 mM final concentration, specific activity, 0·5 mCi (18·5 MBq) mmol-1] was added. Aliquots (120 µl) were withdrawn at different time intervals (0·5, 1·5, 3, 5, 10, 15 and 20 min), filtered through a 0·45 µm pore-size filter and washed twice with 5 ml cold Tris/maleate buffer, pH 7·4. The filters were dried and the radioactivity retained was determined by liquid scintillation counting.
Protein-phosphorylation assays.
Phosphorylation of purified T. flavus glycerol kinase with crude extracts prepared from T. flavus cells was carried out with [32P]PEP, which was prepared from [γ-32P]ATP via the pyruvate kinase exchange reaction at equilibrium (Roossien et al., 1983 ). T. flavus cells were grown in 150 ml 2x YT medium in the absence of a carbohydrate or in the presence of 1% glycerol, 1% glucose or 1% fructose to OD600 between 0·65 and 0·70. Cells were centrifuged, washed three times with 50 mM Tris/HCl buffer, pH 7·4, resuspended in 2 ml of the same buffer and broken by sonication. Cell debris was removed by centrifugation and the supernatant was dialysed overnight against 50 mM Tris/HCl, pH 7·4, containing 0·1 mM PMSF and 0·1 mM DTT. Phosphorylation of glycerol kinase was carried out in a reaction mixture of 30 µl containing 4 µg T. flavus glycerol kinase, 10 mM MgCl2, 10 µM [32P]PEP (0·1 µCi; 3·7 kBq), 50 mM Tris/HCl buffer, pH 7·4, and 6 µl T. flavus crude extracts. The assay mixture was incubated for 20 min at 37 °C. The phosphorylation reaction was stopped by adding an equal volume of sample buffer (Laemmli, 1970 ) to the assay mixtures. Phosphorylation assays with T. flavus glycerol kinase and purified B. subtilis enzyme I(His)6 and HPr(His)6 were also carried out in a total volume of 30 µl and incubated for 20 min at 37 °C. They contained 4 µg T. flavus glycerol kinase, 0·5 µg B. subtilis enzyme I(His)6, 0·5 µg B. subtilis HPr(His)6, 10 mM MgCl2, 10 mM PEP or 10 µM [32P]PEP (0·1 µCi; 3·7 kBq) and 50 mM Tris/HCl buffer, pH 7·4. Proteins were separated by PAGE performed either under denaturing (1% SDS) or non-denaturing conditions. Gels were dried and exposed to x-ray film (Biomax MR, Kodak) for experiments carried out with [32P]PEP or stained with Coomassie brilliant blue R for experiments with non-radioactive PEP.
Enzyme-activity assays.
Glycerol kinase activity was determined by using a coupled spectrophotometric assay carried out in 100 mM glycine/hydrazine buffer, pH 8·8 (Deutscher & Sauerwald, 1986 ). Enzyme activities are expressed as nmol product formed min-1 and (µg protein)-1. To measure the effect of phosphorylation on the enzyme activity, glycerol kinase (6·4 µg) was first incubated for 20 min at 37 °C together with 10 mM PEP, 10 mM MgCl2, 1 µg enzyme I(His)6 and 1 µg HPr(His)6 in a total volume of 60 µl. An aliquot of 7·5 µl of the reaction mixture (corresponding to 0·5 µg glycerol kinase) was used for the glycerol kinase assay. To determine to what extent glycerol kinase used in these enzymic tests was phosphorylated, the proteins present in a 30 µl aliquot of the glycerol kinase phosphorylation mixture were separated on a denaturing 10% polyacrylamide gel.
The presence of enzyme I and HPr in crude extracts of T. flavus has been demonstrated with the Staphylococcus aureus mutant complementation assay by using crude extracts prepared from the mutants S710A (ptsI lacR) and S797A (ptsH lacR) (Hengstenberg et al., 1969 ).
T. flavus is capable of taking up glycerolWe first wanted to test whether T. flavus is able to transport glycerol. For this purpose, T. flavus cells were grown in 2x YT medium or 2x YT medium containing glycerol, glucose or glycerol plus glucose. Cells grown in 2x YT or 2x YT containing glycerol were found to transport glycerol effectively (Fig. 1), suggesting that the T. flavus glpF gene and the adjacent glpK gene, which encode the glycerol facilitator and glycerol kinase, respectively, and which were found to be organized in an operon (Huang et al., 1998a ), are expressed constitutively. In contrast, cells grown in 2x YT medium containing either glucose or glucose plus glycerol exhibited strongly reduced glycerol uptake, indicating that a carbon-catabolite repression mechanism is operative in T. flavus.
