Abstract
TatA is an essential and structurally conserved component of all known Twin-arginine transport (Tat) machineries which are able to catalyse membrane transport of fully folded proteins. Here we have investigated if bacterial TatA, or chimeric pea/E. coli TatA derivatives, are capable of replacing thylakoidal TatA in function. While authentic E. coli TatA does not show any transport activity in thylakoid transport experiments, TatA chimeras comprising the transmembrane helix (TMH) of pea TatA are fully active. For minimal catalytic activity it is even sufficient to replace three residues within TMH of E. coli TatA by the corresponding pea residues. Almost any further substitution within TMH gradually raises transport activity in the thylakoid system, while functional characterization of the same set of TatA derivatives in E. coli yields essentially inverse catalytic activities. Closer inspection of the substituted residues suggests that the two transport systems have deviating demands with regard to the hydrophobicity of the transmembrane helix.
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Introduction
The twin-arginine translocation (Tat) pathway, which is found at the thylakoid membrane of chloroplasts and the plasma membranes of bacteria and archaea (for recent reviews see refs 1–4), is specifically engaged by proteins carrying signal peptides with a characteristic twin pair of arginine residues within their N-region which gave rise to the name of the pathway5, 6. The energy for their membrane transport is provided solely by the transmembrane potential, notably ΔpH and/or ΔΨ7, 8.
The Tat pathway is unique in its ability to translocate fully folded proteins across ion-tight membranes9,10,11,12. It permits the co-transport of prosthetic groups or cofactors, like iron-sulphur clusters or molybdopterin, together with their apoproteins across the lipid bilayer13,14,15, which might have been the fundamental cause for the development and evolutionary persistence of this transport pathway.
The Tat machinery of chloroplasts and Gram-negative bacteria consists of three subunits, namely TatA, TatB, and TatC (in the thylakoid system also called Tha4, Hcf106, and cpTatC, respectively)16. TatC is a polytopic protein with six transmembrane helices and an N-terminal stromal/cytosolic domain17. Together with TatB, which carries a single N-terminal membrane anchor18, it constitutes the oligomeric TatBC receptor which binds precursor proteins carrying twin-arginine signal peptides19,20,21. The actual membrane translocation of the passenger protein additionally requires the transmembrane potential and the presence of TatA22, a membrane protein with strikingly similar structure and membrane topology as TatB18, 23. However, while TatB is generally found together with TatC in the heteromeric membrane receptor complexes of approximately 560–700 kDa19, 24, 25, the role of TatA in the transport process is still enigmatic. In a prevalent model TatA is assumed to constitute membrane pores of different or variable diameter facilitating the translocation of passenger proteins of different size22, 26, 27. Alternatively, it was proposed that the recruitment of TatA to the substrate-loaded Tat receptor would lead to a thinning or weakening of the lipid bilayer in the vicinity of the folded transport substrate which in turn would permit translocation of the passenger directly across the lipid phase28. And finally, a catalytic or regulatory activity of TatA exhibiting cooperative effects in the translocation process was demonstrated29 which might be indicative for a function of TatA as co-enzyme that transforms the TatBC receptor complex into the active translocase.
In line with its yet unresolved mode of operation, the stoichiometry of TatA remains a matter of debate. In E. coli an excess of TatA over TatB and TatC is generally assumed30, while in the plant system the stoichiometry of the Tat subunits is still contested. Both substoichiometric25, stoichiometric25, 31, as well as excess amounts of TatA32 compared with TatB and TatC were described depending on the method used for analysis and/or the plant species studied.
Remarkably, even the localisation of TatA is ambiguous to some extent. Though being described as membrane protein in all systems analysed, it was also found in soluble form in the stroma of chloroplasts33 as well as in the cytosol of B. subtilis 34. For chloroplasts it was shown that stromal TatA can fully substitute the thylakoid-bound protein moiety in function33. Furthermore, it was possible after suppressing the intrinsic thylakoidal TatA activity by antibody treatment to reconstitute thylakoidal Tat transport by adding soluble TatA obtained from in vitro translation or bacterial overexpression29, 35. This unique property allowed for the identification of functionally important residues within the polypeptide chain35 and the exact quantification of TatA demand during membrane transport of a model Tat substrate29.
Here, we have applied this approach to investigate if bacterial TatA, or chimeric pea-E. coli TatA derivatives, are likewise capable of replacing thylakoidal TatA in function. While authentic E. coli TatA does not show any transport activity in our thylakoid transport experiments, increasing numbers of pea residues within its transmembrane helix (TMH) gradually raises the catalytic activity of the protein suggesting that the entire TMH plays a role in the translocation process. Remarkably, functional characterisation of the same set of TatA derivatives in E. coli yields essentially inverse transport characteristics.
Results
E. coli TatA cannot replace plant TatA in thylakoid transport experiments
One suitable approach to study the activity of TatA in the membrane transport of proteins are in thylakoido complementation assays. In such assays the intrinsic activity of TatA is suppressed by antibody treatment and reconstituted by supplementing the assays with TatA obtained from in vitro translation or bacterial overexpression29, 35. With this approach it was, for example, possible to demonstrate that the intrinsic TatA activity of pea thylakoids can be fully substituted not only by the native protein from pea but also by TatA proteins from heterologous plant species like Arabidopsis thaliana 29.
