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The Journal of Immunology, 2000, 165: 3232-3238.
Copyright © 00 by The American Association of Immunologists

ß57-Asp Plays an Essential Role in the Unique SDS Stability of HLA-DQA1*0102/DQB1*0602 {alpha}ß Protein Dimer, the Class II MHC Allele Associated with Protection from Insulin-Dependent Diabetes Mellitus1

Ruth A. Ettinger2,*,{dagger}, Andrew W. Liu*, Gerald T. Nepom*,{dagger} and William W. Kwok*

* Virginia Mason Research Center and {dagger} Department of Immunology, University of Washington School of Medicine, Seattle, WA 98101


    Abstract
 Top
 Abstract
 Introduction
 Materials and Methods
 Results
 Discussion
 References
 
Studies of the stability of HLA-DQ have revealed a correlation between SDS stability of MHC class II {alpha}ß dimers and insulin-dependent diabetes mellitus (IDDM) susceptibility. The MHC class II {alpha}ß dimer encoded by HLA-DQA1*0102/DQB1*0602 (DQ0602), which is a dominant protective allele in IDDM, exhibits the greatest SDS stability among HLA-DQ molecules in EBV-transformed B-lymphoblastoid cells and PBLs. DQ0602 is also uniquely SDS stable in the HLA-DM-deficient cell line, BLS-1. We addressed the molecular mechanism of the stability of DQ0602 in BLS-1. A panel of mutants based on the polymorphic differences between HLA-DQA1*0102/DQB1*0602 and HLA-DQA1*0102/DQB1*0604 were generated and expressed in BLS-1. An Asp at ß57 was found to be critical for SDS stability, whereas Tyr at ß30, Gly at ß70, and Ala at ß86 played secondary roles. Furthermore, the level of class II-associated invariant chain peptide bound to HLA-DQ did not correlate with SDS stability, suggesting that class II-associated invariant chain peptide does not play a direct role in the unique SDS stability of DQ0602. These results support a role for DQB1 codon 57 in HLA-DQ {alpha}ß dimer stability and IDDM susceptibility.


    Introduction
 Top
 Abstract
 Introduction
 Materials and Methods
 Results
 Discussion
 References
 
HLA on chromosome 6p21 is the genetic factor with the strongest association to insulin-dependent diabetes mellitus (IDDM)3 (1). Within the HLA gene complex, the polymorphic MHC class II gene HLA-DQ is most tightly linked to IDDM (2). A hierarchy of genetic associations among HLA-DQ alleles has been suggested in which HLA-DQA1*0301/DQB1*0302 is the predominant HLA class II allele associated with susceptibility in IDDM and HLA-DQA1*0102/DQB1*0602 is the predominant HLA class II allele associated with protection, even in individuals that carry HLA-DQA1*0301/DQB1*0302 (3, 4). Other HLA-DQ genotypes such as HLA-DQA1*0301/DQB1*0301 and HLA-DQA1*0102/DQB1*0604 are not associated with IDDM, even though they are structurally very similar to the susceptible allele, HLA-DQA1*0301/DQB1*0302, and the protective allele, HLA-DQA1*0102/DQB1*0602, respectively.

A correlation between SDS stability of HLA-DQ {alpha}ß protein dimers and IDDM susceptibility has been observed, such that the most SDS-stable molecules are encoded by IDDM-protective alleles and the least SDS-stable molecules are encoded by IDDM-susceptible alleles (5). A similar observation was made for the mouse I-A {alpha}ß protein dimers such that the I-A molecule in the nonobese diabetic mouse is least SDS-stable compared with other I-A molecules (6). These observations suggest the hypothesis that the stability of the {alpha}ß protein dimer encoded by HLA-DQ and its mouse homolog I-A plays a molecular role in dictating IDDM susceptibility.

MHC class II {alpha}ß dimer stability is dependent on loss of invariant chain and binding of antigenic peptides. This process is dependent on HLA-DM such that in HLA-DM-deficient cells, the SDS-resistant property of various HLA-DR, -DQ, and -DP molecules is generally lost (5, 7, 8, 9). Peptides eluted from DR3 on HLA-DM-deficient cells are predominantly derived from invariant chain (10, 11). These peptides are called class II-associated invariant chain peptides (CLIPs). The SDS stability of the MHC class II {alpha}ß dimers in HLA-DM-deficient cells can be induced by the addition of antigenic peptides (10, 12). In assays with purified proteins, HLA-DM has been shown to replace CLIP with peptides that have slower intrinsic rates of dissociation to HLA-DR (13, 14, 15).

