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Vol. 54, Issue 4, 671-677, October 1998
Department of Pharmacology, University of Kentucky, Lexington, Kentucky 40536
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Summary |
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The aryl hydrocarbon receptor (AHR) and its DNA binding partner, the AHR nuclear translocator (ARNT), are basic helix-loop-helix transcription factors that mediate many of the toxic and carcinogenic effects of polyhalogenated aromatic hydrocarbons. The basic regions of the AHR and ARNT contact the GCGTG recognition site, whereas both their helix-loop-helix domains and periodicity-ARNT-single-minded domains participate in heterodimerization. To delineate the transcription factors that may facilitate DNA binding and transcriptional activation of the AHR/ARNT heterodimer, we questioned whether transcription factor IIB (TFIIB) may interact with either the AHR or ARNT and whether this interaction may affect the ability of the AHR/ARNT complex to bind DNA. Coaffinity precipitation assays demonstrated that both the AHR and ARNT were capable of interacting with TFIIB. Domain mapping experiments revealed that TFIIB interacts with the periodicity-ARNT-single-minded and carboxyl-terminal regions of the AHR. To determine whether the interaction between TFIIB and the AHR may affect DNA binding of the AHR and ARNT complex, we performed gel shift experiments in the absence and presence of TFIIB. The addition of TFIIB significantly increased the formation of the AHR/ARNT DNA binding complex, but only if TFIIB was first allowed to interact with the AHR before the addition of ARNT. These results indicate that TFIIB interacts with the AHR and may stabilize the DNA binding form of the AHR and thereby augment the ability of the AHR/ARNT complex to interact with its DNA recognition site.
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Introduction |
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The
AHR and its DNA binding protein ARNT are bHLH proteins that are
distinguished by a secondary dimerization region termed the PAS domain
(Jackson et al., 1986
; Hoffman et al., 1991
;
Nambu et al., 1991
; Burbach et al., 1992
). The
bHLH/PAS proteins are a family of transcription factors that are
involved in a number of diverse functions. For example, the
Drosophila melanogaster single-minded protein, SIM,
regulates formation of the central nervous system (Muralidhar et
al., 1993
). Interestingly, the locus of the mammalian homologue,
SIM2, coincides with the Down syndrome chromosomal region (Chen
et al., 1995
). Both the D.
melanogaster (Konopka et al., 1971
) and mammalian
PER (Tei et al., 1997
), as well as the mammalian clock
(Vitaterna et al., 1994
) proteins regulate circadian
rhythms. The hypoxia inducible factor 1
and its heterodimerization
partner, hypoxia inducible factor 1
(ARNT) mediate the cellular
response to reduced oxygen levels (Wang et al., 1995
). In
addition, several bHLH/PAS proteins function as coactivators and
mediate agonist-induced transcriptional activation. For example, Src1
(Onate et al., 1995
), GRIP1/TIF-2 (Voegel et al.,
1996
; Hong et al., 1997
) and RAC3 (Li et al.,
1997
) facilitate the transcriptional activation of a number of steroid
hormone receptors. Finally, the AHR (Burbach et al., 1992
)
and its heterodimerization partner, ARNT (Hoffman et al.,
1991
), regulate xenobiotic metabolizing genes. Additional bHLH/PAS
family members with as yet uncharacterized functions may shed new
insights into the physiological roles of this class of transcription
factors (Hogenesch et al., 1997
).
Like many bHLH proteins, the AHR and ARNT proteins contact DNA via
their basic regions that are located at their amino-termini and lie
adjacent to the HLH/PAS regions (Dolwick et al., 1993
; Reisz-Porszasz et al., 1994
). Although the transcriptional
activity of the AHR and ARNT have been mapped to glutamine-rich regions that lie within their carboxyl-termini, the biochemical events that
mediate the transcriptional activities of these two proteins are poorly
understood (Jain et al., 1994
; Ma et al., 1995
).
