Mol. Cells 2016; 39(8): 594-602
Published online July 25, 2016
https://doi.org/10.14348/molcells.2016.0042
© The Korean Society for Molecular and Cellular Biology
Correspondence to : *Correspondence: bychung@kaeri.re.kr
Alkyl hydroperoxide reductase subunit C from
Keywords 2-Cys peroxiredoxin, alkyl hydroperoxide reductase subunit C, chaperone, heat tolerance,
The active form of AhpC exists as a homodimer of two identical subunits arranged in a head to tail configuration, such that the CysP of one subunit is parallel to the CysR of the other subunit. Wood et al. (2003) reported that AhpC protein crystallizes as a dimer or decamer composed of five homodimers organized into a doughnut-shaped structure. In physiological solution, AhpC exists as a mixture of both dimers and decamers. The extent of decamer formation is influenced by the oxidation-reduction state of the protein. Reduction or overoxidation favors decamer formation, whereas a moderate level of oxidation induces conformational changes favoring dissociation to dimers (Parsonage et al., 2005; Wood et al., 2002).
The functional significance of 2-Cys Prx in all types of organisms is very well established (Hall et al., 2009; Tripathi et al., 2009). The capability of these proteins to perform multiple functions, e.g., peroxidase, chaperone, thiol oxidase, and signaling modulator, depending on the circumstances, has attracted a great deal of interest during recent years (Jang et al., 2004; K?nig et al., 2013). As a typical 2-Cys Prx, AhpC is also known to perform peroxidase and molecular chaperone functions (Chuang et al., 2006). To the best of our knowledge, the mechanisms mediating the functional shifting of AhpC from a peroxidase to a chaperone, and vice versa, are unclear. While some studies have demonstrated the dual functionality and functional switching of AhpC from a peroxidase to a chaperone function in a gastrointestinal bacterium,
As described above, PaAhpC possess two active cysteines, CysP and CysR, located at positions 47 and 166 in the N- and C-terminal regions, respectively. The cysteine-sulfenic acid intermediate formed after interaction with peroxides is susceptible to further oxidation to sulfinic acid and subsequently switches the function of the protein from a peroxidase to a chaperone due to conformational changes, altering the protein structure from a low-molecular-weight (LMW) structure to a high-molecular-weight (HMW) structure (K?nig et al., 2013). The oligomerization of Prx monomers increases surface hydrophobicity, thereby enhancing the chaperone function of the protein. Oxidative stress or heat shock can trigger changes in the conformation of 2-Cys Prx protein, leading to functional switching from a peroxidase to a chaperone (Chuang et al., 2006; Jang et al., 2004; K?nig et al., 2013; Lee et al., 2015). However, the molecular basis of this functional switching is still not completely understood. We recently determined the importance of an additional cysteine residue, distinct from the two conserved active cysteines in a typical 2-Cys Prx, involved in the functional switching of 2-Cys Prx proteins (An et al., 2015). Moreover, during alignment of amino acid sequences of PaAhpC with other AhpC in different bacterial species, we noticed the presence of two additional cysteines (Cys78 and Cys105) in
Therefore, in the current study, we aimed to determine the roles of these two additional cysteines in modulating the dual functions of PaAhpC. For this purpose, two mutant PaAhpC proteins were generated by substituting Ser and Thr at positions 78 and 105 with Cys through site-directed mutagenesis and then evaluated the ability of the mutated PaAhpC to confer resistance to oxidative and heat stress in complemented
The
The peroxidase activity of PaAhpC and its mutants was measured with 0.05 μM PaAhpF (already purified in our laboratory) and 150 μM of NADH as a reductant using methods described earlier (Nelson and Parsonage, 2011). The molecular chaperone activity was assessed by measuring the ability of PaAhpC proteins to inhibit the thermal aggregation of the substrate protein MDH (Jang et al., 2004). Briefly, 1 μM of MDH was mixed with various concentrations of PaAhpC proteins in a degassed 50 mM HEPES (pH 8.0) solution. The reaction mixture was incubated at 43°C for 15 min, and the increase in light scattering as a result of the thermal aggregation of substrate proteins was monitored at 340 nm with a DU 800 spectrophotometer equipped with a thermostatic cell holder (Beckman, USA).
WT and mutant PaAhpC proteins in 10 mM sodium phosphate buffer (pH 7.4) were used for far UV-CD spectral analysis with a Jasco J-715 spectrophotometer (Jasco, UK), and the spectra were accumulated five times from independent experiments (Ito et al., 2001).