Recently, we reported that the HLA-DQA1*0102/DQB1*0602 {alpha}ß protein dimer (DQ0602) is SDS stable in the HLA-DM-deficient cell line, BLS-1, whereas all other HLA-DQ and HLA-DR molecules examined, including the structurally similar HLA-DQA1*0102/DQB1*0604 {alpha}ß protein dimer (DQ0604) (5), were not SDS stable. We now address the molecular mechanism of the unique SDS stability of DQ0602 in BLS-1 by generating a panel of mutants based on the polymorphic differences between DQ0602 and DQ0604. The polymorphic residues essential for the SDS stability of DQ0602 are determined, and the role of CLIP in the SDS stability of DQ0602 is examined. We find that an Asp at ß57 plays a primary role in the SDS stability of DQ0602.


    Materials and Methods
 Top
 Abstract
 Introduction
 Materials and Methods
 Results
 Discussion
 References
 
DQB1 mutant constructs

The DQB1*0604 cDNA (a gift from Carolyn Hurley, Georgetown University Medical Center, Washington, DC) was cloned into the intermediate PCR cloning vector pCRII (Invitrogen, San Diego, CA). Double-stranded site-directed mutagenesis was performed according to the method of Deng and Nickoloff (16) using a transformer site-directed mutagenesis kit (Clontech, Palo Alto, CA). Primers were synthesized to make DQB1*0602-like changes to codons in DQB1*0604 at codons 30, 57, 70, and 86 (Table IGo). Primers were designed to account for all 15 possible combinations of the amino acids at codons 30, 57, 70, and 86. Generation of the desired mutations was determined by sequencing with an ABI Prism dye terminator cycle sequencing kit (Perkin-Elmer, Foster City, CA). The mutant clones were subcloned into the pLNCX retroviral vector (Clontech). Two additional swap mutants were generated by using two ScaI sites in the pLNCX-DQB1*0604 and pLNCX-DQB1*0602 constructs. ScaI cuts between codons 59 and 60 of the mature protein and within the pLNCX vector generating a 3.1- and 3.9-kb fragment. These fragments were swapped to generate DQB1*0602 (codons 1–59)/DQB1*0604 (codons 60–230) and DQB1*0604 (codons 1–59)/DQB1*0602 (codons 60–230).


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Table I. Amino acids that differ between DQ0602 and DQ06041

 
Cells

BLS-1 was a gift from Janet Lee (Memorial Sloan Kettering Cancer Center, New York, NY) (18). BLS-1 is a HLA class II-null EBV-transformed B-lymphoblastoid cell line generated from the cells of a patient with bare lymphocyte syndrome (BLS), complementation group B (18, 19). BLS-1 cell lines expressing DQA1*0102/DQB1*0602, DQA1*0102/DQB1*0604, the 15 DQA1*0102/DQB1*0604 site-directed mutants, and the two swap mutants (Table IIGo) were generated by retroviral-mediated gene transfer as previously described (5). The presence of the desired DQB1 sequence in each cell line was confirmed by sequencing. Briefly, genomic DNA was extracted (Isoquick Kit; Microprobe, Bothell, WA), and DQB1 was PCR amplified using primers that amplified the region from the start of the 5' signal sequence to the stop codon in the presence of TaqStart Ab (Clontech). The PCR product was sequenced using ABI Prism dye terminator cycle sequencing. Stable surface expression of HLA-DQ was confirmed by flow cytometric analysis with anti-HLA-DQ mAbs. Cells were grown in IMDM with L-glutamine and 25 mM HEPES buffer (Life Technologies, Gaithersburg, MD) supplemented with 10% FBS, 1 mM sodium pyruvate, 50 U/ml penicillin, and 50 µg/ml streptomycin.