The AHR interacts with high specificity and affinity to the
prototypical ligand, 2,3,7,8 tetrachlorodibenzo-p-dioxin
(For review, see Swanson and Bradfield, 1993
). In its unactivated form, the AHR exists in the cytosol complexed to a number of proteins, including a dimer of Hsp90. However, after agonist binding, the AHR
translocates to the nucleus, where it dimerizes with ARNT. This
heterodimeric pair interacts with specific DNA sequences termed DREs,
resulting in the activation of a number of genes, including
CYP1A1. The increased transcriptional levels of
targeted promoters that are mediated by activator proteins, such as the AHR and ARNT, may be a result of several possible actions (Goodrich et al., 1996
). The activator protein(s) may 1) recruit the
general transcription factors to the promoter, 2) exert a
conformational change upon the nucleoprotein complex at the promoter,
or 3) stimulate a modification such as a phosphorylation event on the
promoter-bound proteins. Each of these actions may be facilitated by
protein-protein interactions between the activator protein and a
transcriptional coactivator or a general transcription factor, such as
TFIIB or TFIID.
The idea that TFIIB plays a critical role in transcriptional activation
is illustrated by the fact that TFIIB interacts with the activator
protein VP16, thereby increasing the rate limiting step of
transcription, assembly of TFIIB into the preinitiation complex (Lin
and Green, 1991
). Further, mutations within the transcriptional activation domain of VP16 that disrupt the TFIIB-VP16 interaction yield
variant VP16 proteins that are incapable of transcriptional activation
(Lin and Green, 1991
). A diverse group of activator proteins that have
been demonstrated to directly contact TFIIB include the nuclear hormone
receptors (vitamin D, thyroid, estrogen, and progesterone receptors),
nuclear factor
B65, VP16, and Oct 1 (Lin and Green, 1991
; Ing,
et al., 1992
; Baniahmad et al., 1993
; Blanco
et al., 1995
; Nakshatri et al., 1995
; Schmitz
et al., 1995
). In an effort to understand the mechanisms by
which the AHR and ARNT may activate their target genes, we questioned
whether either the AHR or ARNT may directly contact TFIIB. In this
study, we demonstrate that both the AHR and ARNT interact directly with TFIIB. In addition, we have determined that the interaction between TFIIB and the AHR includes two contact sites: one that occurs within
the PAS domain and a second that occurs within the carboxyl terminus of
the AHR. Finally, we demonstrate that the interaction of TFIIB with the
AHR does not interfere with its ability to interact with ARNT or DNA;
rather, it increases DNA binding of the AHR/ARNT complex.
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Experimental Procedures |
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Oligonucleotides.
Oligonucleotides were purchased from Gibco
BRL (Gaithersburg, MD). The annealed oligonucleotides that were used as
the radiolabeled probe for the gel shift assay and contain the DRE
(underlined) are: 5'- TCGAGCTGGGGGCATTGCGTGACATAC
(HIS 17) and 3'-TCGAGGTATGTCACGCAATGCCCCCAGC (HIS
18). This sequence has been determined previously to be the optimal DNA
recognition site of the AHR and ARNT complex (Swanson et
al., 1995
). The following oligonucleotides were used as polymerase chain reaction primers:
Materials.
The plasmids pmuAHR, pmuAHRC
516 (denoted as
AHR(1-289) in the present study), and phuARNT
were constructed as described previously (Dolwick et al.,
1993
). The plasmid pGST-TFIIB was obtained from Dr. Danny Reinberg
(Robert Wood Johnson Medical School, University of Medicine and
Dentistry of New Jersey, Camden, NJ) (Ha et al., 1991
). The
plasmids pVP16-CRF-1 and pSG424 were obtained from Dr. Christopher
Bradfield (University of Wisconsin, Madison, WI). Glutathione
Sepharose 4B was purchased from Pharmacia Biotech (Piscataway, NJ) and
the nickel agarose (Ni-NTA) was purchased from Qiagen (Valencia, CA).
The AHR and ARNT antibodies were a gift from Dr. Richard Pollenz
(Medical University of South Carolina, Charleston, SC). AntiTFIIB was
purchased from Promega (Madison, WI) and purified rabbit IgG was
purchased from Sigma (St. Louis, MO).
General procedures.
Standard reaction mixtures for all PCR
experiments were: 10 mM Tris·HCl, 50 mM KCl,
1.5 mM MgCl2, 0.001% gelatin, 200 µM of each deoxyribonucleotide triphosphate, and 2.5 units Pfu DNA polymerase that is derived from
Pyrococcus furiosus in a total volume of 100 µl. The PCR
reactions were generally performed using annealing temperatures that
were 4° below the calculated melting point of the primers. The
amplified products were purified after agarose gel electrophoresis
(0.8%) and electroelution and were subcloned using standard molecular
biology procedures. Sequencing was performed using the dideoxy chain
termination method (Sanger et al., 1977
).