Exposure of the hydrophobic domains of PaAhpC proteins was determined by monitoring the binding of 10 μM bis-ANS with 100 μg protein in 50 mM HEPES buffer (pH 8.0) using an SFM25 spectrofluorometer (Kontron, Germany). The excitation wavelength was set at 380 nm, and the emission spectra were monitored from 400 to 600 nm (Sharma et al., 1998).
The recombinant proteins isolated from WT-PaAhpC and its mutants were further purified based on size using fast protein liquid chromatography (FPLC; AKTA, Amersham Biosciences, Sweden) with a Superdex 200 10/300 GL column (Amersham Biosciences Inc., USA) at 4°C, as described earlier (An et al., 2011). The column was equilibrated and run at a flow rate of 0.5 ml min?1 with 50 mM HEPES buffer (pH 8.0) containing 100 mM NaCl. Reducing SDS-PAGE, nonreducing SDS-PAGE, and native PAGE were performed as described previously (Moon et al., 2005).
The protein sequence of PaAhpC was set as the query in the protein data bank, and PSI-BLAST was selected as the algorithm for the BLAST search. The sequence alignment was performed using Clustal W2 web-based software in EMBL-EBI (www.ebi.ac.uk). The Generate Homology Modeling protocol in Discovery Studio (DS) 3.5 (Accelrys Software Inc.; Accelrys, USA) was used for homology modeling of PaAhpC. After homology modeling, the stereochemical qualities of the homology models were validated using PROCHECK (Laskowski et al., 1993) and the ProSA-web server (Wiederstein and Sippl, 2007). Decameric structures of the two mutated proteins (S78C-PaAhpC and T105C-PaAhpC) were built from the decameric structure of WT-PaAhpC. The two mutant structures were generated by substituting each residue using the Build and Edit Protein protocol in DS 3.5. All structures (WT-PaAhpC, S78C-PaAhpC, and T105C-PaAhpC) were refined using the Standard Dynamics Cascade protocol in DS 3.5. For energy minimization, the steepest descent algorithm was used initially at 10 kcal (mol ?)?1 root mean square (RMS) energy gradient followed by the conjugate gradient algorithm until the RMS gradient converged to 0.01 kcal (mol ?)?1. The system was then heated from 50 to 300 K and equilibrated at 300 K for 1000 steps. To conduct distance analyses, 100-step conformations were selected from 1000 steps of production run with NVT Ensemble. The distance between the oxygen atoms in the side-chain of Ser78 was measured in WT-PaAhpC, whereas the distance between sulfur atoms in the side-chain of Cys78 was measured in S78C-PaAhpC. The average distances of residues at position 78 for five different interface regions and differences in distances between WT-PaAhpC and S78C-PaAhpC were calculated.
WT-PaAhpC and the two mutant PaAhpC constructs, inserted into the
For complementation assay, the transformed bacteria were grown aerobically in 5 ml LB medium supplemented with ampicillin (50 μg ml?1) and then transferred to 50 ml of fresh LB medium in a shaking incubator at 37°C. Bacterial cells from the optimally grown culture (having an OD of 0.5 at 600 nm) were harvested by centrifugation and concentrated until the OD reached 1.0 at 600 nm in fresh medium. The concentrated cells were serially diluted from 10?1 to 10?5. The diluted cells were poured on LB agar plates and incubated at 37°C for normal conditions or 50°C for thermal stress. In another set of experiments, the diluted cells were poured onto LB plates and subsequently treated with 0.4, 0.6, 0.8, or 1.0 mM H2O2 for the induction of oxidative stress, with incubation at 37°C (Gnanasekar et al., 2009).
A comparison of the sequences of PaAhpC with homologous AhpC proteins of other microbes through multiple sequences alignment confirmed the presence of two conserved cysteine residues at positions 47 and 166 (Fig. 1). Further sequence alignment also showed the presence of additional cysteines at positions 78 and 105 in AbAhpC (
PaAhpC showed the capacity for performing dual functions, e.g., peroxidase and molecular chaperone functions, in a protein concentration-dependent manner. Increasing concentrations of PaAhpC significantly reduced H2O2 content, complete degradation of H2O2 by 20 μM PaAhpC within 10 min (Fig. 2A), demonstrating the peroxidase activity of PaAhpC. Moreover, PaAhpC also exhibited chaperone activity, which was measured by monitoring the ability of the protein to suppress thermal aggregation of malate dehydrogenase (MDH) at 43°C. The aggregation of MDH was effectively inhibited at a 1:20 molar ratio of MDH to PaAhpC (Fig. 2B). The chaperone activity of PaAhpC was ∼2-fold lower than compared to that of PaPrx (An et al., 2010).
