Characterization of αX I-Domain Binding to Receptors for Advanced Glycation End Products (RAGE)
Dolgorsuren Buyannemekh, and Sang-Uk Nham
Abstract
The β2 integrins are cell surface transmembrane proteins regulating leukocyte functions,
such as adhesion and migration. Two members of β2 integrin, αMβ2 and αXβ2, share the
leukocyte distribution profile and integrin αXβ2 is involved in antigen presentation
in dendritic cells and transendothelial migration of monocytes and macrophages to
atherosclerotic lesions.
INTRODUCTION
The β2 integrins are cell surface transmembrane proteins regulating leukocyte functions,
such as adhesion, spreading, migration, and phagocytosis (Hynes, 2002; Tan, 2012). These proteins consist of a common β2 subunit and four specific α subunits: αL,
αM, αX, and αD (Arnaout, 2002). The binding of β2 integrins to their ligands is mostly mediated through a distinct
motif of the α subunits, namely, the I-domain, which contains a
Although RAGE and αXβ2 play an important role in inflammatory response and the pathogenesis of atherosclerosis, the nature of their interaction and structure involved in the binding remain less defined. Therefore, in this study, we attempted to characterize the binding nature and important moieties of the molecules mediating their interaction. We now report that the main mechanism of αX I-domain binding to RAGE is a charge interaction with a moderate binding affinity and that the acidic moieties of αX I-domains are involved in the recognition of the basic residues on the V-domain of RAGE.
MARERIALS AND METHODS
Production of Glutathione S-transferase (GST) fusion proteins
The E.coli strain BL21 was the host strain for all pGEX vector derived plasmids expressing GST-αM I, GST-αX I, and GST-αX I-domain mutants. The expression and purification of GST-αX I-domain and GST-αX I-domain mutants have been previously described elsewhere (Choi et al., 2010). GST-αM I-domain was expressed by E. coli host bearing an expression plasmid pEXCD11b, which was constructed by the insertion of a cDNA fragment encoding human αM I-domain (a.a. 112–318) at the Bam HI site of pGEX4T1 (GE Healthcare, USA).
Production of recombinant RAGE proteins
Recombinant RAGE fused with the human IgG Fc region produced from mammalian cells
was purchased from R&D Systems (USA). This protein, containing the ecto domain of
RAGE, was immobilized on a CM5 chip for the
For other fragments of RAGE, a full length ecto domain (V, C1, and C2), V-domain, and C-domain (C1 and C2) of RAGE were expressed and purified from Pichia pastoris as His-tagged proteins. A fragment of cDNA encoding a full length RAGE ecto domain (a.a. 26–341) was ligated into a Pichia expression vector, pPICαA (Invitrogen, USA) for the soluble RAGE expression. For the soluble RAGE V and C-domain production, cDNAs encoding the V-domain (a.a. 26–122) and C-domain (a.a. 124–341) were inserted into pPICαA. The resultant expression plasmids were introduced into Pichia pastoris cells via electroporation at 1.5 kV, 25 μF, and 200 ohms. The induction and purification of sRAGE and sRAGE domains were performed according to a previous report (Higgins, 1995).
For bacterial expression of alanine substituted mutants of the RAGE V-domain, cDNA encoding RAGE V-domain was subjected to site-directed mutagenesis as previously described (Choi et al. 2005). Then, the cDNAs encoding the RAGE V-domain mutants were inserted into a bacterial expression vector, pET21a (EMD Millipore, USA), and introduced into E.coli strain BL21 (DE3). All expression vectors contained an ancillary nucleotide sequence encoding 43 amino acids, including hexa-histidine tag, and were verified by DNA sequencing. The induction and purification of the RAGE V-domain and its mutants were performed according to the previously reported manual (Sambrook and Russell, 2001).