Plasmid construction. pSportTFIIB was generated after amplification from pGST-TFIIB using HIS 51 (forward) and HIS 50 (reverse) and insertion of the product into the SpeI and HindIII sites of the pSport expression vector (Gibco BRL). To generate the pVP16GAL4 plasmid, the BamHI/BglII fragment of pVP16-CRF-1 was inserted into the BamHI site of pSG424. The VP16GAL4 fusion was amplified using the primers HIS 39 and HIS 40 and subcloned into the SpeI site of pSport. The following AHR constructs were generated using PCR and using pmuAHR as the template: AHR(81-289) was generated using the primers HIS 34 and HIS 123 and subcloning the products into the SpeI and HindIII sites of the pSport expression vector. AHR(183-805) was constructed using HIS 68 and HIS 130 as the primers and subcloning the PCR product into the SpeI, NotI site of pmuAHR. Similarly, AHR(290-805) was constructed using the primers HIS 88 and HIS 130 and subcloning the product into the SpeI/NotI site of pmuAHR. The AHR(1-42) GAL4 fusion construct was generated using the primers HIS 61 and HIS 62 and subcloning the product into the BamHI site of pSG424. The fusion construct was amplified using the primers HIS 39 and HIS 40 and the product was inserted into the SpeI site of pSport.
Protein expression.
In vitro expression of all
AHR, ARNT, VP16GAL4, and TFIIB constructs was performed using rabbit
reticulocyte lysates (Promega) as described previously (Dolwick
et al., 1993
). For verification of protein expression, the
translation reactions were performed in the presence of
[35S]methionine, and the products were analyzed
by SDS-polyacrylamide gel electrophoresis. Quantification of the
expressed proteins was determined by excising the radiolabeled proteins
from the gel and scintillation counting. TFIIB-GST and GST were
generated and purified from Escherichia coli as described
previously (Ha et al., 1991
).
Coaffinity precipitation analysis.
Coaffinity precipitation
analysis was performed essentially as described previously (Swanson and
Yang, 1996
). Briefly, TFIIB-GST protein that was prepared from
E. coli and bound to glutathione Sepharose 4B was
incubated with 35S-labeled reticulocyte,
lysate-expressed AHR or ARNT in mild wash buffer (50 mM
Tris, pH 7.4, 100 mM KCl, 10% glycerol, 10 mM
-mercaptoethanol, 0.4% Tween 20) for 2 hr at 4° with gentle
mixing. As a negative control, the 35S-labeled
proteins were incubated with only the GST bound Sepharose 4B. The
Sepharose 4B was washed five times using wash buffer and pelleted after
centrifugation at 16,000 × g for 10 sec. Sample buffer
was added to each pellet, the mixture was boiled and the eluted
proteins were analyzed by SDS-polyacrylamide gel electrophoresis and
autoradiography. Coaffinity precipitation assays to detect an
interaction between the 35S-labeled proteins and
six histidine-tagged AHR or ARNT were performed similarly except that
the wash buffer included 5 mM imidazole (Swanson and Yang,
1996
). Quantification of the radiolabeled bands was performed after
PhosphorImager (Molecular Dynamics, Sunnyvale, CA) analysis.
Gel shift analysis.
The DNA probe (annealed HIS 17/18)
containing the DRE was radiolabeled with
[
-32P]ATP by endlabeling with T4
polynucleotide kinase (Garabedian et al., 1993
). For these
experiments, we used the AHR variant protein
[AHR(1-289)] that lacks 516 amino acids from
the carboxyl terminus and interacts with ARNT in a ligand-independent manner (Dolwick et al., 1993
). Reticulocyte-expressed AHR
and ARNT proteins were incubated for 30 min at 30° to aid
dimerization. In some cases, reticulocyte expressed TFIIB was incubated
with the AHR-containing mixtures either before or after incubation with
ARNT. Two hundred nanograms of nonspecific competitor [poly(dI-dC)] was added, the KCl concentration was adjusted to 100 mM,
and the mixture was incubated at room temperature for 10 min. The
radiolabeled probe (100,000 cpm; 0.5 ng) was added, the mixture was
incubated for 10 min and was analyzed by nondenaturing gel
electrophoresis using 0.5 × Tris/borate/EDTA (45 mM
Tris base, 45 mM boric acid, 1 mM EDTA, pH 8.0)
as the running buffer (Garabedian et al., 1993
). The gels
were dried and the radiolabeled bands were quantified by PhorphorImager
analysis.
