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Molecular Oncology Group, McGill University Health Centre and Departments of Biochemistry, Medicine, and Oncology, McGill University, Montréal, Québec, Canada H3A 1A1
| Abstract |
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| I. Introduction |
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| II. Nuclear Receptors: General Concepts |
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A. Anatomy of nuclear receptors
Nuclear receptors are composed of four independent but interacting
functional modules (Fig. 2A
). These are
the modulator domain, the DNA-binding domain (DBD), the hinge region,
and the ligand-binding domain (LBD). For some nuclear receptors, the
sequence of the protein extends beyond the LBD at the carboxy-terminal
end, but no specific role has been assigned to these additions when
present.
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and ß share little sequence similarity, AF-1
activity of both receptors is enhanced through phosphorylation by the
mitogen-activated protein kinase (MAPK) (9 10 11 ). In contrast, the
domain confers responsiveness to the mixed agonist/antagonist
4-hydroxytamoxifen to ER
(12 ), while basal ERß activity is
unaffected by the synthetic compound (11 13 ). In addition to MAPK,
both cyclin-dependent protein kinase (14 15 16 ) and pp90rsk1
(17 ) have also been shown to phosphorylate the amino-terminal domains
of specific nuclear receptors. The modulator domain can also interact
directly with steroid receptor coactivators (SRCs) (see below) to
enhance the activity of the receptor complex (18 19 20 21 ).
2. DBD. Nuclear receptors bind DNA as monomers, homodimers,
and heterodimers (Fig. 3A
) (reviewed in
Ref. 22 ). While most heterodimeric complexes contain one of the
retinoid X receptors (RXRs) as a common partner (23 ) (see below),
alternative heterodimeric interactions between nuclear receptors have
been reported and may be of physiological significance (24 25 26 27 28 29 30 31 32 ).
Nuclear receptor DNA recognition sites, referred to as hormone response
elements (HREs), contain one or two consensus core half-site sequences.
For dimeric HREs, the half-sites can be configured as inverted,
everted, or direct repeats. Steroid receptors recognize the half-site
consensus sequence AGAACA while the estrogen receptors and other
nuclear receptors bind to the half-site consensus sequence AGGTCA. For
monomeric HREs, a single half-site is preceded by a 5'-flanking
A/T-rich sequence. Half-site sequences can deviate quite considerably
from the consensus sequences, especially for dimeric HREs in which a
single conserved half-site is usually sufficient to confer
high-affinity binding to the homo- or heterodimer complexes. Natural
HREs rarely contain two perfect consensus half-sites.
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-thyroid hormone (T3)
receptor ß (T3R ß) DBD complex and computer modeling
have shown that each heterodimeric complex may utilize partner-specific
dimerization determinants (36 ). The CTE plays dual roles in providing
both protein-DNA and protein-protein interfaces (36 37 ). Finally, due
to the asymmetric nature of direct repeat HREs, RXR and its partner
bind DNA in a fixed orientation. In T3R-, vitamin D
receptor (VDR)-, and all-trans-retinoic acid (atRA) receptor
(RAR)-RXR heterodimer complexes, RXR occupies the upstream half-site
and its partner the downstream half-site (34 38 39 40 41 ). The site
occupied by a receptor on a direct repeat HRE may regulate its ability
to recognize its ligand (42 ). 3. The hinge region. This region of the nuclear receptors is also highly variable in both length and primary sequence: as its name indicates, its main function is to serve as a hinge between the DBD and LBD. The hinge has to be very flexible to let the DBD rotate 180° to allow some receptors to bind as dimers to both direct and inverted HREs (22 ). Recent studies have also demonstrated that the hinge region may serve as a docking site for corepressor proteins (43 44 ).
4. LBD. The LBD is a multifunctional domain that
mediates ligand binding, dimerization, interaction with heat shock
proteins, nuclear localization, and transactivation functions. Although
quite variable in primary sequence, nuclear receptor LBDs can be
defined by a signature motif overlapping with helix 4 (45 ). In
addition, ligand-dependent transactivation is dependent on the presence
of a highly conserved motif, referred to as activation function-2
(AF-2), localized at the carboxy-terminal end of the LBD (Fig. 2A
).
X-ray crystallographic experiments suggest that LBDs have similar
structures: they are formed by the folding of 1113
-helices into
three layers that bury the ligand-binding site within the core of the
LBD (46 47 48 49 50 51 52 ). Ligand-dependent transactivation involves the recruitment
of coactivators (see below), a process in which the AF-2 plays an
obligatory role. Comparison of holo- and apo-LBD structures has led to
the mouse trap model in which ligand binding induces a conformational
change in the LBD allowing coactivators to bind (48 ). In this model,
the AF-2 motif folds back against the core LBD upon ligand binding,
closing the ligand-binding pocket and forming a novel interface
involving residues from the AF-2 itself and at least three other
helices (53 ). While transcriptionally competent interfaces are induced
by receptor agonists, binding of antagonists to the LBD leads to the
formation of a nonfunctional interface preventing interaction between
the nuclear receptor and coactivator proteins (49 ).