Enzyme-linked immunosorbent assay (ELISA)-based binding assay
Ligand proteins at the concentration of 10.0 μg/ml in PBS (10 mM phosphate buffer, 150 mM NaCl, pH 7.4) were added to each well in microtiter plates (Immulon, USA) and incubated overnight at 4°C. The plates were washed with PBS and blocked for 2 h with a blocking buffer (PBS with 5% bovine serum albumin). The microtiter plates were then loaded with analyte proteins (usually 100 μl) in a binding medium (50 mM Tris/HCl, pH 7.4, 150 mM NaCl, 5% bovine serum albumin, 1 mM MgCl2) and incubated for 1 hour. The plates were washed with PBS and 0.1% Triton X100 and further incubated for 1 hour with anti-GST antibody (1/2000 dilution, BD Pharmingen, USA) or Ni-NTA conjugated with alkaline phosphatase (1/2000 dilution, HisDetector Nickel-AP, KPL, USA) to detect the GST fusion protein or His-tagged protein, respectively. Following the washing step, anti-mouse IgG conjugated with alkaline phosphatase was loaded and incubated for 1 hour. Alkaline phosphatase substrate, Bluephos™ (KPL, USA), was loaded after washing. The color intensity of each well was measured by absorbance readings at 595 nm (Biorad microplate reader 550, USA).
Characterization of binding by the surface plasmon resonance (SPR) analysis
The SPR experiments were performed on a Biacore X (GE Healthcare). Recombinant RAGE fused with human IgG Fc or GST-αX I-domain was covalently immobilized on the respective carboxy-methyl dextran chip (CM5) via primary amino groups, according to the manufacturer’s instructions. For each chip, an activated and blocked flow channel was used as a reference to correct for bulk effects and nonspecific binding. The analytes were diluted in a running buffer (150 mM NaCl, 10 mM HEPES, pH 7.4, 1 mM 1 mM MgCl2). Bound proteins were removed with a regeneration buffer (300 mM NaCl, 20 mM EDTA, 20 mM Tris/HCl, pH 8.0). For the kinetic analysis, the analytes were injected for 120 s for association; thereafter, dissociation data were collected for 120 s, all at the speed of 30 μl/min. For the simple binding test, the analytes were injected for 90 s for association; then, dissociation data were collected for 90 s, all at the speed of 20 μl/min. Binding curves were obtained by subtracting bulk change and nonspecific binding. Binding kinetics were analyzed by BIAevaluation 3.0 software. Dissociation constant (KD), association rate constant (ka), and dissociation rate constant (kd) were calculated by curve fitting of association and dissociation phases by using the 1:1 Langmuir binding model.
RESULTS
To characterize the nature of αXβ2 binding to RAGE, the binding kinetics of the interaction should be determined. In this study, we employed αX I-domain for measuring the binding affinity as a ligand binding motif of αXβ2 and αM I-domain for comparing the binding properties of αX I-domain to RAGE. The dissociation constant (KD) and other kinetic values were measured from the three independent SPR experiments and subsequent analysis. As shown in one of the SPR sensorgrams (Figs. 1A and 2B), all binding curves (solid lines) generally fitted well to the 1:1 Langmuir binding model (dotted lines), showing a good fit in the region of kinetic analysis for association and dissociation rate constants. From the kinetic analysis, the dissociation constants of αX and αM I-domain binding to RAGE were calculated to be 0.49 and 0.23 μM, respectively. This result indicates that the affinity of αX I-domain is a sub-micro molar level and is lower than that of αM I-domain approximately a half of that for αM I-domain. The lower binding affinity of αX I-domain is attributed by approximately one fourth of the αM I-domain association rate constant (ka) value and a half of the αM I-domain dissociation rate constant (kd) value. This suggests that αX I-domain associates RAGE four times slower than αM I-domain and dissociates from RAGE two times slower than αM I-domain. The kinetics data of αM I-domain binding we observe are largely consistent with the results of a previous study where the dissociation constant of purified αMβ2 to soluble RAGE was assessed to be approximately 0.2 μM in an ELISA-based binding assay (Chavakis et al., 2003).
The binding of αX I-domain to RAGE was specific and required divalent cations, such as Mn2+ and Mg2+, but not Ca2+ (Fig. 1C). In addition, the effect of Mn2+ ion for RAGE binding in αX I-domain is higher than Mg2+. These results are also consistent with the data of many other integrin I-domains that bind divalent cations for ligand recognition.