Purification of wild-type PaAhpC (WT-PaAhpC) and two mutants (S78C-PaAhpC and T105C-PaAhpC) generated single major band (24 kDa) in reducing sodium dodecyl sulfate (SDS)-polyacrylamide gel electrophoresis (PAGE), indicating the high degree of purity obtained under reducing condition (Fig. 3A). In non-reducing SDS-PAGE, WT-PaAhpC formed a single major band of approximately 48 kDa, supporting the presence of a dimeric structure similar to that observed for other 2-CysPrx proteins (Chuang et al., 2006; Hall et al., 2009; Jang et al., 2004; K?nig et al., 2013; Parsonage et al., 2005; Wood et al., 2002; 2003). In contrast, S78C-PaAhpC produced several high-molecular-weight (HMW) bands corresponding to an HMW structure, whereas T105C-PaAhpC showed a slightly lower band than WT-PaAhpC under non-reducing conditions (Fig. 3B). In native PAGE analysis, WT-PaAhpC and T105C-PaAhpC showed similar sizes, and S78C-PaAhpC generated relatively HMW bands compared with that of other proteins (Fig. 3C). The occurrence of HMW bands of S78C-PaAhpC in native gels was further supported by the results of size-exclusion chromatography (SEC; Fig. 3D). WT-PaAhpC and T105C-PaAhpC generated a single peak corresponding to the decameric form in SEC, whereas S78C-PaAhpC generated three peaks, including a prominent HMW peak, the decameric form, and the dimeric form in SEC (Fig. 3D).
Next, the relative peroxidase and chaperone activities of the two mutants were compared with that of WT-PaAhpC (Fig. 3E). S78C-PaAhpC and T105C-PaAhpC showed approximately 30.0% and 15.0% lower peroxidase activity than WT-PaAhpC. However, S78C-PaAhpC exhibited approximately 9-fold higher chaperone activity than WT-PaAhpC. In contrast, the chaperone activity of T105C-PaAhpC was almost equal to that of WT-PaAhpC (Fig. 3E).
We evaluated the effects of the S78C and T105C substitutions on the secondary structure of the protein using UV-circular dichroism (CD) spectra analysis. The α-helix content was decreased from 42.0% to 30.0%, β-sheet content was increased from 26.0% to 38.0%, and random coil and turn contents remained almost unchanged in S78C-PaAhpC compared with those in WT-PaAhpC (Fig. 4A). In T105C-PaAhpC, β-sheet content was increased by about 10% compared with that of WT-PaAhpC. Previous report has suggested that chaperones bind to the non-native forms of protein substrates through hydrophobic interactions to protect target substrates from stress-induced aggregation (Mayer and Bukau, 2005). Indeed, the fluorescence intensity of bis-ANS was significantly higher for S78C-PaAhpC than for WT-PaAhpC and T105C-PaAhpC (Fig. 4B), suggesting that the S78C substitution greatly increased the exposure of hydrophobic domains, leading to polymerization of the protein into HMW complexes and providing binding sites for partially denatured substrate proteins during chaperone assays.
A homology model of PaAhpC was generated from AhpC of
We then calculated the distances between residues at position 78 located in different monomers for WT and S78C mutant systems. For the 10 different conformations generated from standard dynamics cascade simulation, the average distances of residues at position 78 were measured for five different interface regions, and the differences in distances between WT and S78C systems were then calculated (Fig. 6C). For all conformations, the average distance for the S78C-PaAhpC mutant was closer than that for WT-PaAhpC, suggesting that mutation of Ser78 to Cys created a more compact decameric structure or long filaments of stacked 2Cys-Prx rings. The increased compactness may be associated with the higher chaperone activity observed in the S78C mutant system.
The physiological function of mutant PaAhpC proteins against oxidative and heat stress was examined through the complementation assay in Δ
In this study, we aimed to determine the role of protein structure and amino acid sequence in mediating the dual functions of PaAhpC. Our results provided important insights into the functional switching of PaAhpC between its peroxidase and chaperone functions and the capacity for the mutant proteins to support the bacterial cell to cope up with abiotic stresses.