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Purified T. flavus glycerol kinase can be phosphorylated by crude extracts prepared from T. flavus cells
Since the glycerol kinases from T. flavus (Huang et al., 1998a ) and Thermus aquaticus (Huang et al., 1998b ) exhibit an unusually high degree of sequence identity when compared to glycerol kinase from Ent. casseliflavus (about 65%) or B. subtilis (more than 80%), and since the sequence around the histidyl residue representing the site of PEP-dependent phosphorylation in glycerol kinases of Gram-positive bacteria is well-conserved in glycerol kinase from T. flavus (Fig. 2), we wanted to test whether T. flavus possesses enzyme I and HPr capable of catalysing the PEP-dependent phosphorylation of purified T. flavus glycerol kinase. To determine whether enzyme I and HPr are present in T. flavus, we carried out a mutant-complementation assay with crude extracts from the S. aureus ptsI lacR mutant S710A or the ptsH lacR mutant S797A, respectively. Crude extracts from T. flavus cells grown on 2x YT were capable of restoring PTS-catalysed ONPG phosphorylation in both S. aureus mutants (data not shown), confirming that T. flavus must possess enzyme I and HPr. The positive results suggested also that enzyme I and HPr from T. flavus resemble their Gram-positive homologues since the corresponding proteins of Gram-negative bacteria are not functional in the S. aureus mutant-complementation assay (Kalbitzer et al., 1982 ). To test whether T. flavus enzyme I and HPr would be capable of phosphorylating the glycerol kinase of this organism, T. flavus cells were grown in 2x YT medium in the absence of a carbohydrate or in the presence of 1% glycerol, 1% glucose or 1% fructose and crude extracts were prepared from these cells as described in Methods. These crude extracts were used for PEP-dependent phosphorylation assays. After incubation with [32P]PEP in the absence of purified glycerol kinase, four major phosphorylated proteins were found to be present in crude extracts of T. flavus cells grown in 2x YT medium or 2x YT medium containing either glycerol or fructose (Fig. 3a, lanes 3, 5 and 9). Two of these labelled bands migrated similarly to the B. subtilis enzyme I and HPr standards (Fig. 3a, lane 1) and probably represent the corresponding T. flavus proteins. The third labelled band migrated just below the presumed enzyme I band, while the fourth band migrated according to a molecular mass of 55 kDa, which is in good agreement with the molecular mass calculated for glycerol kinase monomers from T. flavus. While the first three labelled bands exhibited similar intensities in glucose-grown cells, the intensity of the fourth band was clearly reduced in glucose-grown cells (Fig. 3a, lane 7). However, the intensity of the radioactive band migrating according to a molecular mass of 55 kDa was greatly increased when purified T. flavus glycerol kinase was added to the phosphorylation assays with the various crude extracts (Fig. 3a, lanes 2, 4, 6 and 8). These results establish that T. flavus possesses the general PTS components enzyme I and HPr and that these two proteins are capable of phosphorylating T. flavus glycerol kinase.
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Purified T. flavus glycerol kinase can be phosphorylated by enzyme I and HPr from B. subtilis
As the general PTS components of T. flavus are not available in purified form and as T. flavus glycerol kinase exhibits the strongest homology to glycerol kinase from B. subtilis (more than 80% sequence identity), we wanted to test whether T. flavus glycerol kinase could be phosphorylated with PEP in the presence of enzyme I(His)6 and HPr(His)6 from B. subtilis. PEP-dependent phosphorylation of T. flavus glycerol kinase catalysed by enzyme I and HPr of B. subtilis was demonstrated either by phosphorylation with [32P]PEP followed by separation on an SDS-polyacrylamide gel and autoradiography or by phosphorylation in the presence of 10 mM PEP followed by separation on either denaturing or nondenaturing polyacrylamide gels. Using [32P]PEP, we could demonstrate that purified T. flavus glycerol kinase was phosphorylated in the presence of PEP, enzyme I(His)6 and HPr(His)6 (Fig. 3b, lane 4). No radioactive band corresponding to phosphorylated glycerol kinase appeared when either enzyme I(His)6 or HPr(His)6 were absent (Fig. 3b, lanes 5 and 7), confirming that phosphorylation of T. flavus glycerol kinase requires both general PTS