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Results |
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TFIIB interacts with the AHR and ARNT. To determine whether TFIIB interacts with either the AHR or ARNT, we used the coaffinity precipitation assay. The radiolabeled ARNT or AHR proteins were incubated with the TFIIB-GST fusion protein that was immobilized to glutathione Sepharose 4B beads. After several washings, the beads were collected by centrifugation and the 35S-labeled proteins that interact with TFIIB were seen after SDS-gel electrophoresis and autoradiography. To verify that the detected radiolabeled bands represented specific interactions with TFIIB, we performed identical experiments except using only immobilized GST. As shown in Fig. 1A, lanes 1, 4 and 7, a limited amount of 35S-labeled ARNT was detected after incubation of 35S-labeled ARNT with the TFIIB-GST fusion protein. Similarly, incubations that were performed using 35S-labeled AHR, resulted in the detection of a radiolabeled band when the AHR was incubated with the TFIIB-GST fusion protein (Fig. 1A, lanes 2 and 5) but not GST alone (Fig. 1A, lane 8). These results indicate that both the AHR and ARNT are capable of interacting with TFIIB. As shown in Fig. 1A, in vitro transcription/translation of both the AHR and ARNT proteins results in the appearance of several lower molecular mass bands that probably represent transcriptional pauses. Interestingly, several of these bands that represent smaller fragments of both the AHR and ARNT also interact with TFIIB.
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TFIIB interacts with the PAS and carboxyl-terminal regions of the AHR. Once we had determined that TFIIB interacts with the AHR, our next goal was to determine the region within the AHR that facilitates its interaction with TFIIB. To achieve this goal, we generated variant 35S-labeled AHR proteins that represented either carboxyl-terminal deletions, amino-terminal deletions, or fusion proteins of the AHR (Fig. 2A) and performed coaffinity precipitation assays using the immobilized TFIIB-GST fusion protein. Our initial experiments indicate that deletion of the basic region but not the carboxyl-terminal region of the AHR abolished its ability to interact with TFIIB (Fig. 2B). These results indicate that the basic region of the AHR may not be involved in mediating the TFIIB/AHR interaction. Although it is possible that fusion of the GAL4 protein to the basic region of the AHR hinders an interaction with TFIIB, this scenario is unlikely, because a similar fusion of the VP16 activation domain with GAL4 permits the VP16/TFIIB interaction to occur (Fig. 1, Fig. 2C, lanes 1-3). Further, the ability of the AHR(81-289) construct (Fig. 2C, lanes 4-6) but not the AHR(183-805) construct (Fig. 2C, lanes 7-9) to interact with TFIIB indicates that a primary site of the AHR/TFIIB interaction occurs with the PAS region of the AHR and lies within the region bordered by amino acids 81 and 183. Interestingly, further amino-terminal deletions of the AHR represented by the AHR(290-805) construct resulted in an interaction between AHR and TFIIB, indicating that a secondary site of interaction with TFIIB occurs within the carboxyl terminus of the AHR (Fig. 2C, lanes 10-12).
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-naphthoflavone or the partial antagonist
-naphthoflavone did not
affect the ability of the full length AHR protein to interact with
TFIIB (data not shown) indicating that ligand activation of the AHR and
the subsequent dissociation of Hsp90 is not required to facilitate the
AHR/TFIIB interaction.