B. Mechanisms of action
The textbook model of nuclear receptor action is often
represented by an inactive cytoplasmic receptor in a complex with heat
shock proteins which, upon ligand binding, translocates to the nucleus
and activates gene expression. Although this model is valid for some
steroid receptors (54 ), most nuclear receptors are constitutively
nuclear and often bound to DNA in the absence of their ligand. It is
also now widely recognized that in the absence of ligands, many nuclear
receptors can act as a strong repressor of gene expression (43 44 55 56 57 58 ). To modulate transcription of their target genes, nuclear
receptors interact with coregulatory proteins. Nuclear receptors have
been shown to associate with various components of the general
transcription machinery, corepressors, coactivators, and the
cointegrator CBP (CREB-binding protein)/p300 (reviewed in Refs.
59 60 61 62 63 ). Corepressor proteins may function by recruiting histone
deacetylases, an activity that keeps the chromatin in a
repressive state (64 65 66 ). Upon ligand binding, the repressor complex
dissociates from the receptor, which is then free to interact with the
coactivator complex. The receptor-coactivator complex may contain one
or more coactivators, including an RNA coactivator referred to as SRA
(67 ), p/CAF (p 300/CBP-associated factor), CBP/p300, and other
uncharacterized components. SRC-1, p/CAF, and CBP have been shown to
possess intrinsic histone acetylase activity leading to a derepression
of the chromatin structure (68 69 70 71 72 73 ). Taken together, these results
delineate a new model for transcriptional regulation by nuclear
receptors that includes three chromatin states: 1) normal chromatin in
the absence of receptor that displays basal levels of histone
acetylation and transcription; 2) repressive chromatin with
deacetylated histones and no transcription in the presence of the
unliganded receptor; and 3) active chromatin with high levels of
histone acetylation and transcription in the presence of liganded
receptor (reviewed in Ref. 74 ). However, chromatin disruption alone is
not sufficient for transcriptional activation, indicating that
additional interactions between nuclear receptors and the general
transcription machinery are required to regulate gene expression (75 ).
Finally, nuclear receptors can also regulate gene transcription via
direct interactions with other transcription factors, a process that
does not depend on DNA binding by the nuclear receptor (reviewed in
Refs. 76 77 ). In particular, the glucocorticoid receptor (GR) has
been shown to antagonize AP-1 and nuclear factor-
B activities
via transcriptional interference (78 79 80 81 82 ). Recent in vivo
experiments that used reverse genetics to engineer a mutant mouse
carrying a DNA-binding deficient GR have demonstrated that development
and survival of mice do not require HRE-mediated gene regulation (83 ).
These observations emphasize the multifaceted control of nuclear
receptor activities and the independence of each functional domain in
carrying out physiological roles.
| III. Orphan Nuclear Receptors |
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B. Nomenclature
The element of randomness associated with the cloning of orphan
nuclear receptors led to a great diversity in the naming of these new
genes. No common nomenclature or even a basic naming scheme was ever
followed, and often the same receptors cloned in different species or
by different groups were given unrelated names. Recently, a unified
nomenclature system for the nuclear receptor superfamily has been
adopted (90 ). The nomenclature is based on the well known system used
for the cytochrome p450 superfamily. In this system, the gene
subfamilies are designated by Arabic numerals, groups by capital
letters, and individual genes by a second set of Arabic numerals.
Receptor isoforms generated from the same gene by alternative promoter
usage or differential splicing are designated by a lowercase letter at
the end of the name. The introduction of this nomenclature system is
not designed to replace the use of trivial names, but only to clearly
identify which nuclear receptor was studied in a particular set of
published experiments. The use of this system should be enormously
helpful to both nuclear receptor aficionados and nonspecialists
in attributing functional properties to each receptor.
A list of known vertebrate orphan nuclear receptors is presented in
Table 1
. In this table, orphan nuclear
receptors are first classified in seven groups (0 to VI) according to
the molecular phylogeny analysis performed by V. Laudet (91 ). Each
group is divided into families referred to by their most commonly used
trivial names, and each family member is identified by a Greek letter.
Receptor isoforms generated from a single gene are identified by an
Arabic numeral. Each receptor is then identified by its official name,
and a list of other known trivial names is also provided. In this
review, for simplicity and clarity, orphan nuclear receptors will be
referred to by their family names (most commonly used trivial names),
and subtypes will be referred to by a Greek letter. Readers are asked
to use Table 1
as a guide to relate these names to other trivial names
and to the official nomenclature.
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and -ß
lack the conserved AF-2. In addition, the nuclear receptor superfamily
includes members possessing either a conserved DBD or LBD, but not
necessarily both in the same molecule. Both DAX-1 and SHP lack a
nuclear receptor-like DBD, while Drosophila EGON,
KNIRPS, and KNRL, as well as numerous nuclear receptor-like gene
products encoded in the Caenorhabditis elegans genome show
no homology with nuclear receptors in their LBDs (95 96 97 98 99 100 101 102 103 ). However,
these proteins can bind DNA or a ligand using these unrelated domains.
DAX-1 has been shown to bind hairpin loop structures in DNA via its
unique amino-terminal domain (104 ), while other intracellular receptors
(e.g., aryl hydrocarbon receptor) and serum and cellular
binding proteins (such as retinol-binding protein, cellular retinoic
acid-binding proteins) bind small lipophilic ligands using structures
unrelated to the LBD of the nuclear receptors.
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(RAR-related orphan receptor) have been shown to interact
with a common CTE to regulate the receptors binding site specificity.