Display of dual functions, e.g., peroxidase and chaperone functions, is a common feature of 2-Cys Prx proteins and has been reported in various organisms (Jang et al., 2004; K?nig et al., 2013), including bacteria (An et al., 2010; 2011; Chuang et al., 2006). WT-PaAhpC exhibits AhpF-dependent peroxidase activity that depends directly on the protein concentration. The peroxidase activity of PaAhpC may be a reflection of the well-organized defense system of
The molecular chaperone activity of WT-PaAhpC was lower than that of other 2-Cys Prx proteins of other organisms. AhpC protein is originally a peroxidase by nature and it may shift to chaperone depending on the conditions. Therefore, lower molecular chaperone activity of WT-PaAhpC is quite understandable. Further, bacterial cells possess many other chaperones (Chuang et al., 2006), therefore display of chaperone function of a peroxidase protein seems unlikely unless required or triggered by conditions. Therefore, substitution of Ser78 with Cys greatly enhanced the chaperone activity of PaAhpC in the present study. Previous studies have also reported the enhanced chaperone activity of 2-Cys Prx proteins after site-specific mutagenesis (An et al., 2010; K?nig et al., 2013). The improved chaperone activity of S78C-PaAhpC may be coupled with its increased β-sheet content and hydrophobicity, as shown in our current study. Changes in the secondary structure from α-helices to β-sheets and increased hydrophobicity have already been shown to be associated with enhanced chaperone activity in 2-Cys Prx proteins (Angelucci et al., 2013; Saccoccia et al., 2012). Additionally, native PAGE and SEC analyses also showed that the HMW structure was more common in the S78C-PaAhpC mutant than in WT-PaAhpC. The HMW fraction from SEC corresponded to low peroxidase activity and high chaperone activity. Consistent with this, Chuang et al. (2006) demonstrated structural/functional switching of HpAhpC from the LMW structure, with higher peroxidase function, to the HMW structure, with stronger molecular chaperone function, in
Homology modeling of WT-PaAhpC and mutated PaAhpC also explained the enhanced molecular chaperone activity of S78C-PaAhpC. The distance (O-O distance in WT-PaAhpC and S-S distance in S78C-PaAhpC) between the two Cys78 residues in neighboring dimers of the decameric structure was decreased in S78C-PaAhpC compared with that between the two Ser78 residues in WT-PaAhpC. The reduced molecular distances between the two neighboring dimers further favored strong interaction at the dimer-dimer interface, thereby leading to conversion of the LMW structure to the HMW structure with higher chaperone activity in S78C-PaAhpC. An earlier study on human PrxI also found that Cys83, which was present between the two conserved reactive cysteines, localized at the dimer-dimer interface and affected the balance between the LMW and HMW structures (Park et al., 2011). Similarly, in the case of
Heat stress causes inactivation of cellular protein molecules, followed by proteolytic degradation. Thus, augmentation of the molecular chaperone function of AhpC may provide a survival advantage in organisms subjected to heat stress. Furthermore, PaAhpC-complemented Δ
In this study, we demonstrated that PaAhpC exhibited dual functionalities as a peroxidase and a molecular chaperone. However, as a member of the 2-Cys Prx family of proteins and due to its intrinsic antioxidant properties, WT-PaAhpC preferred to act as a peroxidase rather than a molecular chaperone. Condition-dependent conformational changes from a LMW structure to HMW structures triggered the shift in PaAhpC function from a peroxidase to a chaperone. Furthermore, the ability of PaAhpC to perform chaperone activity was greatly improved by substituting Cys for Ser at position 78 (S78C-PaAhpC), located between the two conserved catalytic cysteines, using site-directed mutagenesis. S78C-PaAhpC, which exhibited enhanced chaperone activity, had markedly increased heat tolerance. Thus, our results indicated that the addition of a Cys residue at position 78 in PaAhpC modulated the functional shifting of this protein from a peroxidase to a chaperone. This feature may be exploited in the further development of heat-tolerant bacteria for industrial applications. Additional studies are required to further elucidate the mechanisms modulating the dual functions of PaAhpC and other 2-Cys Prx proteins to improve our understanding of the functional shifting from a peroxidase to a chaperone and enhancement of abiotic stress tolerance.
Mol. Cells 2016; 39(8): 594-602
Published online August 31, 2016 https://doi.org/10.14348/molcells.2016.0042
Copyright © The Korean Society for Molecular and Cellular Biology.
Jae Taek Lee1,2,7, Seung Sik Lee1,3,7, Suvendu Mondal1, Bhumi Nath Tripathi1, Siu Kim4, Keun Woo Lee4, Sung Hyun Hong1,5, Hyoung-Woo Bai1, Jae-Young Cho6, and Byung Yeoup Chung1,*
1Research Division for Biotechnology, Advanced Radiation Technology Institute (ARTI), Korea Atomic Energy Research Institute (KAERI), Jeongeup 56212, Korea, 2Fruit Vegetables Research Institute, Jellabuk-do Agricultural Research & Extension Services, Gunsan 54062, Korea, 3Department of Radiation Biotechnology and Applied Radioisotope, Korea University of Science and Technology, Daejeon 34113, Korea, 4Division of Applied Life Science (Brain Korea 21 Program), Gyeong-sang National University, Jinju 52828, Korea, 5Department of Bioenergy Science and Technology, Chonnam National University, Gwangju 61186, Korea, 6Department of Bioenvironmental Chemistry, Chonbuk National University, Jeonju 54896, Korea, 7These authors contributed equally to this work.