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Table II. Listing of BLS-1 DQ0604 mutant cell lines

 
Antibodies

GS200.1 hybridoma cells were provided by Susan Radka (NexStar Pharmaceutical, Boulder, CO). GS200.1 mAb (IgG2a) is an HLA-DQ dimer-specific Ab (20). SPVL3 hybridoma cells were obtained from DNAX Research Institute of Molecular and Cellular Biology (Palo Alto, CA). SPVL3 mAb (IgG2a) recognizes a monomorphic epitope specific to HLA-DQ dimers (21). Purified 1a3 mAb (IgG2a) was purchased from BioDesign International (Kennebunk, ME). 1a3 mAb recognizes monomorphic epitopes on HLA-DQ dimers (22). L243 hybridoma cells were purchased from American Type Culture Collection (Manassas, VA). L243 mAb (IgG2a) recognizes a monomorphic epitope on HLA-DR dimers (23) and was used as an isotype control Ab for analysis of HLA-DQ with GS200.1, SPVL3, and 1a3 on BLS-1 cells (HLA-DR-negative). Purified CerCLIP (IgG1) was purchased from PharMingen (San Diego, CA). CerCLIP reacts with CLIP bound to HLA class II molecules (24).

Flow cytometric analysis

BLS-1 HLA-DQ cell lines (0.5 x 106 cells) were washed with 1% FBS in PBS (staining buffer), resuspended in 30 µl of L243, SPVL3, 1a3, GS200.1, or CerCLIP at a concentration of 10 µg/ml in staining buffer, and incubated on ice for 45 min. Cells were washed with staining buffer, resuspended in 15 µl of 10 µg/ml fluorescein FITC goat anti-mouse IgG, F(ab')2 (Jackson ImmunoResearch, West Grove, PA), and incubated on ice for 45 min. The cells were washed with staining buffer and resuspended in 500 µl of staining buffer for analysis on a Becton Dickinson FACSort using CellQuest Software (San Jose, CA).

SDS stability assay

Cell lysates were prepared from BLS-1 HLA-DQ cell lines (1 x 106 cells). Briefly, cells were washed in PBS, resuspended in 50 µl cell lysis buffer (50 mM Tris-HCl, pH 7.5, 0.15 M NaCl, 5 mM EDTA, 1% Nonidet P-40, 1 mM PMSF, 1 µg/ml pepstatin A, 1 µg/ml leupeptin), incubated on ice for 30 min with vortexing, and microfuged at 14,000 rpm for 10 min, then supernatants were collected. Supernatants (20 µg protein) were diluted 1:1 in 2x sample buffer with 0.4% SDS (0.125 M Tris-HCl, pH 6.8, 20% glycerol, 0.4% SDS, 0.005% bromophenol blue) and incubated at room temperature for 30 min. Samples were loaded on a 4–20% Tris-glycine gel (Novex, San Diego, CA), electrophoresed in running gel buffer (25 mM Tris, 190 mM glycine, 0.1% SDS), and transferred to Immobilon-P (Millipore, Bedford, MA). The membrane was blocked in 5% nonfat dry milk in TBS-0.05% Tween 20 (TBST) at room temperature for 1 h and washed three times in TBST. The membranes were incubated with GS200.1 hybridoma supernatant diluted 1:3 in TBST. The membranes were washed three times in TBST and incubated in 0.1 µg/ml goat anti-mouse HRP (Jackson ImmunoResearch) for 1 h at room temperature. The membranes were washed three times in TBST, and proteins were detected by enhanced chemiluminescence (ECL+Plus; Amersham, Arlington Heights, IL). Membranes treated with ECL+Plus were placed on an exposure pad in a GS-363 Loading Dock unit (Bio-Rad, Hercules, CA). The membrane was exposed to a chemiluminescence imaging screen (Imaging Screen-CH; Bio-Rad) for 18 h. The signal on the screen was extracted on a GS-525 scanner (Bio-Rad), and the digitized image was analyzed using Molecular Analyst Software (Bio-Rad).