The hinge and amino-terminal domain appear to orient the zinc finger
modules and the CTE relative to each other and are required to achieve
proper interactions with the core AGGTCA half-site and the specific
A/T-rich moiety (109 113 118 ). The observations that mutations in the
amino-terminal domain of the T3R change the DNA-binding
specificity of this receptor (119 ) and that the CTE contributes to the
specificity and polarity of PPAR (peroxisome proliferator-activated
receptor) binding to DNA (120 ) suggest that the participation of
these two domains in DNA recognition could be widespread among nuclear
receptors.
All vertebrate orphan nuclear receptors possess a highly recognizable
LBD (Fig. 5
). The presence of a conserved
LBD is often interpreted as a strong indication that all vertebrate
orphan nuclear receptors possess the intrinsic ability to bind a
specific ligand. However, since the LBD mediates multiple functions
(such as dimerization and coactivator interaction), its presence may
only be required for these activities, which could be regulated via
covalent modifications or protein-protein interactions (see above).
Moreover, widely phylogenetically divergent receptors can bind similar
ligands, suggesting that the ligand-binding function of nuclear
receptors has evolved independently several times during evolution
(121 ). This hypothesis implies that a certain number of orphan nuclear
receptors may never have acquired the ability to bind ligands. However,
this hypothesis would also imply that the LBD possesses the intrinsic
ability to bind ligands, and that only a few mutations would be
necessary to modify an ordinary transcription factor into a
ligand-modulated one. The reverse hypothesis seems more plausible,
i.e., the ancestral nuclear receptor was a
ligand-dependent transcription factor and that mutations during the
course of evolution changed the ligand-binding specificity of novel
nuclear receptors generated through gene duplication according to the
increasing needs of more complex organisms. Some nuclear receptors may
have lost their ligand-binding properties during evolution, but more
drastic changes in their primary structures may have been expected,
such as the loss of the AF-2 domain involved in ligand-dependent
transactivation. While evolutionary studies are useful for stimulating
speculative debates, well designed biochemical, molecular, and
physiological experiments are more likely to provide answers on the
roles and functions of orphan nuclear receptors and their putative
ligands.
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| IV. Novel Hormone Response Systems: RXR and Its Heterodimeric Partners |
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A. RXR: rexinoids
RXR
was originally cloned as a result of its homology with the
RAR
DBD (125 ). Three RXR gene products referred to as RXR
, -ß,
and -
were identified in mammals (125 126 127 128 ), as well as a
Drosophila homolog, ultraspiracle (129 130 131 ). RXRs as
a family are ubiquitously expressed, although individual RXR genes
display unique but overlapping pattern of expression during development
and in adult tissues (127 132 133 134 ).
RXR
could be activated by supraphysiological doses of atRA,
suggesting that the natural ligand for RXR
might be a metabolite of
atRA (125 ). Starting with this hypothesis, two groups independently
identified 9-cis-retinoic acid (9cRA) as the RXR ligand
(Fig. 6
) (135 136 ). The identification
of 9cRA as the natural RXR ligand was the first demonstration of
reverse endocrinology, where the discovery of a receptor leads to the
identification of a novel hormone. As 9cRA was also found to be a
high-affinity ligand for RAR (136 ), several groups began a search for
natural and synthetic RXR-specific ligands. Two noncyclic terpenoids,
methoprene acid and phytanic acid, were found to bind and activate RXRs
in a specific manner (137 138 139 ). Phytanic acid is a natural chlorophyll
metabolite present in normal human diet, while methoprene acid is an
environmental contaminant. While both ligands have the potential to
regulate or disrupt natural RXR responses, the physiological
significance of these findings remains to be proven, especially in view
of the relative low affinities of these compounds for RXRs. Several
synthetic compounds have now also been characterized that bear the
characteristics of RXR-selective ligands, including both agonists and
antagonists (140 141 142 143 144 ).
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Because RXRs play a dual role in nuclear receptor signaling (as receptor for 9cRA and as a heterodimer partner for several nuclear receptors), it has been difficult to assess the precise contribution of RXR-selective pathways in developmental and physiological processes. Two lines of evidence point to the fact that RXR could act as a specific receptor in its own right. First, 9cRA binding to RXRs promotes the formation of RXR homodimers (159 ), demonstrating that RXRs can function independently of other signaling pathways when bound to a DR-1 HRE (160 ). Second, transgenic mice expressing a chimeric RXR protein in which the RXR LBD was fused to the DBD of the yeast activator Gal4, together with a ß-galactosidase reporter gene driven by Gal4 upstream-activated sequences, showed a receptor-specific activation pattern in the developing spinal cord consistent with a role for endogenous RXR ligands in vivo (161 ). This technique offers the potential to investigate the activation pattern of any nuclear receptors and should be particularly useful in studying orphan nuclear receptor functions.
Genetic ablation experiments have revealed that RXR
plays a primary
role in placenta, heart, and eye morphogenesis (162 163 164 165 166 167 168 169 170 ). The putative
functions of RXR
in adult animals are unknown due to the embryonic
lethal phenotype. RXRß mutant mice have abnormal spermatogenesis
(171 ), while RXR
null mice are apparently normal (172 ). While
generation of RXR and RAR compound mutants have clearly demonstrated
that the RXR/RAR heterodimer complex transduces the retinoid signal for
a number of RA-dependent processes during development (162 173 174 ),
surprisingly, there is no genetic evidence yet available indicating
that RXRs actively participate in other hormone response pathways
in vivo.