RAGE consists of three immunoglobulin-like domains (V, C1, and C2) and cytoplasmic tails linked to the transmembrane region (Sims et al., 2010). In order to establish the binding domain of RAGE for β2 integrin, the soluble RAGE, V, and C type domains were expressed with His-tag sequences and purified from Pichia Pastoris to homogeneity (Figs. 2A and 2B). Soluble RAGE and other domains were injected to flow over I-domain immobilized CM5 chips for comparison of their binding patterns to I-domains. As shown in the SPR sensorgram (Fig. 2C), sRAGE and sRAGEV bind well with immobilized αX I-domain, whereas sRAGEC1/2 does not, suggesting that the V domain of RAGE is responsible for αXβ2 integrin binding. This finding is also supported by the results of the ELISA-based binding analysis: immobilized αX I-domain associates with sRAGEV well, but not with sRAGEC1/2 (Fig. 2D) and immobilized sRAGE and sRAGEV bind well to the αX and αM I-domains but not to GST (Figs. 2E and 2F). In line with our previous kinetic data, the binding levels of αM I-domain to sRAGE and sRAGEV are higher than those to αX I-domain.
To further understand the binding nature of RAGE and αX I-domains, we tested sRAGE and sRAGEV binding to αX I-domain mutants (K242A/K243A, E244A, D249M, K251A, and E298S/D299T) which are alanine or non-charged amino acid substitutions of selected basic, or acidic amino acid residues near a groove traversing ligand binding surface (Fig. 3A). In earlier studies, these mutant I-domains proved to be useful in terms of identifying the nature of the interaction of I-domain and its ligands (Choi et al., 2005; Lee et al., 2007). In Figs. 3B and 3C, the substitutions of negatively charged amino acids (E244A, D259M, and E298S/D299T) lower the binding strengths of αX I-domain to sRAGE and sRAGEV. By contrast, alanine substitutions of positively charged residues (K242A/K243A and K251A) raise the αX I-domain binding activity. These results suggest a charge interaction between RAGE and αX I-domain, in which the acidic residues of αX I-domain surface are responsible for recognizing amino acid residues on the V-domain of RAGE.
To further investigate the role of acidic residues of αX I-domain, selected mutants of the I-domain (K242A/K243A, E244A, and D249M) were subjected to the SPR experiments for the binding kinetic analysis. As shown in Table 1, the measured dissociation constants (KD) of αX I-domain mutants (E244A and D249M) for RAGE are higher than that of wild type, whereas KD of K242A/K243A is lower, indicating the critical importance of acidic residues of I-domain in the recognition of RAGE. Notably, the high KD values of E244A and D249M are mainly attributed by approximately a half of the wild type αX I-domain association rate constant (ka) value, suggesting that these mutant I-domains bind to RAGE slower than in the case of the binding of wild type I-domain. On the other hand, K242A/K243A shows the same level of ka value as wild type αX I-domain, but approximately 2/3 of the wild type αX I-domain dissociation rate constant (kd) value, suggesting that K242A/K243A dissociates slower from RAGE than wild type. These results provide convincing evidence on the critical importance of acidic residues of αX I-domain for the recognition of RAGE in the mechanism of electrostatic interaction during the association phase, as well as a secondary role of basic residues to modulate the interaction during the dissociation phase.
Unlike other domains of RAGE, the V-domain of RAGE is highly basic. An electropotential surface map of RAGE domain (Fig. 4A) shows a front flat face and an opposite convex face, as well as a positively charged region which runs across a front face and wraps around the opposite face of the domain. Several positive residues of this positive region were shown to play a critical role to recognize RAGE ligands, such as AGEs and S100B (Koch et al., 2010; Matsumoto et al., 2008). To delineate the critical residues for I-domain binding, we performed alanine substitutions of several positively charged amino acids in the positive region of the V-domain (K37, K39, K43, K44, and R104), as well as K107 that locates at the edge of the basic area. These mutants and wild type V-domains were expressed as N terminus His-tag fusion form in E.coli and purified to homogeneity for testing their binding activities.