Peptides

Peptides were synthesized with an Applied Biosystems 432 Peptide Synthesizer (Perkin-Elmer). Peptides were biotinylated as described (25). The identity of each peptide was confirmed by mass spectrometry (Protein and Carbohydrate Structure Facility at the University of Michigan, Ann Arbor, MI). The peptides used were CLIP (CLIP (81–104)) or fragments of CLIP. The amino acid sequence of CLIP (81–104) is LPKPPKPVSKMRMATPLLMQALPM.

Whole-cell peptide binding assay

BLS-1 HLA-DQ cell lines (1.5 x 106 cells) were washed with HBSS and than incubated for 20 min in 0.5% paraformaldehyde. Fixed cells were washed with Iscove’s complete medium followed by PBS. Cells were resuspended in 200 µl of 150 mM citrate-phosphate (pH 5.4), 5 mM EDTA, 1 mM iodoacetamide, 1 mM benzamidine, and 1 mM PMSF. Biotinylated peptide was added to the cells in 2 µl of DMSO to a final concentration of 1 or 10 µM and incubated for 18 h at 37°C in a shaking water bath. Cells were washed with HBSS and lysed by resuspending in 100 µl of 50 mM Tris-HCl (pH 7.5), 5 mM EDTA, 0.15 M NaCl, 1% Nonidet P-40, 1 mM PMSF, 1 µg/ml leupeptin, and 1 µg/ml pepstatin A for 1 h on ice. The lysates were centrifuged at 20,000 x g for 10 min, and the supernatants were transferred to a 96-well microtiter plate coated with 10 µg/ml SPVL3, neutralized with 100 µl of 50 mM Tris-HCl (pH 8.0), 0.02% n-dodecyl-ß-D-maltoside, and incubated overnight at 4°C. The plate was washed with PBS containing 0.05% Tween 20. DELFIA europium-labeled streptavidin (Wallac, Turku, Finland) diluted 1:1000 in DELFIA assay buffer (Wallac) was added to the wells and incubated for 4 h at room temperature. The plate was washed with PBS containing 0.05% Tween 20. DELFIA enhancement solution (Wallac) was added to the wells and incubated for 1 h at room temperature. Fluorescence was measured using a DELFIA 1232 fluorometer (Wallac).

General

Protein concentration was determined using the Bradford microassay with BSA as the standard (26). Protein m.w. markers for Western analysis were prestained low range SDS-PAGE standards (Bio-Rad).


    Results
 Top
 Abstract
 Introduction
 Materials and Methods
 Results
 Discussion
 References
 
Generation of BLS-1 DQ0604 mutant cell lines

Recently, we showed that DQ0602 was uniquely SDS stable in the HLA-DM-deficient cell line BLS-1, whereas other HLA-DQ and -DR {alpha}ß dimers were not stable, including the structurally similar DQ0604 (5). DQ0604 differs from DQ0602 at seven amino acids, all of which are in the ß-chain of the molecule (Table IGo). To examine the structural basis for the unique SDS stability of DQ0602 in BLS-1, a panel of mutants was generated based on the polymorphic differences between DQ0602 and DQ0604. The amino acids at codons 30, 57, 70, and 86 were mutated in DQB1*0604 to the corresponding codons in DQB1*0602, to induce the SDS stability of DQ0604. Codons 9, 87, and 130, which are also polymorphic between DQB1*0604 and DQB1*0602, were not included in these analyses because the polymorphisms at 9 and 87 are conservative (Tyr to Phe), and the polymorphism at 130 is in the generally nonpolymorphic region of the molecule and is not unique to DQB1*0602. The panel of mutants that represent every combination at codon 30, 57, 70, and 86, are listed in Table IIGo. Two additional mutants were prepared, which took advantage of a ScaI site between codons 59 and 60 in DQB1 to swap codon 1–59 and 60–230 in DQB1*0604 and DQB1*0602 (Table IIGo).

The mutants listed in Table IIGo were transfected into BLS-1 cells containing DQA1*0102. Two cell lines were prepared for each mutation indicated as A and B in Table IIGo. The identity of each cell line was confirmed by sequencing of DQB1 and characterized by flow cytometry with three HLA-DQ dimer mAbs SPVL3, GS200.1, and 1a3. The results of analysis of HLA-DQ cell surface expression with SPVL3 (A), GS200.1 (B), and 1a3 (C) are shown in Fig. 1Go. The three HLA-DQ dimer mAbs recognized all of the mutants, suggesting that the general structure of the HLA-DQ mutants was unaffected by the mutations. Also, the expression levels of the DQ0604 mutants in BLS-1 were similar, varying no more than 3-fold.



