Modulation of JunD.AP-1 DNA binding activity by AP-1-associated factor 1 (AF-1).

AP-1-associated factor 1 (AF-1), is a novel protein complex that dramatically enhances the assembly of JunD-containing dimers onto AP-1 consensus sites. We describe the partial purification of AF-1 from nuclear extracts of the T-cell line MLA 144 by ionic, hydrophobic and gel filtration chromatography. AF-1 is a DNA-binding protein composed of low molecular mass polypeptides of 7-17 kDa that exists in solution as a 34-kDa complex. JunD interactions with DNA are accelerated in the presence of AF-1 through the formation of a true tri-molecular complex with JunD dimers and DNA that assembles much more rapidly on DNA than JunD alone. DNA binding analysis of AF-1 interaction with JunD·AP-1 and DNA shows that AF-1 increases the DNA binding affinity of JunD for AP-1 sites over 100-fold. DNA cleavage footprint analysis of isolated AF-1·JunD DNA complexes shows that the ternary complex makes nearly twice as many contacts with DNA than JunD dimers alone. AF-1 interacts readily, but differentially with Jun homodimers and Jun·Fos heterodimers. These findings distinguish AF-1 as a significant protein-specific modulator of AP-1·JunD in T-cells.

A central goal in the field of signal transduction biology is to elucidate the mechanisms through which short-lived signals, emanating from the surface of the cell, can be conveyed internally to effect long term changes in cellular behavior. Most of these changes are brought about by modulation of gene expression at the level of transcription (1). The AP-1 transcription factors are a ubiquitous class of gene regulatory factors that have a leading role in controlling widely diverse cellular processes (2,3). This class of basic leucine zipper (bZip) 1 DNAbinding proteins binds specifically to sequences related to the pseudopalindromic AP-1 consensus site (5Ј-TGA C/G TCA-3Ј), found in numerous genes responsive to the tumor-promoting phorbol esters like 12-O-tetradecanoylphorbol-13-acetate (TPA) (4,5). Although this site is commonly referred to as the TPA-responsive element (TRE), it is regulated by a wide variety of signaling events at various genes (6,7). AP-1 proteins either form Jun⅐Jun homodimeric complexes comprising the members of the Jun family (c-Jun, JunD, and JunB) or Fos⅐Jun heterodimers derived from the various Fos family members (c-Fos, Fra1, Fra2, FosB, and FosB2) (8 -15).
In addition to the well characterized modulation of AP-1 function by post-translation modifications such as phosphorylation and oxidation-reduction (16,17), a great deal of flexibility in AP-1 function arises from the observation that AP-1 dimers can form multicomponent complexes with other unrelated transcription factors such as NF-AT (nuclear factor of activated T-cells), octamer, glucocorticoid receptor, and NF-B, to effect site-specific up-or down-regulation of function (18 -21). Moreover, several other cellular and virally derived factors such as Jif, TAX, IP-1, and ABP have been shown to modulate the function of AP-1 and other bZip family members (22)(23)(24)(25)(26). The importance of AP-1 in the process of T-cell activation is well illustrated by the multiple roles it plays in the regulation of interleukin 2 expression. In addition to an independent TRE, the interleukin 2 promoter contains at least three or more regulatory elements that bind AP-1 coordinately with either NFAT p , NFAT c , or Oct-1 (27,28).
In previous work, we isolated a cellular fraction from 0.8 M NaI T-cell nuclear extracts that contained a novel activity that dramatically stimulated JunD⅐AP-1 DNA binding activity (29). Within this fraction, significant stimulatory activity was found to reside in a set of 29 -23-kDa polypeptides. In this current work we describe the identification, partial purification, and properties of a second active component of this 0.8 M NaI fraction as a multimeric DNA-binding protein composed of 7-17-kDa polypeptides. This factor, termed AP-1-associated factor 1 (AF-1), enhances JunD⅐AP-1 DNA binding by forming a tri-molecular complex with AP-1 dimers and DNA that binds with a 100-fold higher affinity than JunD alone. Interestingly, inducible AF-1⅐Jun complexes can be demonstrated in nuclear extracts from mitogen-stimulated T-cells that are partially inhibited in the presence of cyclosporine A.
Cells and Media-The Jurkat human T-cell line and MLA144 cells (gibbon T-cell lymphoma) were grown in RPMI 1640 medium containing 10% fetal calf serum. Cells were harvested by centrifugation at 1000 ϫ g for 10 min, and the pellets were washed three times with 3 volumes of cold PBS prior to preparation of nuclear extracts.