The interaction between TFIIB and the AHR enhances the ability of the AHR/ARNT complex to bind DNA. In an effort to determine whether TFIIB affects formation of the AHR/ARNT complex at concentrations that are more representative of those that may occur at the physiological levels within the cell, we performed gel shift analysis. Gel shift assays were performed in the presence of increasing concentrations of reticulocyte expressed TFIIB. As shown in Fig. 3A, preincubation of the AHR alone, before incubation with ARNT, compromises DNA binding of the AHR/ARNT complex (Fig. 3A, lanes 1 and 5) suggesting that the DNA binding form of the AHR protein is stabilized by the presence of its DNA binding partner, ARNT. The ability of TFIIB to partially fulfill this stabilizing function in the absence of ARNT is shown in lanes 1-4. Increasing amounts of TFIIB that were incubated with the AHR before its dimerization with ARNT enhanced DNA binding of the AHR/ARNT heterodimer. Quantification of three independent experiments demonstrated that the addition of 3 fmol of TFIIB resulted in a 186 ± 20-fold increase in AHR/ARNT complex formation. However, when similar amounts of TFIIB were added to the preformed AHR/ARNT complex, DNA binding of the AHR/ARNT heterodimer was unaffected (Fig. 3A, compare lane 5 with lanes 6-8). The fact that the observed complex is composed of the AHR and ARNT is demonstrated by the ability of antibodies that recognized either the AHR (Fig. 3A, lane 9) or ARNT (Fig. 3A, lane 10) but not nonspecific IgG (Fig. 3A, lane 11) to eliminate formation of the protein/DNA complex.
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Discussion |
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The initiation of transcription by RNA polymerase II in eukaryotes
includes proper assembly of a complex of proteins that includes the
general transcription factors TFIIA-B, D, -E, -F, and -H (Goodrich
et al., 1996
). Protein-protein contacts between the general
transcription factors and activator proteins are thought to facilitate
transcriptional activation and have been described between TFIID,
TFIIF, TFIIH, and TFIIB and a number of activator proteins (Zawel and
Reinberg, 1995
). In this manner, a general transcription factor may
form a bridge between the activator protein and RNA polymerase II. For
example, TFIIB participates in interactions with RNA polymerase II, the
TATA box binding protein and a number of activator proteins. In an
effort to obtain a better understanding of gene activation by the
b/HLH/PAS family of transcription factors, we questioned whether either
the AHR or ARNT interacts directly with TFIIB. In this study, we have
demonstrated that both the AHR and ARNT interact with TFIIB.
The interactions between TFIIB and activator proteins are diverse in
that TFIIB interacts with several different types of functional domains
of the activator protein and that the TFIIB/activator protein
interaction seems to trigger distinct events. Although initial studies
that characterized the interaction between TFIIB and VP16 implied that
TFIIB interacts with only the activation domains of activator proteins
(Lin and Green, 1991
), subsequent work has demonstrated that TFIIB may
also interact with the ligand binding domains of the thyroid hormone
receptor and the vitamin D receptor (Baniahmad et al., 1993
;
MacDonald et al., 1995
). In fact, TFIIB interacts with both
the amino-terminal and carboxyl-terminal regions of the human thyroid
receptor
(Baniahmad et al., 1993
). Similarly, we have
shown that TFIIB interacts with two regions of the AHR (Fig. 2). Once
TFIIB interacts with the activator protein, it may increase the stable
assembly of the preinitiation complex (e.g., VP16) (Lin and Green,
1991
; Roberts et al., 1993
), facilitate a silencing activity
(thyroid receptor) or increase the ability of the activator proteins to
bind DNA (IRF, Oct 1, the AHR) (Nakshatri et al., 1995
; Wang
et al., 1996
; Fig. 3) Alternatively, the formation of an
activator protein/TFIIB complex may have little or no effect on the
ability of the activator protein to enhance gene transcription (nuclear
factor
B65) (Schmitz et al., 1995
). Thus, although TFIIB may interact with a variety of transcription factors, the events initiated by this interaction seem to be dependent on the interacting activator protein.