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FIGURE 1. HLA-DQ expression on BLS-1 DQ0604 mutant cell lines. BLS-1 DQ0602, BLS-1 DQ0604, and BLS-1 DQ0604 mutants were examined by flow cytometric analysis for expression of HLA-DQ. The fluorescence signal to noise (FSN) ratio was calculated from the median fluorescence intensity obtained with the anti-HLA-DQ dimer Abs SPVL3 (A), GS200.1 (B), and 1a3 (C) divided by the median fluorescence intensity obtained with an isotype control Ab. Each FSN ratio represents the mean ± SD of three independent experiments.

 
SDS stability of the DQ0604 mutants in BLS-1

The SDS stability of the DQ0604 mutants was examined in BLS-1 cell lysates incubated in the presence of 0.2% SDS. This system was previously shown to result in detection of SDS stable dimer for DQ0602 but showed no or reduced levels of dimer for DQ0604 with the HLA-DQ dimer mAbs SPVL3, GS200.1, and 1a3 (5). Representative gels showing the SDS stability of the HLA-DQ mutants relative to DQ0602, DQ0604, and DQA1*0102 are shown in Fig. 2Go. The gels are divided according to the number of sites changed in DQB1*0604. In the single mutant gel (Fig. 2GoA), a faint HLA-DQ dimer band was observed for mutant 2, which contains the ß57 mutation from DQB1*0602. Upon longer exposure, a more prominent dimer band for mutant 2 was observed, whereas no dimer bands were detected for the other single mutants (data not shown). In the double mutant gel (Fig. 2GoB), dimer bands similar in intensity to DQ0602 were observed for mutants 5 and 8, which contain ß30 and ß57, and ß57 and ß70, respectively, from DQB1*0602. Less intense dimer bands were observed for mutants 7 and 9, which contain ß30 and ß86, and ß57 and ß86, respectively, from DQB1*0602. Dimer bands were not detected for mutants 6 and 10, which contain ß30 and ß70, and ß70 and ß86, respectively, from DQB1*0602. In the triple and quadruple mutant gel (Fig. 2GoC), strong dimer bands were observed for all of the mutants except mutant 12, which contains ß30, ß70, and ß86, from DQB1*0602 and lacks ß57. In the swap mutant gel (Fig. 2GoD), mutant 16 in which ß1–59 comes from DQB1*0602 and ß60–230 from DQB1*0604 is much more SDS stable than mutant 17 in which ß1–59 comes from DQB1*0604. Collectively, these results suggest that ß57 plays a critical role in inducing SDS stability of HLA-DQ. This is clearly demonstrated in Fig. 2Go, A and C, in which the only single mutant that is SDS stable is the one with ß57 Asp (mutant 2), and the only triple mutant that is not SDS stable is the one lacking ß57 Asp (mutant 12). ß57 from DQB1*0602 is not essential to obtain some SDS-stable dimer as observed for mutant 7 (ß30 and ß86) and mutant 17 (amino acids 1–59 from DQB1*0604) but it is essential for maximal restoration of SDS stable dimer (Fig. 2Go, B–D). Similar results to that shown in Fig. 2Go were obtained in three additional experiments and for the other cell line representing each mutant (data not shown). The amount of HLA-DQ SDS-stable dimer was also quantitated using a Molecular Imager, and results were generally consistent but lacked the detection sensitivity observed on film (data not shown). Thus in conclusion, ß57 Asp plays a primary role in the SDS stability of DQ0602 and ß30, ß70, and ß86 play secondary roles in increasing SDS stability of DQ0602 in BLS-1.