Preparation of Nuclear Extracts-Nuclear extracts were prepared from resting or mitogen-stimulated Jurkat T-cells by a extensive modification of the procedure described by Ohlsson and Edlund (30). Cells (approximately 1-3 ϫ 10 9 ) were harvested and washed as decribed above. The cells were then resuspended in 5 volumes of Buffer A (10 mM KCl, 1.5 mM MgCl 2 , 4 mM BME, 0.5 mM PMSF, 10 g/ml leupeptin, 10 mM Hepes, pH 7.5) and transferred to a 1.5-ml Eppendorf tube and allowed to stand for 10 min at 4°C. The cells were then collected by centrifugation at 1000 ϫ g for 10 min. at 4°C. The supernatant was removed, and the cells were resuspended in 2 volumes of Buffer A and homogenized with 16 strokes of a Teflon pestle (fitted for 1.5-ml Eppendorf tubes) driven at 1500 rpm by a hand-held 0.75-hp power drill. Nuclei were collected by centrifugation at 1000 ϫ g for 10 min at 4°C, and the supernatant was removed. The isolated nuclei were resuspended in 5 volumes of Buffer B (0.2 mM EDTA, 4 mM BME, 0.5 mM PMSF, 10 g/ml leupeptin, 20% glycerol, 20 mM Hepes, pH 7.5). 4 M ammonium sulfate, pH 7.9, was added to yield a final concentration of 0.3 M, and the suspension was allowed to incubate at 4°C with gentle rocking for 30 min. The nuclear suspension was then clarified by centrifugation at 100,000 ϫ g for 60 min at 4°C. The resulting supernatant was quickly recovered prior to re-swelling of the nuclear pellet and assayed directly for DNA binding activity.
Preparation of Anti-JunD Antibody Immunoaffinity Column-10 mg of anti-JunD, prepared as described previously (29), was bound to 2 ml of protein A-agarose in buffers containing PBS, 0.2% Triton X-100, and 0.5 mM PMSF at 4°C for 1 h. The antibody-coated agarose beads were washed into buffers containing 100 mM Hepes, pH 8.2, and chemically cross-linked by incubation with 10 mM ethyleneglycol bis-(succinimidylsuccinimate) for 1 h at room temperature. The column was quenched by washing the beads with 5 volumes of 1 M Tris-HCl and washed successively with 100 ml of buffer (containing 2 M urea, 1% Triton X-100, 0.1 M glycine, 1 mM sodium azide), 200 ml of buffer (containing 0.5 M NaCl, 1 mM sodium azide, 10 mM Hepes, pH 7.5 at 4°C), and finally equilibrated with 5-6 column volumes of buffer (containing PBS, 0.2% Triton X-100, and 1 mM sodium azide). A second nonspecific (anti-glutathione S-transferase antibody) antibody column was prepared from 10 ml of protein A-agarose and 30 mg of anti-GST antibodies.
Immunoaffinity Purification of JunD from T-cells-Nuclear extracts of MLA 144 T-cells were prepared as described previously (29), and dialyzed against PBS, 0.2% Triton X-100, 0.5 mM PMSF, and 1 mM azide, pH 7.5, for 3 h at 4°C. The extract was then passed over a 10-ml anti-GST column, and the resulting flow-through was then passed over a 2-ml (5 mg/ml) anti-JunD affinity column. After washing successively with 25 column volumes each of 200 mM NaCl, 10 mM Hepes; 500 mM NaCl, 10 mM Hepes, pH 7.5; and 1 M MgCl 2 , the column was eluted with 4 M MgCl 2 , 0.05% Tween 20, and 1 mM sodium azide. Fractions (0.5 ml) were collected, screened for protein concentration, analyzed for JunD content by Western blot, pooled, and dialyzed overnight at 4°C against 2000 volumes of buffer containing 10 mM Hepes, 50 mM NaCl, 8 mM BME, 0.05% Tween 20, 20% glycerol, and 1 mM sodium azide, pH 7.5. Cellular JunD prepared in this manner can be stored at Ϫ70°C with no loss in DNA binding activity for over 16 months.