In contrast, despite remarkable sequence conservation between plant and bacterial TatA proteins, particularly in the membrane interacting regions (Fig. 1), TatA from E. coli cannot substitute for the intrinsic thylakoidal TatA activity in protein transport (Fig. 2). This lack of transport activity is not a consequence of substrate selectivity of TatA because neither plant Tat substrates, like the precursor of the 23 kDa subunit of the oxygen evolving system (preOEC23) or the chimeric model substrate 16/23, nor even bacterial Tat substrates, like the chimeric model substrates TorA-MalE or TorA-mCherry36, 37, show any membrane transport in these assays (Fig. 2A and B). In contrast, all these proteins are efficiently transported if the assays are complemented with pea TatA which reconfirms earlier observations that also bacterial Tat substrates are principally suited for thylakoidal membrane transport38, 39.
Alignment of TatA proteins from pea and E. coli. The amino acid sequences (given in the one-letter-code) of the mature TatA proteins from pea (peaTatA) and E. coli (ecoTatA) were aligned with LALIGN54. Identical and conserved residues are indicated by colons and dots, respectively. The designation of the amino acid positions given below the lanes refers to E. coli TatA. The transmembrane helix (TMH), hinge region (HR), amphipathic helix (APH), and unstructured hydrophilic C-terminal region (CTR), as deduced from NMR spectroscopy of the T22P derivative of E. coli TatA23, are indicated. The initial methionine shown in brackets for peaTatA is not part of the mature protein in chloroplasts but was added to the clone used for in vitro translation.
Reconstitution of thylakoidal Tat transport with TatA from pea and E. coli. (A) In thylakoido transport of authentic and chimeric plant model Tat substrates in the presence of TatA from pea or E. coli. The authentic precursor of OEC23 (preOEC23) and the chimeric precursor protein 16/23 were generated by in vitro transcription of the respective cDNA clones and subsequent in vitro translation in the presence of [35S]-methionine. 5 μl of each translation assay were incubated with thylakoid vesicles isolated from pea that had been either mock-treated (con) or treated with antibodies against TatA (+anti-TatA). The latter were subsequently supplemented with either HM buffer only (10 mM Hepes/KOH, pH 8.0; 5 mM MgCl2) (HM) or with TatA from pea (pea TatA) or E. coli (eco TatA), which were obtained by in vitro transcription/translation with the wheat germ rapid translation system (RTS). Lanes RTS empty show translation assays containing an empty vector control. After incubation for 15 min in the light at 25 °C, thylakoids were washed once with HM buffer and subsequently incubated with either thermolysin (182 μg/ml, 30 min on ice, lanes+) or HM buffer (lanes−). From each fraction stoichiometric amounts corresponding to 7.5 μg of chlorophyll were analysed on 10–17.5% SDS-polyacrylamide gradient gels and detected by phosphorimaging. In lanes t, 1 μl of the translation assays of the respective Tat substrates was loaded. The bands showing the precursor (p) and mature proteins (m) are indicated by filled arrowheads. Ti-2 marks the protease-protected fragment indicative of translocation intermediate Ti-2 of the 16/23 chimera in which the passenger protein is fully translocated across the membrane but the Tat transport signal not yet removed24, 48. The molecular weights (in kDa) of marker proteins loaded in parallel are indicated on the left of each panel. (B) In thylakoido transport of the bacterial model Tat substrates TorA-MalE and TorA-mCherry.
One conceivable explanation for the lack of transport activity of E. coli TatA in the thylakoid system could be inability of bacterial TatA to bind to the thylakoid membrane, as a consequence, for example, of the unique lipid composition of this membrane40. However, we did not find any indication for such incompatibility because E. coli TatA shows strong membrane binding when applied in radiolabelled form in our in thylakoido experiments (Fig. 3, E. coli TatA is indicated by diamonds).
Influence of increasing amounts of ecoTatA on thylakoid transport mediated by peaTatA. In thylakoido complementation of 16/23 transport by peaTatA was analysed in the presence of increasing amounts of ecoTatA. Both TatA proteins were obtained from in vitro translation in the RTS system in the presence of [35S]-methionine, which allows their detection by autoradiography (stars: peaTatA, diamond: ecoTatA). The composition of each supplementation, i.e. the proportion of pea TatA, eco TatA, and empty RTS in the total volume of 25 μl, is given above the lanes. Ti-1 indicates the position of the protease-protected fragment indicative of translocation intermediate Ti-1 of the 16/23 chimera which represents the membrane-bound precursor protein prior to membrane translocation of the 23 kDa passenger polypeptide24, 48, 55. For further details see the legend to Fig. 2.