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FIGURE 2. SDS stability of DQ0604 mutant {alpha}ß dimers expressed in BLS-1. Cell lysates from BLS-1 HLA-DQ cell lines (20 µg protein) were diluted 1:1 in 2x sample buffer containing 0.4% SDS and incubated at room temperature for 30 min. Samples were electrophoresed on a 4–20% Tris-glycine gel in SDS running gel buffer and transferred to Immobilon-P. Western analysis was performed with GS200.1 (anti-HLA-DQ dimer mAb). Bound GS200.1 was detected with goat anti-mouse IgG HRP and ECL+Plus. A–D, The first three lanes as labeled contain BLS-1 DQ0602 cell lysate (positive control), BLS-1 DQ0604 cell lysate (negative control), and BLS-1 DQA1*0102 cell lysate (negative control). The remaining lanes contain BLS-1 DQ0604 mutant cell lysates that are labeled according to mutant reference number as in Table IIGo. A, Single mutant cell lysates. B, Double mutant cell lysates. C, Triple and quadruple mutant cell lysates. D, Swap mutant cell lysates.

 
Analysis of CLIP binding to DQ0602 and DQ0604

Traditionally, CLIP is associated with SDS instability of HLA class II molecules. This is thought to be the case because CLIP is the predominant peptide found associated with HLA class II molecules in HLA-DM-deficient cells, and in these same cells HLA class II molecules are not SDS stable (10, 11). However, because of the unique SDS stability of DQ0602 in the HLA-DM-deficient cell line BLS-1, we hypothesized that DQ0602 was uniquely interacting with CLIP, resulting in the SDS stability of DQ0602. This notion was tested first by examining the amount of CLIP associated with the DQ0604 mutants and second by testing the binding of CLIP to the DQ0604 mutants in BLS-1. These results were than compared with the SDS stability of the various DQ0604 mutants.

First, the amount of CLIP associated with HLA-DQ on the BLS-1 DQ0604 mutant cell lines was examined with the CerCLIP Ab in flow cytometric analysis. Fig. 3Go shows the amount of CLIP normalized for HLA-DQ expression for DQ0602, DQ0604, and the DQ0604 mutant cell lines. These results show that 5-fold more CLIP was associated with DQ0602 than DQ0604, which was consistent with the notion that CLIP interacts uniquely with DQ0602. However, the results obtained with the BLS-1 DQ0604 mutant cell lines did not follow the same trend observed with DQ0602 and DQ0604, such that a number of DQ0604 mutants that showed no detectable SDS-stable-dimer, in particular mutant 1 (codon 30 from DQB1*0602), mutant 6 (codons 30 and 70 from DQB1*0602), and mutant 12 (codons 30, 70, and 86 from DQB1*0602), showed levels of CLIP comparable to DQ0602. Asterisks above the bars in Fig. 3Go indicate the cell lines with detectable SDS stable dimer levels. Clearly there is no correlation between the level of HLA class II-associated CLIP and amount of SDS-stable dimer.



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FIGURE 3. The amount of CLIP associated with HLA-DQ expressed in BLS-1 does not correlate with SDS stability. BLS-1 DQ0602, BLS-1 DQ0604, and BLS-1 DQ0604 mutants were examined by flow cytometric analysis for expression of CLIP and HLA-DQ. The amount of CLIP was normalized for HLA-DQ expression by dividing the fluorescence signal to noise (FSN) ratio for CLIP by the FSN ratio for HLA-DQ. The specific Ab for CLIP was CerCLIP and the specific Abs for HLA-DQ were SPVL3, GS200.1, and 1a3. The FSN ratio was calculated from the median fluorescence intensity obtained with the specific Ab divided by the median fluorescence intensity obtained with an isotype control Ab. Each FSN ratio represents the mean ± SD of three independent experiments. Asterisks above the bars denote BLS-1 DQ0604 mutants that have detectable SDS-stable dimer.