Correspondence to:*Correspondence: bychung@kaeri.re.kr
Alkyl hydroperoxide reductase subunit C from
Keywords: 2-Cys peroxiredoxin, alkyl hydroperoxide reductase subunit C, chaperone, heat tolerance,
The active form of AhpC exists as a homodimer of two identical subunits arranged in a head to tail configuration, such that the CysP of one subunit is parallel to the CysR of the other subunit. Wood et al. (2003) reported that AhpC protein crystallizes as a dimer or decamer composed of five homodimers organized into a doughnut-shaped structure. In physiological solution, AhpC exists as a mixture of both dimers and decamers. The extent of decamer formation is influenced by the oxidation-reduction state of the protein. Reduction or overoxidation favors decamer formation, whereas a moderate level of oxidation induces conformational changes favoring dissociation to dimers (Parsonage et al., 2005; Wood et al., 2002).
The functional significance of 2-Cys Prx in all types of organisms is very well established (Hall et al., 2009; Tripathi et al., 2009). The capability of these proteins to perform multiple functions, e.g., peroxidase, chaperone, thiol oxidase, and signaling modulator, depending on the circumstances, has attracted a great deal of interest during recent years (Jang et al., 2004; K?nig et al., 2013). As a typical 2-Cys Prx, AhpC is also known to perform peroxidase and molecular chaperone functions (Chuang et al., 2006). To the best of our knowledge, the mechanisms mediating the functional shifting of AhpC from a peroxidase to a chaperone, and vice versa, are unclear. While some studies have demonstrated the dual functionality and functional switching of AhpC from a peroxidase to a chaperone function in a gastrointestinal bacterium,
As described above, PaAhpC possess two active cysteines, CysP and CysR, located at positions 47 and 166 in the N- and C-terminal regions, respectively. The cysteine-sulfenic acid intermediate formed after interaction with peroxides is susceptible to further oxidation to sulfinic acid and subsequently switches the function of the protein from a peroxidase to a chaperone due to conformational changes, altering the protein structure from a low-molecular-weight (LMW) structure to a high-molecular-weight (HMW) structure (K?nig et al., 2013). The oligomerization of Prx monomers increases surface hydrophobicity, thereby enhancing the chaperone function of the protein. Oxidative stress or heat shock can trigger changes in the conformation of 2-Cys Prx protein, leading to functional switching from a peroxidase to a chaperone (Chuang et al., 2006; Jang et al., 2004; K?nig et al., 2013; Lee et al., 2015). However, the molecular basis of this functional switching is still not completely understood. We recently determined the importance of an additional cysteine residue, distinct from the two conserved active cysteines in a typical 2-Cys Prx, involved in the functional switching of 2-Cys Prx proteins (An et al., 2015). Moreover, during alignment of amino acid sequences of PaAhpC with other AhpC in different bacterial species, we noticed the presence of two additional cysteines (Cys78 and Cys105) in
Therefore, in the current study, we aimed to determine the roles of these two additional cysteines in modulating the dual functions of PaAhpC. For this purpose, two mutant PaAhpC proteins were generated by substituting Ser and Thr at positions 78 and 105 with Cys through site-directed mutagenesis and then evaluated the ability of the mutated PaAhpC to confer resistance to oxidative and heat stress in complemented
The
The peroxidase activity of PaAhpC and its mutants was measured with 0.05 μM PaAhpF (already purified in our laboratory) and 150 μM of NADH as a reductant using methods described earlier (Nelson and Parsonage, 2011). The molecular chaperone activity was assessed by measuring the ability of PaAhpC proteins to inhibit the thermal aggregation of the substrate protein MDH (Jang et al., 2004). Briefly, 1 μM of MDH was mixed with various concentrations of PaAhpC proteins in a degassed 50 mM HEPES (pH 8.0) solution. The reaction mixture was incubated at 43°C for 15 min, and the increase in light scattering as a result of the thermal aggregation of substrate proteins was monitored at 340 nm with a DU 800 spectrophotometer equipped with a thermostatic cell holder (Beckman, USA).
WT and mutant PaAhpC proteins in 10 mM sodium phosphate buffer (pH 7.4) were used for far UV-CD spectral analysis with a Jasco J-715 spectrophotometer (Jasco, UK), and the spectra were accumulated five times from independent experiments (Ito et al., 2001).