In addition, the presence of E. coli TatA in the assays does not impair the general integrity of the thylakoid system, e.g. by destruction of the transthylakoidal proton gradient, which would likewise prevent Tat-dependent protein transport (Fig. S1). If in thylakoido assays performed with pea TatA are additionally supplemented with increasing amounts of E. coli TatA, membrane transport of Tat substrates like the 16/23 chimera remains essentially unaffected (Fig. 3) which rules out any unspecific damage of the thylakoid membrane by the bacterial protein. Furthermore, it shows that the presence of bacterial TatA in the assays does not have a negative impact on the activity of pea TatA which makes an immediate interaction of the two protein moieties and the formation of functionally relevant heterooligomeric TatA complexes like membrane pores, which presumably would be less active or even inactive, rather unlikely. Instead, it appears that E. coli TatA is incapable of productively interacting with the other components of the thylakoidal Tat machinery. Hence, bacterial and plant TatA are apparently too divergent from each other to permit mutual substitution, in spite of a largely conserved structure, as deduced from molecular modelling of TatA from Arabidopsis thaliana (Fig. S2) and the NMR structures available for the T22P derivative of E. coli TatA23.
The N-terminal transmembrane helix of pea TatA provides full transport activity to chimeric TatA proteins
As the first step to identify those differences that are functionally relevant, we have generated a set of chimeric TatA proteins in which segments from pea and E. coli TatA were combined. In chimera ecoTatA[N22pea], the N-terminal 22 residues of E. coli TatA comprising the transmembrane helix (TMH) and the short hinge region (HR) connecting TMH and the amphipathic helix (APH) were replaced by the corresponding residues of pea TatA (Fig. 4A). In chimera ecoTatA[N19pea], solely TMH but not HR originate from the pea protein. And in chimera ecoTatA[N17pea], even the C-terminal residue of TMH was retained from E. coli.
Catalytic activity of chimeric TatA proteins in in thylakoido complementation experiments. (A) Amino acid sequence of the N-terminal regions of the chimeric TatA proteins ecoTatA[N22pea], ecoTatA[N19pea], and ecoTatA[N17pea]. The residues derived from pea are depicted in bold. Please note that due to the use of E. coli TatA as reference the number of pea residues in each chimera is actually two residues higher than depicted in the name (see also Fig. 1). (B) I n thylakoido complementation of 16/23 transport by the RTS-generated chimeric TatA proteins shown in (A). For further details see the legends to Figs 1 and 2. (C) Quantitation of catalytic activities as shown in (B) given as percentage of the transport rate determined for the antibody-treated assays supplemented with pea TatA. Both mean values and standard deviations from three (n = 3) independently repeated experiments are shown.
All three chimeric TatA proteins show strong transport activity in the in thylakoido complementation assays (Fig. 4B) demonstrating that the large C-terminal unstructured region, and even APH, of pea TatA can be replaced by the corresponding regions of the E. coli protein without loss of function. However, while the activity of both ecoTatA[N17pea] and ecoTatA[N19pea] is essentially identical to that of pea TatA, ecoTatA[N22pea] is always found somewhat less active (approximately 65% of the transport activity of pea TatA, Fig. 4C). This was entirely unexpected because from all three chimeras ecoTatA[N22pea] carries the largest proportion of pea TatA. It should be noted though that the HRs of E. coli and pea TatA, and hence the chimeras ecoTatA[N19pea] and ecoTatA[N22pea], differ in only a single amino acid residue at position 22, which is T and P, respectively (Fig. 4A). Remarkably, such a T22P substitution, which was also introduced into the E. coli TatA derivative used for NMR analysis23, was already described to render E. coli TatA functionally inactive41. Together with our results it appears that such a T22P substitution always has a negative impact on TatA activity if combined with the APH and/or the C-terminal unstructured region of E. coli TatA, irrespective of whether it is analysed in bacterial or thylakoidal transport systems.
Successive substitution of pea TMH residues leads to stepwise reduction of TatA activity
In the next set of TatA chimeras, the proportion of pea residues was further reduced. Starting from the fully active chimera ecoTatA[N17pea], the pea-derived residues within TMH were successively substituted from C- to N-terminus by the respective residues of the E. coli protein (Fig. 5A). This leads to a gradual decrease of catalytic TatA activity in in thylakoido complementation experiments (Fig. 5B). While ecoTatA[N16pea] still shows 77% of the activity of pea TatA, virtually each additional substitution reduces the activity further until it is, for chimera ecoTatA[N7pea], completely abolished (Fig. 5C). This gradual decrease of transport activity suggests that there are not only a few key residues but rather residues along the entire TMH of TatA that determine the species-specific functionality of a TatA molecule in a given Tat system.
Catalytic activity of chimeric TatA proteins with substitution in the C-terminal part of the TMH region. (A) Amino acid sequence of the N-terminal regions of the chimeric TatA proteins analysed here. (B) In thylakoido complementation assays analysing the chimeric TatA proteins shown in (A). (C) Quantitation of catalytic activities of three (n = 3) independent experiments as shown in (B) given as percentage of the transport rate determined for the antibody-treated assays supplemented with pea TatA. For further details see the legends to Figs 1, 2 and 4.