B. PPAR: multiple ligands, multiple functions
Three PPAR genes generating a number of isoforms have been
identified in mammals: PPAR
, -ß, and -
(Table 1
) (reviewed in
Ref. 175 ). The members of the PPAR family have been cloned by
techniques including screening of a cDNA library with a mixture of
oligonucleotides directed against a conserved region of the DBD,
low-stringency screening, expression library screening using
radiolabeled HREs, and DNA affinity purification and microsequencing of
nuclear proteins. The primary sequences of PPAR
, -ß, and -
are
more divergent than members of other families, reflecting a rapid
evolution from the ancestral PPAR gene. Each PPAR gene displays a
distinct expression pattern during development and in adult animals.
PPAR
is highly expressed in heart, liver, kidney, intestine, and
brown fat, tissues that demonstrate high rates of fatty acid ß
oxidation (176 177 ). Hepatic PPAR
expression levels have been
observed to vary widely in individual animals (177 ), possibly
due to hormonal modulation of PPAR
expression by glucocorticoids
(178 ), physical stress (179 ), or changes in serum insulin levels (180 ).
PPARß is more widely expressed in adult tissues: high levels of
PPARß transcripts are detected in the brain, kidney, small intestine,
and Sertoli cells (177 181 ). Interestingly, PPAR
isoforms are
expressed in a tissue-specific fashion: PPAR
1 transcripts are
abundantly expressed in the spleen, intestine, and white adipose tissue
(177 ), while the PPAR
2 isoform is preferentially expressed in white
and brown fat.
PPARs bind to DR1 HREs as a heterodimer with RXR (147 182 183 ).
However, analysis of natural PPREs has clearly shown that nucleotides
that are present 5' of the two consensus half-sites regulate the
efficiency with which specific PPAR isoforms recognize PPREs (120 184 185 ). PPREs have been identified in genes controlling all aspects of
carbohydrate and lipid metabolism (147 182 183 184 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 ). In
addition to directly binding to their cognate response element, it has
been suggested that PPARs may regulate gene expression by forming
heterodimers with other nuclear receptors such as T3Rß
and liver X receptor (LXR
) (27 212 213 ).
The initial characterization of PPAR
led to the observation that
peroxisome proliferators, a group of structurally unrelated compounds
that cause proliferation of hepatic peroxisomes, liver hyperplasia, and
hepatic malignancies in rodents (reviewed in Refs. 175 203 ), could
stimulate its activity when employed at pharmacological doses (176 ). A
search for more potent and natural PPAR
activators first
demonstrated that fatty acids could activate PPAR (214 ). PPAR
activity was subsequently shown to be induced by eicosanoids (215 ),
carbaprostacyclin (216 ), nonsteroidal anti-inflammatory drugs
(NSAIDs) (217 ), and leukotriene ß4 (LTB4)
(218 ). Although PPARß and -
can be activated by common PPAR
ligands such as docosahexenoic acid and certain prostaglandins (215 ),
PPAR
was shown to specifically bind to thiazolidinediones (TZDs), a
class of antidiabetic drugs (219 220 ). Other PPAR
ligands include
the natural prostaglandin metabolite
15-deoxy-
12,14-prostaglandin J2 (PGJ2) (219 221 ), polyunsaturated fatty acids (222 ), and NSAIDs such as ibuprofren
(223 ). Specific synthetic PPARß ligands have been identified by
screening biased chemical libraries (224 ); however, a natural
high-affinity PPARß ligand has yet to be characterized.
Representative PPAR ligands and activators are shown in Fig. 6
. In
addition to direct activation by PPAR ligands, PPAR-RXR heterodimers
can be activated by RXR-specific ligands. Transient transfection
studies showed that maximal activation of a PPRE-containing gene
promoter was achieved by simultaneous treatment with the synthetic PPAR
ligand WY14,643 and 9cRA (225 ). As mentioned above, this synergism is
also observed in vivo, where the efficacy of TZDs in
reducing fasting hyperglycemia and hypertriglyceridemia in
db/db obese mice is potentiated by dual treatment with
rexinoids (157 ). Finally, PPAR
isoforms display isoform-specific
transactivation potential due to their distinct ligand-independent AF-1
domain (226 227 ). In particular, the PPAR
2 AF-1 domain contains a
consensus MAPK site, and phosphorylation of that site after stimulation
of the MAPK pathway by epidermal growth factor, and insulin inhibits
the adipogenic potential of liganded PPAR
2 (226 228 ), presumably
because phosphorylation of this site reduces ligand-binding affinity
via an intramolecular communication between the AF-1 and the LBD (229 ).
The PPAR
2 AF-1 domain has also been shown to interact with a
coactivator protein termed PGC-2 (230 ). Ectopic expression of PGC-2 in
preadipocytes leads to an increase in fat cell differentiation,
suggesting that PGC-2 may be a limiting cofactor for the adipogenic
action of PPAR
2.
The identification of ligands and target genes linked to lipid
metabolism greatly facilitated the analysis of PPAR
functions.
Numerous in vitro studies have provided strong support for a
crucial role for PPAR
in adipogenesis (reviewed in Refs. 203 231 232 ). In particular, differentiation of fibroblasts into adipocytes
is accompanied by increased expression of PPAR
(233 ), and
overexpression of PPAR
2 is sufficient to induce fibroblasts to
undergo adipocyte differentiation in the presence of ligands (234 ). It
has been shown that activation of PPAR
induces cell growth arrest in
fibroblast cell lines, which suggests that PPAR
may play an
important role in cell cycle withdrawal during adipogenesis in
vivo (235 ). Although PPAR
was first thought to be an
adipocyte-specific modulator (236 ), PPAR
transcripts have now been
detected in many tissues including normal mammary epithelia and breast
adenocarcinomas (237 ), colon (238 239 240 241 ), and macrophages (242 243 ).