Exposure of the hydrophobic domains of PaAhpC proteins was determined by monitoring the binding of 10 μM bis-ANS with 100 μg protein in 50 mM HEPES buffer (pH 8.0) using an SFM25 spectrofluorometer (Kontron, Germany). The excitation wavelength was set at 380 nm, and the emission spectra were monitored from 400 to 600 nm (Sharma et al., 1998).
The recombinant proteins isolated from WT-PaAhpC and its mutants were further purified based on size using fast protein liquid chromatography (FPLC; AKTA, Amersham Biosciences, Sweden) with a Superdex 200 10/300 GL column (Amersham Biosciences Inc., USA) at 4°C, as described earlier (An et al., 2011). The column was equilibrated and run at a flow rate of 0.5 ml min?1 with 50 mM HEPES buffer (pH 8.0) containing 100 mM NaCl. Reducing SDS-PAGE, nonreducing SDS-PAGE, and native PAGE were performed as described previously (Moon et al., 2005).
The protein sequence of PaAhpC was set as the query in the protein data bank, and PSI-BLAST was selected as the algorithm for the BLAST search. The sequence alignment was performed using Clustal W2 web-based software in EMBL-EBI (www.ebi.ac.uk). The Generate Homology Modeling protocol in Discovery Studio (DS) 3.5 (Accelrys Software Inc.; Accelrys, USA) was used for homology modeling of PaAhpC. After homology modeling, the stereochemical qualities of the homology models were validated using PROCHECK (Laskowski et al., 1993) and the ProSA-web server (Wiederstein and Sippl, 2007). Decameric structures of the two mutated proteins (S78C-PaAhpC and T105C-PaAhpC) were built from the decameric structure of WT-PaAhpC. The two mutant structures were generated by substituting each residue using the Build and Edit Protein protocol in DS 3.5. All structures (WT-PaAhpC, S78C-PaAhpC, and T105C-PaAhpC) were refined using the Standard Dynamics Cascade protocol in DS 3.5. For energy minimization, the steepest descent algorithm was used initially at 10 kcal (mol ?)?1 root mean square (RMS) energy gradient followed by the conjugate gradient algorithm until the RMS gradient converged to 0.01 kcal (mol ?)?1. The system was then heated from 50 to 300 K and equilibrated at 300 K for 1000 steps. To conduct distance analyses, 100-step conformations were selected from 1000 steps of production run with NVT Ensemble. The distance between the oxygen atoms in the side-chain of Ser78 was measured in WT-PaAhpC, whereas the distance between sulfur atoms in the side-chain of Cys78 was measured in S78C-PaAhpC. The average distances of residues at position 78 for five different interface regions and differences in distances between WT-PaAhpC and S78C-PaAhpC were calculated.
WT-PaAhpC and the two mutant PaAhpC constructs, inserted into the
For complementation assay, the transformed bacteria were grown aerobically in 5 ml LB medium supplemented with ampicillin (50 μg ml?1) and then transferred to 50 ml of fresh LB medium in a shaking incubator at 37°C. Bacterial cells from the optimally grown culture (having an OD of 0.5 at 600 nm) were harvested by centrifugation and concentrated until the OD reached 1.0 at 600 nm in fresh medium. The concentrated cells were serially diluted from 10?1 to 10?5. The diluted cells were poured on LB agar plates and incubated at 37°C for normal conditions or 50°C for thermal stress. In another set of experiments, the diluted cells were poured onto LB plates and subsequently treated with 0.4, 0.6, 0.8, or 1.0 mM H2O2 for the induction of oxidative stress, with incubation at 37°C (Gnanasekar et al., 2009).
A comparison of the sequences of PaAhpC with homologous AhpC proteins of other microbes through multiple sequences alignment confirmed the presence of two conserved cysteine residues at positions 47 and 166 (Fig. 1). Further sequence alignment also showed the presence of additional cysteines at positions 78 and 105 in AbAhpC (
PaAhpC showed the capacity for performing dual functions, e.g., peroxidase and molecular chaperone functions, in a protein concentration-dependent manner. Increasing concentrations of PaAhpC significantly reduced H2O2 content, complete degradation of H2O2 by 20 μM PaAhpC within 10 min (Fig. 2A), demonstrating the peroxidase activity of PaAhpC. Moreover, PaAhpC also exhibited chaperone activity, which was measured by monitoring the ability of the protein to suppress thermal aggregation of malate dehydrogenase (MDH) at 43°C. The aggregation of MDH was effectively inhibited at a 1:20 molar ratio of MDH to PaAhpC (Fig. 2B). The chaperone activity of PaAhpC was ∼2-fold lower than compared to that of PaPrx (An et al., 2010).