As shown in Fig. 4B, the alanine substitutions of all positive residues substantially reduce the binding activity of the V-domain to αX I-domain. All mutations, except for K37A, also decrease the binding strength of RAGE to αM I-domain (Fig. 4C). These results indicate that positively charged residues, including K39, K43, K44, R104, and K107, are involved in the recognition of the αM and αX I-domain. Taken together, these results allow us to conclude that there is a charge interaction as a mechanism of RAGE and αX I-domain binding.
DISCUSSION
Our results demonstrate that αX I-domain binds to RAGE with an affinity on the sub-micro molar level (KD = 0.49 μM) in a divalent cation-dependent manner. Furthermore, αX I-domain recognizes the V-domain, but not the C1 and C2-domains of RAGE. The main mechanism of αX I-domain binding to RAGE is a charge interaction, in which the acidic moieties of αX I-domains, including E244 and D249, recognize the basic residues on the RAGE V-domain encompassing K39, K43, K44, R104, and K107.
A molecular surface representation of the αX I-domain shows a unique feature of the αX I-domain: there is a groove traversing ligand binding surface at the “top” of the domain (Fig. 3A). This groove is surrounded by the acidic residues E244, D249, E298, and D299, and is interrupted by basic residues K242 and K243. Although there is a high level of homology between αM and αX I-domains, αM I-domain possesses more acidic residues than αX I-domain in a groove spanning ligand binding surface. There are two substitutions of acidic residues in αM (E244 and E253) for basic residues in αX (K242 and K251) near the groove. Moreover, the groove on αM I-domain is not interrupted by positively charged amino acids, such as K242 and K243, as in the case of αX I-domain. In addition, K245 in αM, which is equivalent to K243 of αX, is buried inside of the molecule to form hydrogen bonds to other residues of surrounding α helixes nearby the groove. These molecular characteristics may contribute αM I-domain to have a higher affinity for RAGE than αX I-domain.
The alanine substitutions of several positive residues reduced the binding activity of the V-domain to both αM and αX I-domains (Figs. 4B and 4C). Notably, the mutations of the V-domain (K37A, K39A, K43A/K44A, R104A, and K107A) have less effect on αM I-domain binding than on αX I-domain. This difference can be explained by the different molecular characteristics of the I-domains: αM I-domain has more acidic residues on its ligand binding surface and a higher affinity for the V-domain than αX I-domain. When a particular positive amino acid is replaced by alanine in the V-domain, one charge interaction previously formed by the positive residue gets lost between αM I-domain and the alanine substituted V-domain. But other charge interactions between the two molecules still remain, therefore, αM I-domain binding to the V-domain is not substantially decreased. Contrary to this, αX I-domain binding to the mutant V-domain is significantly reduced. Because αX I-domain has less acidic moieties on its ligand binding surface than αM I-domain, the sum of remaining charge interactions of αX I-domain with the V-domain is weaker than that of αM I-domain. The different surface charges and affinities for the V-domain might be the reason for the different effects of the alanine substitutions of the V-domain on the binding of the I-domains.
In previous research, integrin αXβ2 was shown to recognize the acidic residues of
decayed proteins by denaturation or cleaved proteins by proteolytic enzymes (Vorup-Jensen et al., 2005). It was reported that αX I-domain binds the acidic residues of ligands, such as
fragment E, Thy-1, plasminogen, and ICAM-1, by employing the positively charged amino
acids (K242 and K243) on the ligand binding surface of the I-domain (Choi et al., 2005; 2010; Gang et al., 2007; Lee et al, 2007). However, the mechanism of αX I-domain binding to RAGE appears to be different from
the other ligands. Whereas the acidic residues of αX I-domain play a critical role
by forming salt bridges with complementary ionic pairs in the V-domain of RAGE, the
basic residues of αX I-domain are involved in a secondary and modulatory role. Although
there is a limited area on a
While all three domains of RAGE can serve as binding sites for various ligands, most of ligands recognize the V-domain of RAGE (Kierdorf and Fritz, 2013). As exceptional cases, S100A6 interacts with C1 and C2 RAGE domains and amyloid-β aggregates bind to the C1-domain (Leclerc et al., 2007; Sturchler et al., 2008). The present study revealed that, as most of RAGE ligands, β2 integrin, αMβ2 and αXβ2, also interact with the V-domain of RAGE.