Purification of AF-1 from MLA144 Cells-Nuclei that had been sequentially extracted with 250 and 600 mM NaCl were prepared from 40L of MLA144 cells as described previously (29). The isolated nuclei were then resuspended in 180 ml of Buffer D (800 mM NaI, 0.2 mM EDTA, 1 mM PMSF, 10 g/ml leupeptin, 4 g/ml pepstatin, 20% glycerol, 4 mM BME, pH 7.5) and incubated with gentle rocking for 1 h at 4°C. The suspension was then clarified by centrifugation at 300,000 ϫ g for 3 h. The supernatant was collected and diluted to 0.4 M NaI by the addition of ice-cold Buffer D containing 0 mM NaI and adsorbed batchwise with gentle shaking for 30 min at 4°C with 0.2 volume of DE53 previously equilibrated with 50 mM NaCl, 10 mM Hepes, 0.2 mM EDTA, pH 7.5. The DE53 suspension was centrifuged for 5 min at 1000 ϫ g, and the supernatant was collected and passed over a 45-ml phenyl-Sepharose column sequentially equilibrated with 1 volume of distilled water, 1 volume of 100% ethanol, 2 volumes of n-butanol, 1 volume of 100% ethanol, and 1 volume of distilled water prior to equilibration in Buffer D (0.4 M NaI). The flow-through (approximately 350 ml) from the phenyl-Sepharose column was dialyzed overnight against 12 volumes of buffer E (50 mM NaCl, 0.05% Tween 20, 4 mM BME, 0.25 mM EDTA, 20% glycerol, 0.5 mM PMSF, and 20 mM Hepes, pH 7.5), at 4°C. The dialyzed material was then applied to a 10-ml Bio-Rex 70 column equilibrated in buffer E and developed with a 100-ml 0.05-2 M NaCl linear gradient. Fractions (2 ml) were collected, and 1-l aliquots were screened for the ability to form ternary complexes with immunopurified JunD by EMSA. Active fractions (peak reflecting conductivity between 0.5 and 0.8 M NaCl) were pooled and concentrated by ion exchange on a 2-ml Bio-Rex 70 column equilibrated in Buffer E and eluted with 250 mM NaCl Buffer E, followed by 0.8 M NaCl Buffer E. The 0.8 M NaCl material was adjusted to 0.5 M NaCl, applied to Superose 6 gel filtration column equilibrated in 0.5 M NaCl, 20 mM Hepes, 1 mM sodium azide. Fractions (0.5 ml) were collected, and 1-l aliquots were analyzed by EMSA as decribed above. Active fractions were pooled and stored at Ϫ70°C. AF-1 purified in this manner yields approximately 10 g of protein that is stable at Ϫ70°C for at least 12 months. The gel filtration column was calibrated with BSA (68 kDa, Stokes radius (R S ) ϭ 3.5 nm), ovalbumin (43 kDa, R S ϭ 2.84 nm), chymotrypsinogen A (23.2 kDa, R S ϭ 2.25 nm), and RNase A (13.6 kDa, R S ϭ 1.8 nm).
In Situ UV Cross-linking of Protein⅐DNA Complexes following EMSA-Protein⅐DNA complexes were separated by EMSA as described above. The electrophoretic apparatus was disassembled, and regions of the gel containing radioactive protein⅐DNA complexes were UV-irradiated with a 2,000-microwatt/cm 2 (at 7.6 cm) shortwave UV hand lamp at a distance of 2.5 cm from the surface of the gel for 15 min. The gel was subsequently dried on filter paper (Whatman), and protein⅐DNA complexes were visualized by autoradiography, excised, and eluted in 0.1% SDS for 14 h. Eluted complexes were lyophilized and resuspended in an appropriate volume of SDS-PAGE buffer, separated on 15-20% SDS-PAGE gels, and dried prior to autoradiography.
In Situ DNA Footprint Analysis following EMSA-Copper chemical cleavage footprint analysis of DNA⅐protein complexes following EMSA was performed as described previously (31,32), except products were separated on 16% acrylamide sequencing gels.
Antibodies-Antibodies to JunD and GST were prepared as described previously. Anti-Fos antibodies were a generous gift from Dr. Michael Iadarola (National Institutes of Health).
Recombinant Proteins-Recombinant JunD was prepared from extracts of Escherichia coli transformed with a plasmid construct (pGEX-JunD). The fusion protein, containing GST fused to the amino terminus of JunD was purified on a glutathione-agarose matrix and eluted with glutathione. Full-length bacterially expressed c-Jun was purchased from Promega. Truncated (139 -270) bacterially expressed c-Fos was a generous gift from Dr. Tom Kerppola (University of Michigan, Ann Arbor, MI).