Purification of wild-type PaAhpC (WT-PaAhpC) and two mutants (S78C-PaAhpC and T105C-PaAhpC) generated single major band (24 kDa) in reducing sodium dodecyl sulfate (SDS)-polyacrylamide gel electrophoresis (PAGE), indicating the high degree of purity obtained under reducing condition (Fig. 3A). In non-reducing SDS-PAGE, WT-PaAhpC formed a single major band of approximately 48 kDa, supporting the presence of a dimeric structure similar to that observed for other 2-CysPrx proteins (Chuang et al., 2006; Hall et al., 2009; Jang et al., 2004; K?nig et al., 2013; Parsonage et al., 2005; Wood et al., 2002; 2003). In contrast, S78C-PaAhpC produced several high-molecular-weight (HMW) bands corresponding to an HMW structure, whereas T105C-PaAhpC showed a slightly lower band than WT-PaAhpC under non-reducing conditions (Fig. 3B). In native PAGE analysis, WT-PaAhpC and T105C-PaAhpC showed similar sizes, and S78C-PaAhpC generated relatively HMW bands compared with that of other proteins (Fig. 3C). The occurrence of HMW bands of S78C-PaAhpC in native gels was further supported by the results of size-exclusion chromatography (SEC; Fig. 3D). WT-PaAhpC and T105C-PaAhpC generated a single peak corresponding to the decameric form in SEC, whereas S78C-PaAhpC generated three peaks, including a prominent HMW peak, the decameric form, and the dimeric form in SEC (Fig. 3D).
Next, the relative peroxidase and chaperone activities of the two mutants were compared with that of WT-PaAhpC (Fig. 3E). S78C-PaAhpC and T105C-PaAhpC showed approximately 30.0% and 15.0% lower peroxidase activity than WT-PaAhpC. However, S78C-PaAhpC exhibited approximately 9-fold higher chaperone activity than WT-PaAhpC. In contrast, the chaperone activity of T105C-PaAhpC was almost equal to that of WT-PaAhpC (Fig. 3E).
We evaluated the effects of the S78C and T105C substitutions on the secondary structure of the protein using UV-circular dichroism (CD) spectra analysis. The α-helix content was decreased from 42.0% to 30.0%, β-sheet content was increased from 26.0% to 38.0%, and random coil and turn contents remained almost unchanged in S78C-PaAhpC compared with those in WT-PaAhpC (Fig. 4A). In T105C-PaAhpC, β-sheet content was increased by about 10% compared with that of WT-PaAhpC. Previous report has suggested that chaperones bind to the non-native forms of protein substrates through hydrophobic interactions to protect target substrates from stress-induced aggregation (Mayer and Bukau, 2005). Indeed, the fluorescence intensity of bis-ANS was significantly higher for S78C-PaAhpC than for WT-PaAhpC and T105C-PaAhpC (Fig. 4B), suggesting that the S78C substitution greatly increased the exposure of hydrophobic domains, leading to polymerization of the protein into HMW complexes and providing binding sites for partially denatured substrate proteins during chaperone assays.
A homology model of PaAhpC was generated from AhpC of
We then calculated the distances between residues at position 78 located in different monomers for WT and S78C mutant systems. For the 10 different conformations generated from standard dynamics cascade simulation, the average distances of residues at position 78 were measured for five different interface regions, and the differences in distances between WT and S78C systems were then calculated (Fig. 6C). For all conformations, the average distance for the S78C-PaAhpC mutant was closer than that for WT-PaAhpC, suggesting that mutation of Ser78 to Cys created a more compact decameric structure or long filaments of stacked 2Cys-Prx rings. The increased compactness may be associated with the higher chaperone activity observed in the S78C mutant system.
The physiological function of mutant PaAhpC proteins against oxidative and heat stress was examined through the complementation assay in Δ
In this study, we aimed to determine the role of protein structure and amino acid sequence in mediating the dual functions of PaAhpC. Our results provided important insights into the functional switching of PaAhpC between its peroxidase and chaperone functions and the capacity for the mutant proteins to support the bacterial cell to cope up with abiotic stresses.