There are many positively charged amino acids on the surface of the V-domain of RAGE (Fig. 4A). Among these amino acids, residues K43, K44, R48, K52, R98, and R104 play a critical role to bind BSA conjugated AGE, and residue R48, R98, and R104 for S100B recognition (Koch et al., 2010; Matsumoto et al., 2008). Our results demonstrate several basic residues (K39, K43, K44, R104, and R107) in the V-domain of RAGE as crucial amino acids for αMβ2 and αXβ2. It should be noted that these amino acid sequences, but not K37, are evolutionary conserved in mammals from mouse to human, indicating the significant role of the charged amino acids on the function of RAGE. This result also suggests that αMβ2 and αXβ2 may share the same binding site of the V-domain with AGEs and S100B in an overlapping, but not identical manner.
Although the binding mechanism of β2 integrin to RAGE is generally similar to other RAGE ligands, one feature is quite different: whereas most RAGE ligands have a tendency to form oligomers, β2 integrin does not. The AGE modification of proteins causes a multiple covalent cross-links, leading to higher molecular mass molecules. Furthermore, S100B and several S100A proteins to form larger assembles, ranging from tetramers to octamers (Korndorfer et al., 2007; Zieman and Kass, 2004). The oligomerization of these RAGE ligands appears to increase of binding strengths for RAGE, resulting in an enhancement of signals which lead to inflammation and atherosclerosis. As cell surface proteins which cannot form oligomers, β2 integrins have different mechanisms to modulate their binding abilities for RAGE.
There are two mechanisms for regulating the strength of integrin binding to their ligands: (1) affinity modulation by a conformational change of integrin and (2) avidity modulation by varying the degree of integrin clustering (Luo et al., 2007). The I-domains used in this study are activated forms by a small truncation from the α7 helix of the I-domains, being considered to have a high affinity conformation (Xiong et al., 2000). The data in this report indicate that the binding affinity of αX I-domain for RAGE (0.49 μM) is lower than that of αM I-domain (0.23 μM). Considering that the expression level of αXβ2 on leukocytes is not as high as αMβ2, it is conceivable that αXβ2 does not make a considerable contribution to leukocyte adhesion and transmigration.
However, several reports have provided some evidence demonstrating the significance of αXβ2 interaction with RAGE during monocyte adhesion, especially at the early onset of atherosclerosis. A critical step in the initial stage of atherosclerosis is the recruitment of inflammatory monocytes and their differentiation into foamy macrophages in nascent plaque. By using CD11c−/− mice (αXβ2 deficient mice), Wu et al. showed that αXβ2 expression is elevated on blood monocytes during hypercholesterolemia and αXβ2 is involved in the formation of atherosclerotic lesions (Wu et al., 2009). Furthermore, Foster et al. revealed that a high level of lipoproteins in the blood causes both affinity and avidity upregulation of αXβ2 in a subset of monocytes, resulting in a firm monocyte adhesion onto inflamed endothelium (Foster et al., 2015).
In this study, the binding affinity of αX I-domain for RAGE (0.49 μM) appears to be higher than those for other αXβ2 ligands expressed on activated endothelial cell surface such as Thy-1 (1.16 μM) and ICAM-1 (0.73 μM) as shown in previous reports (Choi et al., 2005; 2010). This relative high affinity of αXβ2 for RAGE further emphasizes the significance of interaction between αXβ2 and RAGE. Therefore, further analysis of the interaction between αXβ2 and RAGE may provide useful insights for future biomedical studies aiming to develop potential therapeutics for atherosclerosis.
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