Minimal TatA activity demands for three residues from pea TatA
In order to determine the impact of N-terminally located residues independent of changes in the C-terminal part of the TMH, a further set of TatA mutants was generated in which single amino acids within E. coli TatA were substituted by the corresponding residues from pea (Fig. 6A). Analysing these mutants in in thylakoido complementation assays, it turned out that neither the replacement of the glutamine residue at pos. 8 by glutamic acid (chimera ecoTatA[8pea]), which is an essential residue in plant TatA proteins29, 35, nor the additional substitution of tryptophan at pos. 7 by proline in chimera ecoTatA[7,8pea] leads to any detectable TatA activity (Fig. 6B). Only after further replacement of serine at pos. 5 by glycine (chimera ecoTatA[5,7,8pea]), thylakoid transport of the 16/23 model substrate can be observed, albeit at a minimal level (approx. 3% of the control, Fig. 6C). Additional replacement of isoleucine by valine at pos. 6 (ecoTatA[5–8pea]) leads to a substantial increase of transport activity (to approx. 8%), whereas substitution of isoleucine at pos. 4 by leucine (ecoTatA[4–8pea]) has no additional effect. However, each of the next two substitutions (leucine to valine at pos. 10 and isoleucine to valine at pos. 11 in mutants ecoTatA[4–10pea] and ecoTatA[4–11pea], respectively) almost doubles the transport activity (to approximately 15% and 30%, respectively) (Fig. 6C). And finally, mutant ecoTatA[4–14pea], which additionally comprises a substitution of valine to glycine at pos. 14, shows more than 40% of the catalytic activity of the authentic TatA protein from pea.
Catalytic activity of mutant derivatives of E. coli TatA carrying single amino acid substitutions within TMH. (A) Amino acid sequence of the N-terminal regions of the chimeric TatA proteins analysed here. (B) In thylakoido complementation assays analysing the chimeric TatA proteins shown in (A). (C) Quantitation of catalytic activities of three (n = 3) independent experiments as shown in (B) given as percentage of the transport rate determined for the antibody-treated assays supplemented with pea TatA. For further details see the legends to Figs 1, 2, and 4.
Hence, a minimal substitution of three residues in the N-terminal region of TMH of E. coli TatA (S5G, W7P, Q8E) is both required and sufficient to establish low but definite catalytic TatA activity in the in thylakoido assays. Successive replacement of further residues within the TMH by the corresponding residues from pea TatA leads to stepwise increase of the transport activity in the thylakoid system which finally can reach 40–50% of the transport activity of authentic pea TatA (Figs 5C and 6C).
Activity of the TatA chimeras in E. coli
Next, we have asked which of the chimeric TatA proteins generated here are capable of catalysing Tat transport in E. coli. For this purpose, the authentic tatA gene in plasmid pHSG-TatABC, which is expressed under control of the lac promoter, was replaced by the respective chimeric TatA encoding genes. The resulting plasmids were transformed into E. coli GSJ101 (ΔmalE, ΔtatABCE) that, in addition, contained plasmid pTorA-MalE from which the strictly Tat-specific TorA-MalE reporter protein is expressed (Table 1). As described earlier, the TorA-MalE reporter allows an easy in situ detection of Tat-dependent MalE export into the periplasm on indicative media, i.e. growth on minimal maltose medium (MMM) and formation of red colonies on MacConkey maltose (MCM) agar plates42, 43.
As expected, the presence of authentic E. coli TatA results in full activity of the TatABC translocase (Table 1 and Fig. S3), in line with published data36, 42. In contrast, chimeras ecoTatA[N22pea] and ecoTatA[N19pea], both carrying the entire TMH of pea TatA (Fig. 4A), are not able to substitute for E. coli TatA in the bacterial system, as indicated by the lack of growth of the corresponding strains on MMM (Table 1 and Fig. S3). The same holds true also for chimeras ecoTatA[N17pea], ecoTatA[N16pea], and ecoTatA[N15pea] in which the three C-terminal residues of pea TMH have successively been replaced. However, starting with chimera ecoTatA[N14pea], which shows low but definite TatA activity in the bacterial in situ plate assays, further reduction of the pea-derived residues in the chimeras allows significant Tat-dependent translocation of MalE into the periplasm of the corresponding E. coli strains. In almost all instances growth on MMM is accompanied by a colored phenotype of the corresponding colonies on MCM, while lack of growth on MMM corresponds to a pale colony on MCM (Table 1 and Fig. S3). However, in two cases (ecoTatA[N19pea] and ecoTatA[N16pea]) such a strict correlation is not observed. The corresponding colonies show a light-red or pink staining on MCM despite the fact that growth on MMM cannot be detected. The reason for this unusual phenotype is not known so far. We suggest that a fraction of the cells have undergone cell lysis upon expression of the respective TatA hybrid molecules thus resulting in the local acidification of the MCM medium to a level sufficient for the light red or pink phenotype exhibited by respective colonies. More importantly, however, the lack of growth on MMM of the ecoTatA[N19pea] or ecoTatA[N16pea]-expressing strains indicates that the corresponding chimeric TatA proteins do not allow Tat-dependent transport of the TorA-MalE reporter into the periplasm.