 
Second, the binding of CLIP to HLA-DQ on the BLS-1 DQ0604 mutants was tested in the whole-cell peptide binding assay. Shorter fragments of the full-length CLIP were also tested to prevent the DQ0604 mutants from binding to multiple epitopes as potentially could occur along a long peptide such as CLIP (81–104). These peptides included the suggested physiological epitope for MHC class II proteins based on the DR3-CLIP crystal structure, CLIP (90–100) (27). Also, the minimal CLIP peptide binding epitope deduced for DQ0602 and DQ0604, CLIP (93–103) (data not shown). Truncation of CLIP (81–104) from the amino and carboxyl terminus revealed that DQ0602 and DQ0604 prefer a similar minimal CLIP epitope. Fig. 4Go shows the binding of CLIP (81–104) (A), CLIP (90–100) (B), and CLIP (93–103) (C) to one of each of the BLS-1 DQ0604 mutant cell lines at 1 µM peptide concentration. Similar results were obtained with the other cell line for each mutant and each peptide tested at 10 µM peptide concentration (data not shown). DQ0602 bound 2- to 3-fold better to CLIP (81–104) at 1 µM than DQ0604 in the whole-cell assay, which is consistent with results observed in a purified peptide binding assay (data not shown). One mutant stands out in Fig. 4Go, A–C. This is mutant 6 (codons 30 and 70 from DQB1*0602), which binds considerably better to all three peptides than any other mutants. This mutant is SDS unstable (Fig. 2Go) and associated with high amounts of CLIP as detected by CerCLIP staining (Fig. 3Go). Mutant 1 (codon 30 from DQB1*0602) also binds well to CLIP and is SDS unstable and associated with high amounts of CLIP. Thus, the ability to bind CLIP well does not result in SDS stability. Additional, there is no correlation between the amount of CLIP binding to HLA-DQ and SDS stability (data not shown).



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FIGURE 4. Binding of CLIP to HLA-DQ on BLS-1 DQ0604 mutant cell lines does not correlate with SDS stability. Biotinylated CLIP peptides (1 µM) were incubated with 1.5 x 106 paraformaldehyde-fixed BLS-1 HLA-DQ cell lines in whole-cell peptide binding buffer. Cells were washed to remove unbound peptide and lysed. HLA-DQ was bound to a microtiter plate coated with SPVL3. Bound biotinylated peptide was detected by fluorescence using a europium-labeled streptavidin system. Data are the means ± SD of triplicate determinations. Data in each panel represent individual experiments. A, CLIP (81–104). B, CLIP (90–100). C, CLIP (93–103).

 
Overall, these results do not eliminate a possible role for CLIP in the unique SDS stability of DQ0602. However, these results suggest by a variety of methods that DQ0602 does not uniquely interact with CLIP. Thus, CLIP interaction with DQ0602 is not directly responsible for the unique SDS stability of DQ0602.


    Discussion
 Top
 Abstract
 Introduction
 Materials and Methods
 Results
 Discussion
 References
 
An inverse correlation between SDS stability of MHC class II {alpha}ß dimers (HLA-DQ and I-A) and IDDM susceptibility has been observed (5, 6). The HLA-DQ allele associated with dominant protection in IDDM was the most stable HLA-DQ molecule, even being uniquely SDS stable in the HLA-DM-deficient cell line, BLS-1. We took advantage of this result to address the mechanistic basis of the exceptional SDS stability of DQ0602.

Optimal SDS stability of HLA-DQ in BLS-1 occurred with codon 57 from DQB1*0602 in combination with one or more additional codons from DQB1*0602 at ß30, ß70, and ß86. The greatest contribution was clearly played by ß57 Asp as only its absence in the triple mutant abolished stability and only its presence alone without any other changes induced SDS stability at a detectable level. IDDM susceptibility was initially proposed to be largely dependent on the amino acid at ß57 (28). An Asp at codon 57 of the ß-chain was found to protect from IDDM. However, additional studies have shown this to be an oversimplification (29, 30). Nevertheless, the Asp/non-Asp (Ala, Val, Ser) dimorphism is expected to play a functional role as it is an evolutionarily conserved feature. Also, the amino acid at ß57 has been observed to regulate peptide binding to two HLA-DQ alleles, HLA-DQA1*0301/DQB1*0302 and HLA-DQA1*0301/DQB1*0303, which differ only at ß57 (31, 32). HLA-DQA1*0301/DQB1*0302 (Ala at ß57) is positively associated with IDDM susceptibility, whereas HLA-DQA1*0301/DQB1*0303 (Asp at ß57) is not associated with IDDM (2). Thus, a critical role for the codon at ß57 in IDDM susceptibility has previously been suggested.