SDS-Polyacrylamide Gel Electrophoresis (PAGE)-SDS-PAGE was carried out in 0.2% (w/v) SDS with the buffers of Laemmli on 0.75-mmthick 15-20% acrylamide gradient slabs with a 2.5-cm stacking gel. Protein bands were visualized after electrophoretic transfer to nitrocellulose membranes by staining with colloidal gold (Janssen Pharmaceutica, Amersham) according to the manufacturer's specifications.

RESULTS
Immunoaffinity Purification of JunD-Prior studies had identified an activity or activities, isolated from 0.8 M NaI extracts of MLA144 T-cell nuclei, that dramatically enhanced the DNA binding activity of JunD⅐AP1 (29). Similar non-Fos, non-Jun activity could also be found as contaminating components in DNA affinity-purified preparations of JunD (29,33). The identification of these activities was based solely on the ability of the isolated fractions to stimulate specific binding of purified JunD to oligonucleotides containing the GALV-TRE sequence. To facilitate a more detailed study of this stimulatory activity in the current studies, it was therefore important to utilize preparations of purified JunD that were free of any contaminating components that could interfere with the assessment of regulated JunD-DNA binding activity. This required obtaining active preparations of purified JunD via means that were independent of DNA binding. Such requirements necessarily excluded DNA affinity-purified preparations of T-cell JunD as a suitable substrate for study. Although an attractive alternative, preparations of recombinant JunD contain very low percentages of active molecules. Due to their low DNA binding activity, these preparations must be used at very high protein concentrations. The possibility that the overwhelming excess of inactive molecules could interfere with proper assessment of the regulated function of the active population of JunD rendered recombinant sources of JunD even less suitable than the DNA affinity-purified JunD. JunD iso-lated from T-cell nuclear extracts by immunoaffinity purification was found to be the most useful and revealing substrate for the task of assessing the modulation of AP-1 DNA binding activity by various purified cellular components.
Cellular T-cell JunD was obtained at high purity from nuclear extracts of gibbon ape T-cells by immunoaffinity purification (see "Experimental Procedures"). Nuclear extracts rich in JunD DNA binding activity were generated from isolated gibbon ape T-cell MLA144 nuclei (29). After first processing over a nonspecific anti-GST antibody column, the extracts were passed over an affinity column that had been previously cou-pled to purified polyclonal anti-JunD antibodies at high concentration. Subsequently the column was washed with high salt buffers and eluted with 4 M MgCl 2 (see "Experimental Procedures"). JunD purified in this manner was obtained in high purity and demonstrated the same predominant 43-kDa and 38-kDa polypeptides previously described in DNA affinitypurified JunD (29,33). Moreover, this purified T-cell JunD was highly active, specific, and bound DNA at low protein concentrations. This immunoaffinity-purified form of JunD therefore was used throughout the purification and characterization of AF-1.
Purification and Properties of AF-1-AF-1 was purified from isolated T-cell nuclei by differential salt extraction followed by batchwise anion exchange chromatography, phenyl-Sepharose hydrophobic chromatography, gradient and stepwise cation exchange chromatography, ending with gel filtration chromatography (see "Experimental Procedures"). Isolated fractions were assayed for the ability to stimulate JunD DNA binding activity by EMSA. The peak of AF-1 activity in the final gel filtration step eluted with a molecular mass of approximately 34 kDa (see "Experimental Procedures"). SDS-PAGE analysis of peak fractions demonstrated a class of low molecular mass polypeptides ranging from approximately 7 to 17 kDa that consistently co-migrated with AF-1 activity (ternary complex formation with JunD and DNA; see Fig. 2A) at each step ( Fig. 1, left). The apparent discrepancy in the native molecular mass of AF-1 and the size of the AF-1 polypeptides by SDS-PAGE suggest that AF-1 is multimeric, a highly elongated molecule, or both. EMSA analysis of purified AF-1 in the absence of JunD reveals an intrinsic DNA binding activity that is independent of added factors and can be detected as a rapidly migrating DNA⅐protein complex (Fig. 1, right).   (29). Arrow indicates the position of the 19-kDa protein⅐DNA cross-linked adduct that is present exclusively in the AF-1⅐JunD⅐DNA complex. mobility on native EMSA gels (see Fig. 2A). Quantitative Scatchard analysis of the formation of this complex by EMSA indicates that AF-1 increases the DNA binding affinity of JunD from 14 nM to 93 pM (data not shown). Competition with a series of TRE mutations in which transversions were generated at 4-base intervals along the length of the GALV-TRE AP-1 reveal that ternary AF-1⅐JunD⅐DNA and binary JunD⅐DNA complexes show similar specificity for the consensus TRE sequences (Fig. 2B, bottom panel).