Display of dual functions, e.g., peroxidase and chaperone functions, is a common feature of 2-Cys Prx proteins and has been reported in various organisms (Jang et al., 2004; K?nig et al., 2013), including bacteria (An et al., 2010; 2011; Chuang et al., 2006). WT-PaAhpC exhibits AhpF-dependent peroxidase activity that depends directly on the protein concentration. The peroxidase activity of PaAhpC may be a reflection of the well-organized defense system of
The molecular chaperone activity of WT-PaAhpC was lower than that of other 2-Cys Prx proteins of other organisms. AhpC protein is originally a peroxidase by nature and it may shift to chaperone depending on the conditions. Therefore, lower molecular chaperone activity of WT-PaAhpC is quite understandable. Further, bacterial cells possess many other chaperones (Chuang et al., 2006), therefore display of chaperone function of a peroxidase protein seems unlikely unless required or triggered by conditions. Therefore, substitution of Ser78 with Cys greatly enhanced the chaperone activity of PaAhpC in the present study. Previous studies have also reported the enhanced chaperone activity of 2-Cys Prx proteins after site-specific mutagenesis (An et al., 2010; K?nig et al., 2013). The improved chaperone activity of S78C-PaAhpC may be coupled with its increased β-sheet content and hydrophobicity, as shown in our current study. Changes in the secondary structure from α-helices to β-sheets and increased hydrophobicity have already been shown to be associated with enhanced chaperone activity in 2-Cys Prx proteins (Angelucci et al., 2013; Saccoccia et al., 2012). Additionally, native PAGE and SEC analyses also showed that the HMW structure was more common in the S78C-PaAhpC mutant than in WT-PaAhpC. The HMW fraction from SEC corresponded to low peroxidase activity and high chaperone activity. Consistent with this, Chuang et al. (2006) demonstrated structural/functional switching of HpAhpC from the LMW structure, with higher peroxidase function, to the HMW structure, with stronger molecular chaperone function, in
Homology modeling of WT-PaAhpC and mutated PaAhpC also explained the enhanced molecular chaperone activity of S78C-PaAhpC. The distance (O-O distance in WT-PaAhpC and S-S distance in S78C-PaAhpC) between the two Cys78 residues in neighboring dimers of the decameric structure was decreased in S78C-PaAhpC compared with that between the two Ser78 residues in WT-PaAhpC. The reduced molecular distances between the two neighboring dimers further favored strong interaction at the dimer-dimer interface, thereby leading to conversion of the LMW structure to the HMW structure with higher chaperone activity in S78C-PaAhpC. An earlier study on human PrxI also found that Cys83, which was present between the two conserved reactive cysteines, localized at the dimer-dimer interface and affected the balance between the LMW and HMW structures (Park et al., 2011). Similarly, in the case of
Heat stress causes inactivation of cellular protein molecules, followed by proteolytic degradation. Thus, augmentation of the molecular chaperone function of AhpC may provide a survival advantage in organisms subjected to heat stress. Furthermore, PaAhpC-complemented Δ
In this study, we demonstrated that PaAhpC exhibited dual functionalities as a peroxidase and a molecular chaperone. However, as a member of the 2-Cys Prx family of proteins and due to its intrinsic antioxidant properties, WT-PaAhpC preferred to act as a peroxidase rather than a molecular chaperone. Condition-dependent conformational changes from a LMW structure to HMW structures triggered the shift in PaAhpC function from a peroxidase to a chaperone. Furthermore, the ability of PaAhpC to perform chaperone activity was greatly improved by substituting Cys for Ser at position 78 (S78C-PaAhpC), located between the two conserved catalytic cysteines, using site-directed mutagenesis. S78C-PaAhpC, which exhibited enhanced chaperone activity, had markedly increased heat tolerance. Thus, our results indicated that the addition of a Cys residue at position 78 in PaAhpC modulated the functional shifting of this protein from a peroxidase to a chaperone. This feature may be exploited in the further development of heat-tolerant bacteria for industrial applications. Additional studies are required to further elucidate the mechanisms modulating the dual functions of PaAhpC and other 2-Cys Prx proteins to improve our understanding of the functional shifting from a peroxidase to a chaperone and enhancement of abiotic stress tolerance.
Michel B. Toledano, and Bo Huang
Mol. Cells 2016; 39(1): 31-39 https://doi.org/10.14348/molcells.2016.2326Hui Du, Sunghan Kim, Yoon-Sun Hur, Myung-Sok Lee, Suk-Ha Lee, and Choong-Ill Cheon
Mol. Cells 2015; 38(2): 187-194 https://doi.org/10.14348/molcells.2015.2255Sun Young Kim, Young Jun Jung, Mi Rim Shin, Jung Hoon Park, Ganesh M. Nawkar, Punyakishore Maibam, Eun Seon Lee, Kang-San Kim, Seol Ki Paeng, Woe Yeon Kim, Kyun Oh Lee, Dae-Jin Yun, Chang Ho Kang*, and Sang Yeol Lee*
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