The PAS domain of the AHR mediates a number of diverse events that
includes ligand binding, dimerization with its DNA binding partner, and
associations with proteins such as Hsp90, SP1, and TFIIB (Dolwick
et al., 1993
; Reisz-Porszasz et al., 1994
;
Coumailleau et al., 1995
; Lindebro et al., 1995
;
Kobayashi et al., 1996
; Fig. 2). Although the PAS domain of
the AHR and ARNT represents a somewhat poorly conserved domain that
does not seem to represent a definitive structural motif, its hallmark
consists of two direct repeats, the A and B repeats. The amino-terminal
and carboxyl-terminal halves of the PAS domain, together with its
helix-loop-helix region, mediates dimerization with its DNA binding
partner, ARNT (Dolwick et al., 1993
; Reisz-Porszasz et
al., 1994
; Lindebro et al., 1995
). In fact, the primary
interaction between the AHR and ARNT seems to map to the
carboxyl-terminal half (the B repeat, amino acids 230-421) of the AHR
PAS domain. Within this region lies the ligand binding domain and a
site for an Hsp90 interaction (Lindebro et al., 1995
). In
the present study, we have shown that TFIIB interacts with the AHR at a
site (the region bordered by amino acids 81 and 183) that lies slightly
adjacent to its ARNT dimerization motif as well as interacting with its
carboxyl terminus. The ability of the PAS domain of the AHR to interact
with both SP1 (Kobayashi et al., 1996
) and TFIIB (Fig. 2)
implies that this region, in addition to the carboxyl-terminal region,
is an important contributor to transcriptional activation by the
AHR/ARNT complex.
Previous studies examining the transcriptional activating potencies of
the AHR and ARNT as well as their associations with other transcription
factors have indicated that the AHR and ARNT may play distinct roles
during the activation process (Jain et al., 1994
; Ko
et al., 1996
; Rowlands et al., 1996
). A
comparison between the ability of individual AHR or ARNT proteins to
activate transcription has revealed that the activating potencies of
the AHR and ARNT are similar (Jain et al., 1994
). However,
when analyzed within the context of the AHR/ARNT complex, only that of
the AHR is functional during dioxin-induced transcription of CYP1A1.
Thus, it seems that only the AHR facilitates the communication from the
GCGTG enhancer to the proximal promoter region (Ko et al., 1996
), which implies that the AHR, but not ARNT, participates in the
crucial protein/protein interactions that facilitate transcriptional activation. This idea is supported by the observation that the AHR, but
not ARNT, interacts with the TATA binding protein (Rowlands et
al., 1996
). It remains to be determined how the interaction of
either the AHR or ARNT with TFIIB may influence the ability of either
of these proteins to activate genes.
Our results indicate that TFIIB may assist in the formation of the DNA binding complex of the AHR/ARNT heterodimer by stabilizing the AHR before its interaction with ARNT. This idea is supported by the data presented in Fig. 3. The addition of increasing concentrations of TFIIB resulted in a corresponding increase in DNA binding of the AHR/ARNT complex only if TFIIB was first incubated with the AHR. However, TFIIB did not affect DNA binding of the AHR/ARNT complex when it was added after AHR/ARNT heterodimerization. In summary, these results suggest a novel role for TFIIB. In addition to its role in recruiting transcription factors to the TATA box, it may also assist in the heterodimerization of activator proteins such as the AHR and ARNT.
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Acknowledgments |
|---|
We thank Danny Reinberg for the human TFIIB cDNA, Richard
Pollenz for the antibodies to the AHR and ARNT proteins, and Dr. Christopher Bradfield for the pmiAHR, pmuAHRC
516, VP16-CRF and pSG424 plasmids.
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Footnotes |
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Received March 20, 1998; Accepted July 2, 1998
This work was supported by the University of Kentucky Research Fund (Grant 847) and National Institutes of Health Grant ES08088. This work was presented at the Society of Toxicology annual meeting in March 1998.
Send reprint requests to: Dr. Hollie I. Swanson, Department of Pharmacology, 800 Rose Street, MS311 UKMC, University of Kentucky, Lexington, KY 40536. E-mail: hswan{at}pop.uky.edu
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Abbreviations |
|---|
AHR, aryl hydrocarbon receptor; ARNT, aryl hydrocarbon receptor nuclear translocator; SIM, single minded; PER, period; PAS, PER-ARNT-SIM homology region; bHLH, basic helix-loop-helix; Src1, steroid receptor coactivator-1; GRIP1, glucocorticoid receptor interacting protein 1; TIF-2, transcriptional mediators/intermediary factor 2; RAC3, receptor-associated coactivator 3; Hsp90, 90-kDa heat shock protein; DRE, dioxin responsive element; TFIIB, transcription factor IIB; TFIID, transcription factor IID; VP16, herpes virus protein 16; oct1, octamer binding protein 1; PCR, polymerase chain reaction; SDS, sodium dodecyl sulfate; GST, glutathione S-transferase.
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