Remarkably, treatment of human breast cancer cells with TZDs led to a
series of molecular and morphological changes that are associated with
a more differentiated state and to the induction of apoptotic pathways,
suggesting that PPAR
-induced cell differentiation may offer a novel
therapeutic approach to breast tumors (237 244 ). A small clinical
trial involving three patients with advanced liposarcoma also suggests
that troglitazone (Parke-Davis, Ann
Arbor, MI) could be effective at promoting the differentiation of this
type of solid tumor (245 ). PPAR
ligands have also been demonstrated
to slow the growth and induce the differentiation of human colon cancer
cells in culture or implanted tumors (246 ). Somatic PPAR
mutations
that impaired the function of the protein were also found in sporadic
colon cancers, suggesting that loss of function of PPAR
may
contribute to the etiology of human colon cancer (247 ). However, mice
genetically susceptible to develop polyps in the colon treated with
PPAR
ligands show an increased frequency of colon adenocarcinomas
(240 241 ). These apparently contradicting results may reflect a
distinct role for PPAR
in the context of normal colon epithelium
(proliferation) and tumor cells (growth arrest) (248 ). These
observations raise a warning flag to long-term use of TZDs and beg for
additional investigation of the role of PPAR
in normal and abnormal
colon physiology. PPAR
has also recently been indirectly implicated
in the regulation of monocyte functions (reviewed in Ref. 249 ). At
relatively high doses, PPAR
ligands were shown to be effective in
reducing the levels of inflammatory cytokines and production of nitric
oxide by isolated monocytic cells (242 250 ). In addition, PPAR
appears to be involved in the maturation of monocytes along the
macrophage lineage, more specifically in the conversion of monocytes to
foam cells, which can be induced upon exposure of monocytes to oxidized
LDL. It has been proposed that two oxidized derivatives of linoleic
acid present in LDL, 9- and 13-hydroxyoctadecadienoic acid (9- and
13-HODE), can act as PPAR
ligands once internalized into foam cells
by oxidized LDL receptor-mediated endocytosis (243 251 ). PPAR
activation by 9- and 13-HODE then leads to foam cell maturation and
directly enhances the expression of the CD36 lipoprotein scavenger
receptor gene promoter, resulting in increased macrophage LDL and
oxidized LDL uptake, which promotes cholesterol deposition in
atherosclerotic plaques. Again, both findings have direct implications
for use of TZDs as therapeutic agents. On one hand, TZDs, which are
well tolerated in patients with noninsulin-dependent diabetes mellitus,
could replace the less well tolerated NSAIDs to treat inflammatory
diseases. In contrast, prolonged use of TZDs could accelerate the
formation of atherosclerotic plaques and increase cardiovascular
diseases.
The study of PPAR
null mice have revealed three important functions
for PPAR
in vivo (198 ). First, it has been demonstrated
that PPAR
is an essential mediator of the hepatic response to
peroxisomal proliferators such as Wy-14,643, clofibrate, and
DHEA-S (198 252 ). However, PPAR
is not
essential for peroxisome biogenesis as normal numbers of hepatic
peroxisomes are present in PPAR
-/- mice. Second,
PPAR
appears to orchestrate the expression of genes encoding
mitochondrial, peroxisomal, and cytochrome P450 enzymes involved in
cellular fatty acid utilization in response to changes in intracellular
levels of fatty acid metabolites (209 253 254 ). Third, PPAR
null
mice show a prolonged inflammatory response when challenged by
its natural ligand, LTB4 (218 ). It has been proposed
that the prolonged response to LTB4 is due to the
disruption of the normal feedback mechanism controlling the degradation
of this chemotactic inflammatory agent, implying that liganded PPAR
regulates transcription of genes involved in this catabolic pathway.
Finally, PPAR
ligands have been shown to inhibit the inflammatory
response of aortic smooth muscle cells in vivo, which
participate in plaque formation and postangioplasty restenosis (255 ).
Thus, in contrast to PPAR
ligands, activators of PPAR
may have
beneficial vascular effects in atherosclerosis.
While the role of the widely expressed PPARß remains elusive, studies
using cyclooxygenase-2 (COX2) null mice suggest that the essential role
played by the COX2-derived prostacyclin PGI2 in
implantation and decidualization is transduced by this receptor in the
uterus (256 ). PPARß, RXR
, COX2, and PGI synthase are coexpressed
in stromal cells surrounding the implanting blastocysts, and PPARß
agonists (PGI2, carbaprotacyclin, and L, 165,041) that can
specifically promote PPARß/RXR
heterodimerization and
transactivate the receptor complex in vitro restore
implantation and decidualization in COX2 null mice. Once again, the
potential role of PPARß ligands in implantation suggests that the
development of PPAR-directed drugs should be vigilantly monitored to
avoid unwanted side effects.
C. PXR: pregnanes, xenobiotic compounds, and benzoate derivatives
The characterization of PXR may well represent the first
identification of a steroid hormone-based response system in many
decades. Murine PXR was identified through a computer search of
expressed sequence tags (ESTs) derived from a liver cDNA library (257 ).