Taken together, the activity of the chimeric TatA proteins in E. coli appears to be inversely correlated to that obtained for the same proteins in the thylakoid system, i.e. highly active chimeras in bacterial Tat transport are hardly active in thylakoidal Tat transport and vice versa (Table 1 and Fig. 5C). At first glance, this result seems to reinforce the presumed specific interaction of the transmembrane helix of TatA with the other components of the Tat machinery. However, for the bacterial system such a conclusion appears premature and superficial because we observed a striking correlation between the activities of the chimeric TatA proteins and their accumulation in the cytoplasmic membrane of E. coli. The inactive chimeras are not (ecoTatA[N22pea], ecoTatA[N19pea], ecoTatA[N17pea]) or at only low levels (ecoTatA[N16pea], ecoTatA[N15pea]) dectable in the membrane fractions of the respective strains when analysed by Western blotting using polyclonal antisera raised against E. coli TatA (Fig. 7A). However, all TatA chimeras are clearly detectable in whole cell extracts (Fig. 7B) indicating that they are all synthesized to considerable degrees. Hence, it is not yet possible to distinguish whether in the E. coli system transport activity of a given chimeric TatA protein reflects the extent of interaction with bacterial TatB and/or TatC, which might even be a prerequisite for stable membrane integration, or whether it is a direct consequence of the ability of chimeras to integrate into the cytoplasmic membrane of the respective bacterial reporter strain.
Accumulation of chimeric TatA proteins in E. coli. (A) Membrane preparations corresponding to identical amounts of cells were subjected to SDS-PAGE and immunoblotting using polyclonal antibodies raised against TatA (upper panel), TatB (middle panel), or TatC (lower panel) from E. coli. The immunoblots were developed by ECL-coupled detection. (B) Whole cell extracts of the cultures shown in (A) were analysed. K1, negative control (GSJ101 pTorAMalE, pHSG575); K2, positive control (GSJ101 pTorA-MalE, pHSG-TatABC). The other samples correspond to GSJ101 pTorA-MalE containing in addition pHSG-TatABC plasmids expressing the TatA chimeras indicated above the respective lanes.
Membrane interaction of chimeric TatA proteins in the thylakoid system
With thylakoid membranes, on the other hand, no such differences in membrane integration of the chimeric TatA proteins became apparent (Fig. S4). Still, we wanted to assess if active and inactive TatA proteins differ from each other with respect to persistance against membrane extraction. For this purpose, we have analysed E. coli TatA as well as five TatA chimeras (ecoTatA[N7pea], ecoTatA[N8pea], ecoTatA[N11pea], ecoTatA[N16pea], and ecoTatA[N17pea]) showing transport activities in the thylakoid system ranging from 0% to 100% (see Figs. 4 and 5). All proteins were obtained by in vitro translation in radiolabelled form and allowed to integrate into thylakoids under transport conditions. The thylakoids were subsequently treated with either (i) HM buffer, (ii) 0.2 M Na2CO3, (iii) 0.2 M NaBr, (iv) 0.6 M NaBr, or (v) 1 M urea. Membrane and supernatant fractions were separated by centrifugation and analysed by SDS-PAGE and phosphorimaging.
It turned out that all proteins analysed show considerable membrane binding and integration properties, irrespective of their activity in thylakoid transport experiments (Fig. 8). They are all resistant against membrane extraction with HM buffer or 1 M urea demonstrating that they had been properly inserted into the thylakoids. Treatment with solutions of NaBr or Na2CO3 reveals some differences between the chimeras though. EcoTatA[N17pea] and ecoTatA[N16pea], which are 100% and 77% active in the thylakoid assays, respectively, show membrane persistance rates ranging from 64% to 77% (Fig. 8C). In contrast, ecoTatA[N11pea], which has 33% activity in thylakoid transport, is retained to only 33–44% in the membrane. At first glance, this seems to suggest a certain degree of correlation between membrane persistence and catalytic activity. However, the same or even higher resistance against membrane extraction by NaBr or Na2CO3 is found for ecoTatA[N7pea], ecoTatA[N8pea], and even E. coli TatA (Fig. 8C,D) despite the fact that the three proteins are barely (ecoTatA[N8pea], Fig. 5) or not at all active in the thylakoid system (Figs. 2 and 5).
Integration of functional and non-functional TatA chimeras in the thylakoid membrane. E. coli TatA as well as five TatA chimeras (ecoTatA[N7pea], ecoTatA[N8pea], ecoTatA[N11pea], ecoTatA[N16pea], and ecoTatA[N17pea]) which show transport activities in the thylakoid system ranging from 0% to 100% (see Figs. 4 and 5) were obtained by in vitro translation in radiolabelled form and incubated with thylakoid vesicles under transport conditions for 15 min at 25 °C in the light. Thylakoids were washed once with HM buffer and subsequently resuspended in either (i) HM buffer, (ii) 0.2 M Na 2 CO 3 , (iii) 0.2 M NaBr, (iv) 0.6 M NaBr, or (v) 1 M Urea. After incubation for 30 min on ice thylakoids (A) and supernatant fractions (B) were collected after centrifugation and analysed by SDS-PAGE and phosphorimaging. The relative amounts of each TatA protein in the two fractions (THY and SN, respectively) were quantified (C). (D) Graph showing the relative amounts of each TatA protein in the THY fractions after membrane extraction. The activities of the different TatA proteins in thylakoid transport experiments are indicated by white bars.