AF-1 Forms a Stable Ternary Complex with JunD Dimers
In situ UV cross-linking of pre-formed JunD and AF-1⅐JunD complexes reveals the presence of a 19-kDa protein⅐DNA adduct exclusively in the AF-1⅐JunD complex (Fig. 2C, see arrow). The size of the 19-kDa adduct is consistent with the molecular mass of the polypeptides that are present in partially purified AF-1 and confirms that the AF-1⅐JunD complex is a ternary complex comprising JunD, AF-1, and DNA.
AF-1⅐JunD Ternary Complexes Make More Extensive Contacts with Flanking TRE Sequences Compared to JunD Alone-Pre-formed JunD and AF-1⅐JunD protein⅐DNA complexes were isolated by EMSA and digested in situ by copper cleavage (Fig.  3). Comparison of the cleavage protection produced by the two complexes shows that the AF-1⅐JunD complex extends the protection produced by JunD alone by at least 9 base pairs (Fig. 3). Protection is increased 7 base pairs in the 3Ј direction and at least 2 base pairs in the 5Ј direction. 2

AF-1 Preferentially Forms Ternary Complexes with JunD and Increases the Rate of JunD Assembly onto DNA-When
increasing amounts of JunD are added to a fixed concentration of AF-1 and DNA, a dramatic increase in DNA binding activity occurs with a concomitant decrease in the amount of binary AF-1⅐DNA complexes (Fig. 4A). The AF-1⅐JunD⅐DNA complexes show significantly higher binding than comparable amounts of JunD alone and the gradual decrease in the amount of binary AF-1⅐DNA complexes indicates that AF-1 has a much higher affinity and/or specificity for DNA complexed with JunD than for DNA alone.
Semi-quantitative analysis of the rate of assembly of binary JunD⅐DNA versus ternary AF-1⅐JunD⅐DNA complexes shows that AF-1⅐JunD complexes assemble onto DNA much more rapidly that JunD alone (Fig. 4B). Time-constrained binding of JunD to a TRE in the presence or absence of AF-1 shows that, while the binding of JunD to the TRE is maximum at 5 min, the formation of the AF-1⅐JunD complexes occurs much faster (less than 1 min). In fact, the rate of assembly of the AF-1⅐JunD complex is so rapid, it cannot be measured within the limitation of the assay. Interestingly, the dissociation rates of both the JunD and the AF-1⅐JunD complexes appear to be very similar (data not shown). Thus, AF-1 exerts its effects on JunD DNA binding by increasing the contacts it makes with DNA and these AF-1-dependent contacts promote a more rapid assembly of AP-1 onto DNA, while having little effect on the half-life of the complex.

AF-1 Shows Differential Binding Activity for Jun Homodimers and Jun⅐Fos Heterodimers-
The extent of AF-1's ability to enhance AP-1 DNA binding activity is dependent on the context of the AP-1 members within the dimeric complex. When measured by EMSA at low concentrations, AF-1 readily stimulates the binding of both purified T-cell JunD and recombinant GST-JunD but has little effect on recombinant c-Jun (Fig. 5A). Similarly, while low concentrations of AF-1 stimulate the binding activity of both purified Jurkat T-cell JunD homodimers and JunD⅐Fos heterodimers, it shows little effect on the DNA binding activity of either recombinant c-Jun homodimer or c-Jun heterodimerized with c-Fos (Fig. 5B). Although these differences are much less pronounced at higher concentrations of AF-1 (data not shown), they indicate two important points about the mechanism AF-1 interaction. (i) AF-1 can associate with both Jun-containing homodimers and heterodimers containing Fos, and (ii) AF-1 interaction with AP-1 shows protein specificity and will differ depending on the context of the monomeric components present in the dimeric complex.