PXR is predominantly expressed in the liver and intestine of embryos
and adult animals and is most closely related to the VDR at the
structural and amino acid sequence levels. Using a Gal4-PXR chimeric
protein to perform an initial search for PXR activators, Kliewer
et al. (257 ) found that synthetic pregnanes (C21 steroids)
and both glucocorticoid agonists and antagonists were potent inducers
of PXR activity. Interestingly, some of these compounds, in particular
dexamethasone and pregnenolone 16
-carbonitrile (PCN), were well
known to induce the expression of the cytochrome p450 CYP3A
gene in rodent liver and intestine and cultured hepatocytes (see Refs.
257 258 ). CYP3A is involved in the hydroxylation of steroid
hormones as well as various toxic xenobiotics. Induction of
CYP3A and other members of the rodent p450 3A family is
believed to confer protection against drugs and toxic xenobiotics by
increasing their catabolism (259 ). Like its close relative VDR, PXR was
found to recognize DR-3 HREs as a heterodimer with RXR, and a DR-3
motif previously demonstrated to be responsible for the activation of
the CYP3A promoter by dexamethasone and PCN (260 261 262 ) was also found
to mediate PXR activation of the CYP3A promoter by these compounds
(257 ). Interestingly, mouse and human PXR display important differences
in their activation profile by certain drugs (258 263 ). While PCN acts
as a potent inducer of mouse PXR, it has only a weak inductive effect
on human PXR. Conversely, rifampicin is a strong activator of human PXR
but has very little activity on mouse PXR. These species-specific
activation profiles were not entirely unexpected as marked interspecies
differences had been observed in the induction of CYP3A genes. The
comparative analysis of human and mouse PXR function provide an elegant
molecular explanation for these species-specific responses. Taken
together, these results provide convincing evidence that PXR is
responsible for the induction of CYP3A genes in response to
treatments with PCN, dexamethasone, and various xenobiotic agents.
However, these are synthetic compounds that must mimic the action of
endogenous steroids whose normal physiological role could be to
regulate steroid and sterol metabolism in liver and intestine. Based on
the finding that PXR is best activated by pregnenolone and its
derivatives, Kliewer et al. (257 ) proposed that the natural
ligand for PXR is likely to be a pregnane; hence, the name pregnane X
receptor (PXR). The broader activation profile and low affinities for
human PXR activators has also been interpreted to mean that PXR could
function as a steroid and xenobiotic sensor that directly regulates the
activity of catabolic p450 enzymes in response to the presence of their
substrates (123 263 ). If this hypothesis is correct, a high-affinity
ligand for PXR may not be required. Regardless of which hypothesis
turns out to be correct, the first direct application to spring from
these discoveries is likely to be the development of more rapid and
accurate PXR-based assays to screen for the ability of drugs to induce
CYP3A genes, an important component of the drug development process
(258 ).
The Xenopus PXR ortholog, referred to as BXR (264 ) and xONR1
(265 ), appears to play a completely different role in that organism.
BXR is expressed early during Xenopus development, and
biochemical purification of transcriptionally competent embryonic
extracts tested in a BXR-dependent activation assay led to
characterization of endogenous benzoate metabolites as BXR ligands
(Fig. 6
) (264 ). While the exact role of these compounds in vertebrate
development is unknown, their identification as orphan nuclear receptor
ligands suggests that this class of molecules may participate in
previously unrecognized morphogenetic signaling pathways.
D. CAR (constitutive androstane receptor): androstanes
and phenobarbital
Study of CAR function has recently introduced another new concept
in nuclear receptor action. CAR was originally identified through
screening of a cDNA library with a degenerate oligonucleotide based on
a conserved region of the nuclear receptor DBDs (266 ). CAR was found to
bind DR-5 HREs as a heterodimer with RXR, sites previously shown to be
regulated by RAR-RXR complexes in the presence of retinoids or
rexinoids. However, CAR was found to activate reporter genes driven by
promoters containing DR-5 HREs (266 267 ) or a complex HRE present in
the CYP2B gene (268 ) in the absence of retinoids, rexinoids,
or any other exogenously added ligands. Thus, the name CAR was
referring to constitutively active receptor. Despite its constitutive
behavior, the likelihood that CAR activity could be regulated by a
ligand was considered high, mainly on the basis of its association with
RXR. The search for a ligand revealed that CAR is, in fact, a steroid
receptor for androstenol and androstanol (Fig. 6
), but contrary to
previous dogma concerning steroid receptor action, these ligands switch
the activity of CAR off instead of on (269 ). A biochemical analysis of
CAR function suggests that the two steroids act as inverse agonists,
not antagonists, since addition of these ligands induces the
dissociation between CAR and a coactivator protein in vitro.
A legitimate question to ask is whether androstenol and androstanol are
the best ligands for CAR. The affinities of both compounds for CAR
(>400 nM) are well below normal physiological levels found
in the plasma. Nonetheless, this discovery should stimulate studies on
this previously unrecognized androstane-related signaling pathway and
provide a new model to investigate the molecular and structural
mechanisms underlying nuclear receptor activation and repression.