From these results we conclude that in the thylakoid system the catalytic transport activity of a given TatA protein is not a simple consequence of its extent of membrane integration but rests instead to a larger degree on processes taking place after membrane binding.
Discussion
It was the goal of this study to find out if chimeric TatA proteins composed of segments derived from both, E. coli TatA and pea TatA, can principally replace the respective authentic TatA proteins in bacterial and plant Tat transport systems and, if so, to determine which residues of either of the original TatAs are required to render the chimeric proteins catalytically active in the respective heterologous system.
The TMH of TatA determines its activity in thylakoidal Tat transport
Starting from the observation that plant and bacterial TatA proteins share substantial sequence and structure homology (Figs 1 and S2) it was surprising that E. coli TatA is not able to replace pea TatA in in thylakoido transport assays (Fig. 2). Such assays have been previously shown to allow determination of transport activity of heterologous plant TatA proteins29 and should, in principle, be suitable for any given TatA. The lack of bacterial TatA activity observed prompted us to generate a large set of chimeric TatA proteins in order to potentially identify the underlying cause for this incapability. It turned out that it is exclusively the N-terminal region comprising the transmembrane helix which determines the activity of TatA in thylakoidal Tat transport since all other parts of the pea protein can be replaced by their bacterial counterparts without notable effect (Fig. 4). Further, the substitution of just three amino acid residues of E. coli TatA (S5, W7, Q8) by the corresponding residues from pea TatA (G, P, and E, respectively) is sufficient to achieve at least minimal catalytic activity in our thylakoid transport assays (Fig. 6). This is in line with published data demonstrating that both, Q8 of E. coli TatA and the corresponding E10 residue of pea TatA, are indispensable for TatA function in the respective transport systems29, 35, 44. Taken together, these results demonstrate that the two TatA proteins, and hence probably the entire Tat machinery, are structurally and functionally closely related to each other despite their enormous evolutionary distance.
Except for the three essential residues described above, no further explicit key residues determining the catalytic activity could be detected. Instead, it appears that all residues in the transmembrane helix are involved in the transport process, in yet an unknown, sequence-specific manner. This is evident in that almost each substitution of a pea residue within TMH by its bacterial counterpart leads to a decrease in catalytic activity in the in thylakoido assays (Fig. 5). In contrast, the very N-terminal residues, which differ between pea and E. coli in both sequence and length (Fig. 1), apparently do not play a major role, since corresponding mutant pairs carrying or lacking these residues (e.g., ecoTatA[N11pea] and ecoTatA[4–11pea], respectively) show similar catalytic activities (Figs 5C and 6C).
TatA chimeras show reciprocal activities in the two assay systems
These findings are in principle valid also for the complementary, bacterial system. If transport activity of the chimeric TatA proteins is determined in E. coli, basically reciprocal results to those achieved in the thylakoid system are obtained, i.e. highly active chimeras in thylakoidal Tat transport are merely active in bacterial Tat transport and vice versa (compare Table 1 with Figs 4C and 5C). At first glance this seems to suggest that Tat translocation depends on specific interaction of the TMH of TatA with the other components of the Tat machinery and that bacterial and thylakoidal Tat components have cumulated deviating and probably compensating mutations within the protein interacting segments which prevent mutual exchange of single subunits of the translocases.
However, this interpretation is compromised by the fact that the TatA derivatives analysed here are not found in equal amounts in the bacterial membranes. In fact, those chimeras lacking transport activity in E. coli are detected, if at all, only at low levels in the respective membrane fractions by immunoblotting with antisera against E. coli TatA, while detectable transport activity is accompanied by somewhat stronger accumulation of the protein in the bacterial membranes (Table 1 and Fig. 7). This seemingly points to a rather simple, direct correlation of protein accumulation in the membrane and transport activity. However, it clearly contradicts the results obtained in the thylakoid system which do not show such strict correlation. Both active and inactive TatA chimeras are resistant to membrane extraction with 1 M urea (Fig. 8). Upon extraction with solutions of chaotropic salts or alkaline pH highly active TatA chimeras (≥77% activity) show somewhat stronger membrane persistance than chimeras with lower (33%) or no catalytic activity. However, the differences are too small and too inconsistent (Fig. 8D) to support the assumption that transport activity of a given TatA chimera in the thylakoid system is determined to a large extent by its membrane integration characteristics.
Hence, it appears likely that the reasons for lack of transport activity of the chimeric TatA proteins are different for the two analytical systems, although it cannot even be ruled out that lack of membrane accumulation of several TatA chimeras in E. coli is actually a consequence of their lacking transport activity. It is, for example, well conceivable that impairment in the productive interaction of a given TatA chimera with bacterial TatB and/or TatC leads in turn to its instability in the membrane. However, formal proof for such kind of speculation is missing.