Inducible AF-1⅐JunD Complexes Are Present in Nuclear Extracts from PHA/PMA-stimulated Jurkat T-cells-EMSA analysis of crude nuclear extracts prepared from PHA/PMA-stimulated Jurkat T-cells reveals the presence of an inducible AP-1⅐TRE complex in addition to a slower migrating AP-1containing complex that comigrates precisely with the AF-1⅐JunD complex reconstituted from purified JunD and AF-1 components (Fig. 6, A and B). Notably, this complex is highly induced above the levels detectable in unstimulated Jurkat T-cells. Moreover, the inducible AF-1⅐Jun complex is partially (approximately 33%) inhibited by prior treatment with 100 nM cyclosporine (Fig. 6A). Antibody supershift analysis of these complexes with anti-JunD and anti-Fos antibodies indicates that the predominant complex in uninduced T-cells is composed mainly of Jun homodimers, while the more strongly 2 Evaluation of the extension of the footprint in the 5Ј direction could not be reliably interpreted further than 2 bases due to the possibility of variable recovery of oligonucleotide cleavage products of that size. FIG. 3. AF-1⅐JunD ternary complexes make more extensive contacts with flanking TRE sequences than JunD alone. Upper panel, bound JunD⅐DNA and AF-1⅐JunD⅐DNA complexes were isolated by EMSA as in Fig. 2B and were subject to chemical copper DNA cleavage in situ (see "Experimental Procedures"). The DNA fragments were eluted and separated on 16% sequencing gels (lower panel). Sequences protected by JunD alone are indicated on the left. Those sequences protected by the AF-1⅐JunD complex are indicated on the right. Full base protection is indicated by q, and partial protection is indicated by E. Vertical arrows indicate the increase in protection of TRE flanking sequence by the AF-1⅐JunD complex.
inducible and slower migrating AF-1⅐AP-1 complex contain both Jun and Fos (Fig. 6B). These data provide strong evidence that the AF-1⅐JunD complexes reconstituted from purified AF-1 and cellular JunD are representative of the in vivo complexes found in nuclear extracts from PHA/PMA-induced Jurkat T-cells. DISCUSSION This report describes the identification, partial purification, and characterization of a novel protein, termed AF-1, that dramatically facilitates the assembly of AP-1 dimers onto DNA. At present, the actual stoichiometry of the AF-1 subunits in the AF-1⅐AP-1 complex remains undetermined until sufficient amounts of either purified or recombinant protein become available for quantitative study. Preliminary evaluation of AF-1 DNA binding activity in the absence of JunD or other AP-1 complexes indicates that AF-1 forms complexes with DNA that have little specificity in the absence of other factors (data not shown). The avidity that AF-1 shows for JunD⅐DNA com-plexes over DNA alone (see Fig. 4A) is consistent with this observation.
The ability of AF-1 to increase AP-1 DNA binding by primarily influencing the on rate of AF-1⅐JunD DNA binding, while having little or no effect on the half-life of the complex, could occur by two basic mechanisms. By the first model, AF-1 forms a binary complex with JunD dimers prior to binding to DNA. This binary complex could then assemble onto DNA in a more thermodynamically favorable fashion that could occur through stabilization of AP-1 dimer formation, relative lowering of the activation energy barrier for binding to DNA, or both. An essential component of this model is that AF-1 is capable of forming stable complexes with AP-1 dimers that can alter the dimer monomer equilibrium in the absence of DNA. Thus far we have not been able to detect any evidence of protein-protein interactions between AF-1 and either immunopurified or recombinant JunD. By a second model, AF-1 has insignificant affinity for JunD dimers alone but binds avidly to binary FIG. 4. AF-1 preferentially forms complexes with JunD and increases the rate of JunD assembly onto TRE sequences. A, a fixed amount of AF-1 (2.5 ng) and increasing amount of JunD (0.25-40 ng) was added to 0.2 ng of 32 P-labeled GALV-TRE and separated by EMSA on 8% acrylamide gels. JunD, AF-1, and JunD⅐AF-1 complexes are indicated by arrows. Electrophoresis was carried out so as not to lose the AF-1⅐DNA complexes and free 32 P-labeled GALV-TRE; therefore, resolution of JunD and JunD⅐AF-1 complexes is limited. Asterisk indicates a rapidly migrating protein⅐DNA complex that appears variably after EMSA analysis of AF-1 and may represent a less stable monomeric form. B, purified JunD (0.25 ng) was incubated with 32 P-labeled GALV-TRE with or without 2 l of AF-1 (as indicated) for 1, 2, or 5 min prior to separation by EMSA on 8% acrylamide gels. Arrows show JunD and JunD⅐AF-1 complexes as indicated. JunD⅐DNA complexes. Accordingly, JunD dimers would also be expected to bind with similar avidity to AF-1⅐DNA complexes. By this model either AF-1 or JunD binds preferentially to the extended DNA⅐protein surface created by its bound congener and DNA. This mode of interaction is very similar to that proposed for the tight interaction between calcineurin and the composite drug-protein surface created by the formation of cyclosporine-immunophilin complexes (34). These models are very similar to those proposed for the mechanism of action of TAX-1 (24).