While the constitutive activity of CAR can be suppressed by
androstanes, various phenobarbital-type inducers have been shown to
reverse the negative effect of androstanes on the human cytochrome P450
(CYP) 2B6 promoter (270 ). Phenobarbital is the prototype for
xenochemicals that induce CYP2B genes. This observation suggests that
CAR, together with PXR and PPAR
, may participate in a nuclear
receptor-based regulatory pathway controlling the expression of CYP
genes in response to exogenous xenochemicals and endogenous compounds
such as steroids and lipids.
E. LXR: control of cholesterol metabolism by oxysterols
LXR
was so named based on its initial isolation from a human
liver cDNA library and the observation that its expression is enriched
in that tissue (148 ). LXR
is also expressed at significant levels in
other organs such as the intestine, kidney, and spleen (148 271 ). A
second member of the family, LXRß, is ubiquitously expressed
(272 273 274 275 ). Both LXR
and -ß recognize DR-4 HREs as heterodimers
with RXR (148 271 272 274 ). LXR binding sites, referred to as
LXREs, preferentially contain nonconsensus half-sites (AGTTCA).
LXR
has also been found to heterodimerize with PPAR
: this
interaction does not lead to the formation of a transcriptionally
active complex and has not yet been shown to be physiologically
relevant (213 ). The LXR-RXR complex belongs to the class of permissive
heterodimers as the RXR ligand 9cRA was found to be a potent activator
of LXR transcriptional activity (148 ). Interestingly, RXR was shown to
occupy the 5'-half-site on the LXRE, a position that does not allow
ligand binding in other heterodimeric complexes. This suggests that
RXR-ligand activation potential is not exclusively dictated by receptor
binding polarity on DNA (42 ) but is rather dependent on the RXR partner
and primary sequence of the HRE (150 ). Furthermore, activation of the
LXR-RXR complex by 9cRA requires the LXR but not the RXR AF-2 domain,
suggesting that ligand binding by one receptor induces conformational
changes in its partner that lead to transcriptional activation (150 276 ). Similar conclusions were reached in studies using the synthetic
rexinoid LG100754, which can activate the nonpermissive RAR-RXR
heterodimer via the unliganded RAR (277 ). This phenomenon was referred
to as the phantom ligand effect.
The search for LXR ligands led to the discovery that endogenous
oxysterols are potent and selective LXR activators (149 ). The most
active compounds identified were 22(R)- and 24(S)-hydroxycholesterol,
24(S),25-epoxycholesterol, and 7
-hydroxycholesterol (Fig. 6
) (149 223 278 ). Oxysterols are oxidized derivatives of cholesterol that
serve as intermediary substrates in the rate-limiting steps of steroid
hormone and bile acid synthesis (279 ). One prediction from these
findings is that liganded LXR
could act as a sensor of cholesterol
and regulate its metabolism. The phenotype of mice carrying a targeted
null mutation in the LXR
gene confirmed this hypothesis (280 ). The
absence of LXR
results in a block of cholesterol catabolism, leading
to accumulation of hepatic cholesterol in mice fed a high cholesterol
diet (2%) associated with mysregulation of CYP7A, which
encodes a key regulatory step involved in bile acid synthesis. LXR
mutant mice also display abnormal fatty acid synthesis. A role for
LXR
as a cholesterol sensor is strongly supported by the observation
that LXR
knock-out mice do not up-regulate bile acid synthesis or
diminish their cholesterol uptake in response to high cholesterol
levels. However, since the phenotype is observed only when the mice are
exposed to very high levels of cholesterol in their diet, the role of
LXR
under normal physiological conditions remains to be elucidated.
Nonetheless, these discoveries will certainly lead to the search for
possible mutations in the LXR
gene in patients with defects in
cholesterol metabolism as well as the development of therapeutic agents
targeting the oxysterol response pathway.
F. FXR: bile acids receptor
FXR is most closely related to the Drosophila EcR and
binds to EcRE (IR-1) and DR-4 HREs in a complex with RXR (274 281 ).
Transactivation assays have shown that rat FXR can be activated by high
concentrations of farnesol (281 ). Farnesol is an isoprene intermediate
in the mevalonate biosynthetic pathway and most likely activates FXR
via its conversion into a higher affinity derivative (Fig. 6
). However,
the activity of the highly homologous mouse FXR (RIP14) is not induced
by farnesol but rather can be stimulated by atRA and the synthetic
retinoid TTNPB (282 ). As observed for the action of farnesol on rat
FXR, high concentrations of atRA are required to activate mouse FXR,
and no evidence of direct binding by atRA and TTNPB was obtained, again
suggesting that FXR could serve as a receptor for an unknown metabolite
of these activators. Because farnesol and retinoids share common
metabolic pathways, it is expected that the activating compound would
be a retinoid metabolite.
More recently, however, FXR was shown to be a receptor for bile acids
(283 284 285 ). The combined results of three groups demonstrate that
several bile acids are potent inducers of FXR transcriptional activity
and promote FXR interaction with a coactivator at physiological
concentrations. Bile acid activated FXR was also shown to enhance
transcription from the intestinal bile acid binding protein (IBABP)
promoter and inhibit transcription from the CYP7A promoter, most likely
via antagonism of LXR
action. Taken together, these results suggest
that FXR is a general regulator of bile acid metabolism, acting both at
the level of the liver through suppression of CYP7A to reduce synthesis
and at the level of the intestine through activation of IBABP to
increase recycling of bile acids (reviewed in Ref. 286 ).
| V. Orphans in Search of a Home |
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A. HNF4: diabetes and possible regulation by acyl-coenzyme A (CoA)
thioesters
HNF4 (hepatocyte nuclear factor 4) represents one of two
orphan nuclear receptors not associated with RXR for which an
association with a putative ligand has been proposed. HNF4
was
initially identified as a transcription factor required for
liver-specific gene expression (287 ). To date, three genes encoding
HNF4 subtypes have been identified in vertebrates: two in human and
rodents (HNF4
and -
) (287 288 289 ) and one in Xenopus
(HNF4ß) (290 ). Each gene product differs significantly in its
expression pattern and transactivation potential (288 289 291 ).