proteins. Similar to enterococcal glycerol kinases (Deutscher, 1985 ; Charrier et al., 1997 ), the phosphorylated and unphosphorylated forms of T. flavus glycerol kinase were found to migrate to different positions during SDS-PAGE (Fig. 3c, lanes 1 and 4). The more slowly migrating band corresponding to phosphorylated glycerol kinase was absent when either HPr, enzyme I or PEP were missing in the reaction mixture (Fig. 3c, lanes 2, 3 and 5). Phosphorylated and unphosphorylated T. flavus glycerol kinase also exhibited a different electrophoretic mobility when they were separated on non-denaturing polyacrylamide gels, where phosphorylated glycerol kinase was found to migrate faster than unphosphorylated glycerol kinase (Fig. 3d, lanes 1 and 4). Again, the band corresponding to phosphorylated glycerol kinase was absent when either HPr, enzyme I or PEP were missing in the reaction mixture (Fig. 3d, lanes 2, 3 and 5). In phosphorylation assays containing PEP at concentrations higher than 10 µM, only the faster-migrating band corresponding to phosphorylated glycerol kinase could be observed. With PEP at concentrations lower than 1 µM, only the band corresponding to unphosphorylated glycerol kinase was visible (data not shown). Interestingly, three bands corresponding to three different forms of glycerol kinase could be observed when a PEP concentration between 1 and 8 µM was used for the phosphorylation assays (Fig. 3d, lane 6). Under these conditions, only some of the glycerol kinase molecules could be phosphorylated, and in addition to the two bands migrating to the positions of unphosphorylated and completely phosphorylated glycerol kinase, a third band migrating between these two bands could be observed. In contrast, only bands corresponding to phosphorylated and unphosphorylated glycerol kinase, but no third band, was observed when reaction mixtures containing between 1 and 8 µM PEP were separated on SDS polyacrylamide gels (data not shown). Since bacterial glycerol kinases are known to be composed of identical subunits (Hurley et al., 1993 ), we supposed that the third band observed on non-denaturing gels after separation of phosphorylation mixtures containing low concentrations of PEP corresponds to glycerol kinase molecules in which not all subunits are phosphorylated. By carrying out size-exclusion chromatography on an FPLC column (Superdex 200 pg; Pharmacia) with high resolution in the 100 kDa range, we could demonstrate that native T. flavus glycerol kinase is composed of two identical subunits and not, as has previously been reported, four subunits (Huang et al., 1997 ). It is therefore likely that the third band observed only on non-denaturing polyacrylamide gels after separation of phosphorylation mixtures containing limiting amounts of PEP and migrating between unphosphorylated and completely phosphorylated glycerol kinase (Fig. 3d, lane 6) corresponds to glycerol kinase dimers in which only one of the two subunits is phosphorylated.
Effect of phosphorylation of T. flavus glycerol kinase on its enzyme activity.
PEP-dependent, enzyme I- and HPr-catalysed phosphorylation of enterococcal glycerol kinases caused a 10-fold increase in enzyme activity (Deutscher, 1985 ; Charrier et al., 1997 ). We therefore wanted to test whether phosphorylation of T. flavus glycerol kinase would lead to a similar stimulation with regard to its enzyme activity. T. flavus glycerol kinase was phosphorylated with PEP, enzyme I and HPr as described in Methods, and glycerol kinase assays were carried out using saturating concentrations of glycerol (5 mM) and ATP (5 mM). The Km values of T. flavus glycerol kinase for glycerol and ATP have been reported to be 38 and 162 µM, respectively (Huang et al., 1997 ). Under the above conditions, very similar activities were found for unphosphorylated (4·4 units) and phosphorylated glycerol kinase (5·6 units). In contrast to enterococcal glycerol kinases, phosphorylation of T. flavus glycerol kinase does not seem to increase the Vmax of this enzyme. The observed absence of a stimulatory effect of PEP-dependent phosphorylation of glycerol kinase on its enzyme activity cannot be due to incomplete phosphorylation of T. flavus glycerol kinase under the reaction conditions employed. When an aliquot of the phosphorylated T. flavus glycerol kinase used for the activity assays was separated on SDS polyacrylamide gels, more than 90% of the glycerol kinase was found to be present in the phosphorylated form (data not shown).