The observation that AF-1 acts differentially with AP-1 dimers depending on the context of the individual AP-1 dimerization partners is quite intriguing. At the very least, it indicates that AF-1 interactions with dimeric AP-1 shows protein specificity. Whether or not the differential preference of AF-1 for dimers containing JunD, in comparison to those containing c-Jun, reflects a true "Jun family member preference" or is more a reflection of the differential stability of recombinant preparations of c-Jun protein remains to be investigated. It should be noted that these differences appear to be less striking when AF-1 is added to dimers of JunD or c-Jun at higher concentrations. The biological relevance of these differences will be better addressed when recombinant preparations of AF-1 become available for eucaryotic expression.
EMSA DNA binding analysis by extended electrophoresis on 8% polyacrylamide gels has added a new level of resolution to the analysis of AP-1 protein⅐DNA complexes. Under conventional conditions (4% acrylamide electrophoresis at 24°C for 1 h), the protein⅐DNA complexes now known to have altered mobility and composition migrate as superimposed or dissociated complexes during electrophoresis. As a result, the AF-1⅐Jun⅐DNA ternary complexes appear indistinguishable from the binary Jun⅐DNA complexes. In addition to providing greater resolution, the electrophoretic separation of the protein⅐DNA complexes on 8% acrylamide at 4°C provides a greater stability to the relative steady state ratio of binary and ternary complexes formed at equilibrium prior to electrophore-sis. Nonetheless, at subsaturating concentrations of AF-1, this ratio appears to decay as the complexes fall apart during electrophoresis. The net result is an apparent increase in the relative amount of binary complexes at the completion of the electrophoresis. Such transitions are readily apparent in the EMSA analyses shown in Figs. 2A, 5, and 6A.
EMSA separation of crude nuclear extracts derived from Jurkat T-cells on 8% acrylamide reveals the presence of two distinct inducible TRE-binding complexes. Both complexes contain Jun. One co-migrates with purified AP-1 dimers and DNA, and the second complex migrates with a mobility that is identical to the AF-1⅐JunD complexes reconstituted from separately purified components (Fig. 6, A and B). The presence of AF-1 within T-cell activation inducible AP-1 complexes reveals a substantial role for AF-1 as modulator of AP-1 function in T-cells. The partial inhibition of inducible AF-1⅐Jun complexes by cyclosporine A treatment is quite intriguing and suggests that some step in the pathway to the assembly of the ternary AF-1⅐Jun complex may be modulated by cyclosporine A.
AF-1 represents one of two separate activities in the 0.8 M NaI extract of isolated T-cell nuclei that augment AP-1 DNA binding activity. The previously identified 29 -23-kDa polypeptides found to augment JunD binding activity (see Ref. 29) show no evidence of ternary complex formation and do not alter the mobility of Jun complexes by extended EMSA electrophoresis on 8% acrylamide gels. 3 By contrast, AF-1 shifts the mobility of Jun complexes and the AF-1-dependent complexes show increased contacts with sequences flanking the TRE consensus site. Currently, the mechanism of action of the 29 -23-kDa polypeptides remains undefined.
It is not clear whether or not AF-1 will act as a negative transcriptional regulator or function positively. The observation that AF-1⅐Jun-like complexes are strongly induced during T-cell activation argues for a more prominent role as a positive 3 C. Powers and K. Gardner, unpublished observation. regulator of AP-1 function. Like TAX-1, AF-1 could effect the DNA binding properties of multiple basic leucine zipper family members. The predominant role of AF-1 as an accessory protein that accelerates the rate of assembly of transcription factor complexes onto DNA could have profound influences on gene expression pathways that must generate a rapid response once threshold levels of active downstream signal transduction targets have been achieved. AF-1 could have a role in facilitating transcription factor entry and transcriptional co-factor function within the complicated and dynamic chromatin structure that surrounds rapidly inducible genes. Further purification, cloning, and functional characterization of AF-1 will provide critical insights into the mechanisms governing these important cellular processes.