DQ0602 and DQ0604 have been molecularly modeled based on the crystal structure of HLA-DR1 (29). A crystal structure of HLA-DQ is currently lacking. The molecular model shows that amino acid 30, 57, 70, and 86 are found within the peptide-binding groove of the molecule. The model predicts that the polymorphism at ß57 produces a significant change in an anchor pocket in the peptide-binding groove. When Asp is present, as is found in DQ0602, a salt bridge is formed with the Arg at {alpha}79. When Val is present, as is found in DQ0604, the salt bridge is broken and Arg {alpha}79 adopts a different conformation resulting in a significant increase in anchor pocket size and hydrophobicity. The model also predicts that the polymorphism at ß70, Gly in DQ0602 and Arg in DQ0604, is significant, as it is positioned at the top of a helical segment. There the residue at ß70 is likely to form hydrogen bonds with the peptide ligand backbone and interact directly with the TCRs. The other polymorphisms between DQ0602 and DQ0604 were predicted to not have any significant effects due to their conservative nature. The results presented herein are consistent with the predictions of the model in that ß57 is critical for SDS stability, which is generally a function of peptide binding. However, the model does not reveal the role of the other polymorphisms in SDS stability that is apparent from this study.

Previous studies have indicated that HLA class II proteins in HLA-DM-deficient cells are loaded with CLIP (10, 11). Removal of CLIP and the addition of antigenic peptides are important for SDS stability of HLA class II proteins (7, 8, 9, 10, 11, 12, 13, 14, 15). The unique stability of DQ0602 in the HLA-DM-deficient cell line BLS-1 suggested the possibility that DQ0602 interacted with CLIP in a unique way that resulted in SDS stability. To address this hypothesis, CLIP was analyzed in the context of DQ0602, DQ0604, and the HLA-DQ mutants. Two assays were used to examine CLIP. The first assay used the CerCLIP Ab in a flow cytometric assay to determine the amount of CLIP associated with HLA-DQ on the cell surface of the BLS-1 DQ0604 mutant cell lines. CerCLIP is a mouse mAb produced against CLIP (81–104) (24) and recognizes an epitope on CLIP between amino acids 81 and 92 (R. Ettinger, G. Nepom, and W. Kwok, unpublished data). The second assay examined the binding of CLIP to HLA-DQ in a whole-cell peptide binding assay and determined how well the DQ0604 mutants could bind CLIP. These assays showed that the amount of CLIP associated with the DQ0604 mutants on the BLS-1 HLA-DQ cell lines, as well as the amount of CLIP that binds to the DQ0604 mutants, does not correlate with SDS stability of the DQ0604 mutants. Also, the epitope of CLIP that DQ0602 and DQ0604 preferentially bind to is very similar. Thus, CLIP most likely does not uniquely interact with DQ0602 resulting in its unique SDS stability in BLS-1.

The results presented herein contribute to our understanding of HLA-DQ {alpha}ß dimer stability. An Asp at ß57 is critical for SDS stability of HLA-DQ {alpha}ß dimers. Other polymorphic residues in HLA-DQ modulate stability, in this case, Tyr at ß30, Gly at ß70, and Ala at ß86, significantly increased SDS stability of DQ0602. The importance of an Asp at ß57 for the stability of DQ0602 is consistent with the primary role the Asp/non-Asp dimorphism at ß57 plays in dictating IDDM susceptibility, thus suggesting a potential mechanism by which ß57 Asp protects against IDDM.


    Footnotes
 
1 This work was supported by Grants DK49841, AI44443, and DK02319 from the National Institutes of Health. Back

2 Address correspondence and reprint requests to Dr. Ruth A. Ettinger, University of Washington, Department of Medicine, Box 357710, HSB K-165, 1959 NE Pacific Avenue, Seattle, WA 98195. Back

3 Abbreviations used in this paper: IDDM, insulin-dependent diabetes mellitus; CLIP, class II-associated invariant chain peptide; DQ0602, protein encoded by HLA-DQA1*0102/DQB1*0602; DQ0604, protein encoded by HLA-DQA1*0102/DQB1*0604; BLS, bare lymphocyte syndrome. Back

Received for publication March 22, 2000. Accepted for publication July 5, 2000.


    References
 Top
 Abstract
 Introduction
 Materials and Methods
 Results
 Discussion
 References
 

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