Most glycerol kinases from Gram-positive bacteria, but not glycerol kinases from Gram-negative bacteria, seem to be regulated by a mechanism that implicates stimulation of glycerol kinase activity by PEP-dependent phosphorylation at a histidyl residue catalysed by enzyme I and HPr of the PTS (Deutscher & Sauerwald, 1986 ; Charrier et al., 1997 ). As a consequence, ptsH or ptsI mutants of Gram-positive bacteria, in which glycerol kinase cannot be activated by PEP-dependent phosphorylation, were unable to grow on glycerol as the sole carbon source (Reizer et al., 1984 ; Romano et al., 1990 ; Gonzy-Treboul et al., 1991 ; Beijer & Rutberg, 1992 ). Interestingly, the phosphorylatable histidyl residue was also found to be present in glycerol kinase from T. flavus. The sequences flanking this histidyl residue are well-conserved when compared to the corresponding sequences of glycerol kinase from B. subtilis (Fig. 2) or other Gram-positive bacteria. In the presence of [32P]PEP, purified T. flavus glycerol kinase was found to be phosphorylated by crude extracts of T. flavus cells (Fig. 3a), suggesting that this organism contains the general PTS proteins enzyme I and HPr. This assumption was confirmed by the observation that crude extracts prepared from T. flavus cells were capable of reconstituting the lactose-specific PTS activity in mutant complementation assays with S. aureus ptsI and ptsH mutants (Hengstenberg et al., 1969 ). Deinococcus radiodurans, a close relative of T. flavus, was found to possess a multiphosphoryl transfer protein (MTP) similar to Rhodobacter capsulatus (Wu et al., 1990 ) and Xanthomonas campestris (de Crécy-Lagard et al., 1995 ). The MTP is part of the fructose-specific PTS and contains an enzyme IIAFru domain followed by an HPr and an enzyme I domain. The sequence around the phosphorylatable histidyl residue in the HPr domain of D. radiodurans was found to exhibit strong similarity to the corresponding sequence in B. subtilis HPr (data not shown). However, the experiments presented in Fig. 3a suggest that T. flavus does not possess an MTP, but that enzyme I and HPr of this organism are probably distinct proteins, as radioactive bands migrating to the approximate positions of enzyme I and HPr from B. subtilis were detected when crude extracts of T. flavus were incubated with [32P]PEP and separated by SDS-PAGE. Even in fructose-grown cells (Fig. 3a, lanes 8 and 9), no labelled band migrating to the position corresponding to the molecular mass of the MTP (90 kDa) was observed. However, similar to the HPr domain of D. radiodurans MTP, HPr of T. flavus probably possesses an active centre strongly resembling the active centre of HPr in Gram-positive bacteria, which would explain why HPr present in crude extracts prepared from T. flavus cells is functional in the S. aureus mutant-complementation assay with the ptsH mutant S797A and why P-His-HPr from both B. subtilis and T. flavus can efficiently phosphorylate T. flavus glycerol kinase.
Although phosphorylation of glycerol kinase changes the electrophoretic mobility of T. flavus glycerol kinase in a similar way to that which has been observed for glycerol kinase from Ent. faecalis (Deutscher & Sauerwald, 1986 ; Charrier et al., 1997 ), only a very weak stimulation of glycerol kinase activity was found to accompany phosphorylation of T. flavus glycerol kinase. The physiological function of the PEP-dependent PTS-catalysed phosphorylation of T. flavus glycerol kinase therefore remains unknown. It is interesting to note that glycerol kinase from another thermophilic organism, Bacillus stearothermophilus, exhibited a very similar behaviour to T. flavus glycerol kinase. It was also phosphorylated by PEP, enzyme I and HPr, and phosphorylation caused changes in electrophoretic mobility identical to those found with T. flavus glycerol kinase (Reizer & Peterkofsky, 1987 ). In addition, no increase in enzyme activity was observed when B. stearothermophilus glycerol kinase became phosphorylated. It is possible that phosphorylation of glycerol kinase in the two thermophilic organisms T. flavus and B. stearothermophilus causes an increase in enzyme activity only at higher temperatures. Since no thermostable glycerol-3-phosphate dehydrogenase was available, the enzyme assays reported in this paper were carried out at 37 °C and not at the preferred temperature of T. flavus, i.e. 60 °C. It is interesting to note that when phosphorylated glycerol kinase from T. flavus was kept at 60 °C in Tris/HCl buffer, pH 7·4, about 70% of the protein was dephosphorylated within 10 min, as was observed with other proteins phosphorylated at the N-3 position of a histidyl residue (Waygood et al., 1986 ). However, the remaining 30% of the protein was found to remain phosphorylated even after 1 h incubation at 60 °C (data not shown). It is possible that under physiological conditions, most of the T. flavus glycerol kinase is converted into this phosphorylated, heat-resistant form, which might exhibit elevated enzyme activity.
After this paper was accepted, we noticed when carrying out BLAST searches with the amino acid sequence of T. flavus glycerol kinase in microbial databases that D. radiodurans, a close relative of T. flavus, contains two glycerol kinases: one without the conserved phosphorylatable histidyl residue of Gram-positive bacteria, rather resembling Esc. coli glycerol kinase (58% sequence identity), the other possessing an equivalent of His-232 and exhibiting an unexpectedly high sequence identity of 88% to glycerol kinase from Streptococcus pyogenes. D. radiodurans possesses an MTP, which is composed of a fructose-specific EIIA, an HPr and an enzyme I domain (Wu et al., 1990 ). It is therefore likely that the His-232-containing glycerol kinase of this organism is also phosphorylated in vivo with PEP.
We are thankful to Dominique Le Coq for critically reading the manuscript. This research was supported by the Centre National de la Recherche Scientifique, the Institut National Agronomique, Paris-Grignon and by the Institut National de la Recherche Agronomique. Preliminary D. radiodurans sequence data were obtained from The Institute for Genomic Research through the website at http://www.tigr.org. Sequencing of the D. radiodurans project was accomplished with the support from the US Department of Energy.References
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Received 1 June 1999; revised 19 July 1999; accepted 23 July 1999.