Is the activity of TatA correlated with the hydrophobicity of its TMH?
The finding that the entire transmembrane domain of TatA has an apparent influence on the transport activity of the chimeric TatA proteins can be interpreted in two ways. Either, there are numerous residues along the TMH which are involved in specific interaction with TatB and/or TatC, or a more general physico-chemical attribute of this domain is responsible for the observed effect. In fact, closer inspection of the TatA chimeras with regard to their transport activity in the thylakoid system and amino acid composition within TMH show a remarkable interrelation. Due to the overall stronger hydrophobicity of the transmembrane helix of E. coli TatA compared to that of pea (Fig. S5), almost all substitutions within pea TMH lead to an increase in hydrophobicity. In most instances this is accompanied by a considerable decrease in transport activity in the thylakoid system (Figs 5 and 6). This holds true for each of the substitutions A17V, A16V, G14V, V11I, and V10L (Table 2). In the case of V10L the effect appears weaker at first sight (from 9% to 3%) but even this actually represents a tripartition of transport activity. The only exception of this presumed rule is V15I, which shows no major impact on thylakoidal transport activity despite increased hydrophobicity (Fig. 5 and Table 2).
How could such relatively mild changes in hydrophobicity by single site mutations have such strong and reciprocal effects on transport activity of TatA in the two systems? One obvious possibility is the lipid composition which indeed differs remarkably between the bacterial and thylakoidal membranes. While the cytoplasmic membrane of E. coli contains predominantly phospholipids, particularly phosphatidylethanolamine45, the thylakoid membrane consists instead to more than 70% of galactolipid derivatives, namely monogalactosyl diacylglycerol (MGDG, approx. 50%) and digalactosyl diacylglycerol (DGDG, >20%)40. Although the potential role of such divergent lipid composition on the activity of protein transport machineries has not been addressed so far, an influence on the assembly of the Tat components analogous to that described in the structural organisation of the light-harvesting complex of photosystem II46 appears possible.
A second point to be considered is the observation that in chloroplasts TatA is also present in the hydrophilic stromal compartment33. Furthermore, in in thylakoido reconstitution assays such soluble TatA can fully replace membrane-bound TatA that was inactivated by antibody treatment29, 35. Despite the fact that the protein is known to fulfil its function in membrane-bound form, a temporary, and potentially obligatory, stage of soluble TatA therefore appears possible, at least in chloroplasts. In such a scenario, increasing hydrophobicity of TMH of TatA would probably decrease the solubility of TatA in the stroma and thus impair transport activity.
Materials and Methods
Cloning and mutagenesis
The DNA fragments comprising the entire reading frames of either TatA from E. coli or mature TatA from pea were amplified by PCR using primer pairs EcoTatA forward + EcoTatA reverse and peaTatA forward + peaTatA reverse, respectively (Table S1). After restriction with NcoI and SmaI, both PCR products were cloned separately with vector pIVEX 1.3 WG that was linearised accordingly. The two clones were subsequently used as templates for PCR reactions using primer pairs ecoTatA[N22pea] TMH + HR (forward + reverse) and ecoTatA[N22pea] APH + CTD (forward + reverse), respectively (Table S1), which amplify complementing halfs of vector pIVEX 1.3 plus either the coding region of TMH and HR from pea TatA or the coding region of APH and CTD from E. coli TatA, respectively (Fig. 4A). Both PCR fragments were cleaved with EcoRI and ligated as EcoRI/blunt end fragments yielding clone ecoTatA[N22pea] in vector pIVEX 1.3 (Fig. 4A), which was taken as source for TatA derivatives from ecoTatA[N19pea] to ecoTatA[N7pea]. In contrast,TatA derivatives from ecoTatA[8pea] to ecoTatA[4–14pea] were generated using clone ecoTatA as template. The actual mutagenesis reactions were carried out with the QuikChange® Site-Directed Mutagenesis Kit (Stratagene, La Jolla, CA, USA) using the primers listed in Table S1 and confirmed by DNA sequencing.
For the construction of plasmid pHSG-TatABC, a BamHI/PstI fragment containing the E. coli tatA, tatB, and tatC genes was isolated from plasmid pHSG-TatABCE36 and ligated into BamHI/PstI-digested pHSG57547. To replace the E. coli tatA gene in plasmid pHSG-TatABC by the genes encoding the chimeric TatA proteins N22pea, N19pea, N17pea, N16pea, N15pea, N14pea, N11pea, N10pea, N8pea, or N7pea, respectively, the corresponding tatA genes were amplified in a PCR reaction using primers AE FW BamHI and AE Rev EcoRV (Table S1) and the respective source clones in vector pIVEX 1.3 WG (see above) as templates. The resulting PCR fragments were digested with BamHI and EcoRV and ligated together with the larger of the two DNA fragments that were obtained by digesting pHSG-TatABC with the same two enzymes.
In thylakoido protein transport and membrane binding experiments
Isolation of chloroplasts and thylakoids from pea seedlings (P. sativum var. Feltham First) was carried out according to48. Thylakoid vesicles corresponding to 15 μg of chlorophyll were incubated with radiolabelled precursor protein obtained by in vitro transcription/translation according to12 in the presence of [35S]-methionine. After incubation for 15 min at 25 °C in the light the assays were diluted with one volume of HM buffer (10 mM HEPES/KOH pH 8,0; 5 mM MgCl2) and thylakoids were recovered by centrifugation (4 min at 20,000 g). Pellets were washed once, resuspended in HM buffer and divided into two aliquots corresponding to 7.5 μg of chlorophyll each. One aliquot was treated with thermolysin (182 μg/ml) for 30 min on ice, the other aliquot was mock treated. Proteolysis was stopped by the addition of one volume HM buffer supplemented with 10 mM EDTA. Thylakoids were recovered by centrifugation and analysed on 10–17.5% SDS-polyacrylamide gradient gels followed by phosphorimaging.
Modifications, like anti-TatA treatment of thylakoids and supplementation of the assays with soluble TatA proteins obtained from in vitro translation with the wheat germ rapid translation system (RTS), were carried out following the protocols of29, 49.
Membrane binding and integration experiments were performed under in thylakoido transport conditions with radiolabelled TatA proteins obtained from in vitro translation with the RTS system. After incubation, thylakoid vesicles were washed once with HM buffer and divided into aliquots corresponding to 7.5 μg of chlorophyll each. Thylakoids of each aliquot were resuspended with HM buffer supplemented with either 0.2 M Na2CO3, 0.2 M NaBr, 0.6 M NaBr, or 1 M urea and incubated for 30 min on ice. Thylakoids and supernatant fractions were collected after centrifugation (4 min at 20,000 g) and analysed by SDS-PAGE and phosphorimaging. The gels were analysed with the Fujifilm FLA-3000 (Fujifilm, Düsseldorf, Germany) utilising the software packages BAS-Reader (version 3.14) and AIDA (version 3.25; Raytest, Straubenhardt, Germany) which was used also for quantification of the data.
E. coli methods
E. coli strains XL1 Blue (Stratagene) and GSJ10136 were grown at 37 °C in LB medium50, minimal medium51 supplemented with 0.4% maltose, or MacConkey agar base medium (Difco) supplemented with 1% maltose. If required, isopropyl-ß-d-thiogalactopyranoside (IPTG) was used in a 0.1 mM concentration. Antibiotic supplements were used in the following concentrations: kanamycin, 50 mg/l; chloramphenicol, 25 mg/l. For the preparation of E. coli whole cell extracts, 5 ml of an overnight culture were centrifuged for 10 min at 18,320 g. The resulting cell pellet was washed once with 0.9% NaCl and resuspended in 200 μl 50 mM Tris-HCl pH 8.0. After adding 50 μl 5x sample buffer (250 mM Tris-HCl, pH 6.8, 10% SDS, 30% (v/v) glycerol, 10 mM dithiothreitol, 0.05% (w/v) bromophenol blue) the samples were incubated for 15 min at 95 °C and subjected to SDS-PAGE. Preparation of membranes and Western blotting was performed as described43. The antibodies against TatA, TatB, and TatC that were used in this study were raised in rabbits by Eurogentec (Liège, Belgium) against two synthetic peptides from each of the respective Tat components. The peptides used to generate the TatA-specific antibodies were TatA1 (amino acids 55–70: QDADFTAKTIADKQAD) and TatA2 (amino acids 74–89: EQAKTEDAKRHDKEQV). The peptides used to generate the TatB-specific antibodies were TatB1 (amino acids 69–84: ASLTNLTPELKASMDE) and TatB2 (amino acids 156–171: AEPKTAAPSPSSSDKP). The peptides used to generate the TatC-specific antibodies were TatC1 (amino acids 1–15: MSVEDTQPLITHLIE) and TatC2 (amino acids 243–258: REEENDAEAESEKTEE).
Miscellaneous
Radiolabelled proteins were subjected to gel electrophoresis under denaturing conditions as described by52. All other methods followed published protocols53.
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Acknowledgements
This work was supported by grants from the Deutsche Forschungsgemeinschaft (KL 862/5–1, KL 862/6–1) and the European Regional Development Fund of the European Commission. We thank Elisabeth Piltz for modelling of TatA proteins and Astrid Bida for excellent technical assistance.
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R.S.H. and R.F. performed most of the thylakoidal and bacterial experiments, respectively. J.D. performed the binding experiments and prepared all the figures. M.J. affinity purified the antibodies required for the reconstitution assays. R.B.K. and R.F. designed and supervised the project. R.B.K. wrote the manuscript.
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Hauer, R.S., Freudl, R., Dittmar, J. et al. How to achieve Tat transport with alien TatA. Sci Rep 7, 8808 (2017). https://doi.org/10.1038/s41598-017-08818-w
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DOI: https://doi.org/10.1038/s41598-017-08818-w
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