HNF4
is expressed at high levels in liver, kidney, intestine, and
pancreas and at low levels in the testis (287 291 292 ). HNF4
transcripts are not expressed in liver but can be found at low levels
in the kidney, intestine, and pancreas (291 ). During development,
HNF4
is expressed in primary endoderm at 4.5 days postcoitus
(d.p.c.) and in visceral endoderm between 5.5 d.p.c. and 8.5
d.p.c. (293 ). Hepatic expression of HNF4
is detected in the liver
primordia by 8.5 d.p.c. and during all subsequent stages of
development. HNF4
expression in other tissues begins at 9.5
d.p.c. in the gut and at 10.5 d.p.c. in the developing pancreas
and the mesonephric tubules (293 294 ). HNF4 subtypes bind as
homodimers to DR-1 HREs (295 ) and regulate the expression of genes
involved in cholesterol, and xenobiotic and amino acid metabolism, as
well as all aspects of carbohydrate and lipid metabolism and various
liver specific-genes (201 292 296 297 298 299 300 301 302 303 304 305 306 307 308 309 310 311 312 313 314 315 316 317 318 319 320 321 322 ).
HNF4
is a constitutive inducer of gene expression that interacts
with steroid hormone coactivators and p300 (323 ), suggesting that its
activity may be regulated by an endogenous ligand present in most cell
types (287 ). Recently, long-chain fatty acyl-CoA thioesters have been
shown to modulate gene activation by binding directly to HNF4
(324 ).
Long-chain fatty acyl-CoA thioesters are amphiphilic molecules that
play important roles in the regulation of energy metabolism through
direct interaction with a variety of cellular enzymes (reviewed in Ref.
325 ). High intracellular fatty acyl-CoA concentrations, which sometime
result from prolonged fasting or diabetes mellitus, have been shown to
inhibit the activity of glycolytic enzymes resulting in fatty acid
oxidation replacing glycolysis as the primary cellular energy source
(325 326 ). The observation that long-chain fatty acyl-CoA thioesters
could also regulate the transcription of genes implicated in these
metabolic pathways is of considerable interest. However, long-chain
fatty acyl-CoA thioesters displayed marked differences in their ability
to regulate HNF4
transcriptional activity: poly- and monounsaturated
acyl-CoAs inhibited the constitutive activity of HNF4
, while
different saturated acyl-CoAs activated HNF4
over its normal
activity (palmitoyl-CoA) or inhibited (stearoyl-CoA) it. In addition,
treatments with long-chain fatty acyl-CoA thioesters never resulted in
more than a 2-fold change in HNF4
activity measured in
transcriptional assay (324 ). Since a mixture of long-chain fatty
acyl-CoA thioesters may have mutually antagonistic effects on HNF4
function, it may be difficult to demonstrate the importance of these
ligands as modulators of HNF4
in vivo. Another caveat to
this observation is the previous finding that long-chain fatty acyl-CoA
thioesters may also regulate gene expression by interfering with
T3R signaling (327 ). Nonetheless, if confirmed by
additional physiological studies, the identification of long-chain
fatty acyl-CoA thioesters as natural HNF4
ligands could lead to the
development of more specific synthetic HNF4
ligands, which could be
used to differentiate the effects of these compounds mediated by
HNF4
from those mediated by direct enzyme inhibition.
Insights into HNF4
function in vivo have come from both
population and reverse genetics. Recently, a locus linked to
maturity-onset diabetes of the young (MODY1) has been associated with
mutations in the human HNF4
gene (328 329 330 331 ). The association between
MODY1 and HNF4
is probably specific to this form of diabetes, as
HNF4
mutations have not been identified so far in patients with
other forms of noninsulin-dependent diabetes mellitus (332 ).
Furthermore, disruption of the HNF4 binding site in the HNF1 promoter
has been identified in an Italian family with MODY, providing an
unusual example of patients whose disease state likely results from a
combined impairment of HNF4
and HNF1 function (333 ). Of particular
interest, HNF4
mutations identified in MODY1 patients can alter the
cellular localization of HNF4
or reduce its activity in
transcriptional assays, providing strong support for a direct link
between reduced HNF4
function and the MODY phenotype (331 334 335 ). On the other hand, gene targeting experiments have not been
informative with regard to possible HNF4
functions in liver
development or metabolic control in adult animals. Ablation of the
Hnf4
gene results in apoptosis of embryonic ectoderm at
6.5 d.p.c, followed by abnormal mesoderm differentiation and
embryonic death (336 ). However, Hnf4
ablation in either
ES cells or 8.5 d.p.c. embryos is associated with significantly
reduced expression of glycolytic enzymes as well as glucose and fatty
acid transport proteins (334 ).
B. FTZ-F1 (fushi tarazu-factor 1): steroidogenesis and sexual
development
FTZ-F1
was initially characterized as an adrenal
gland-specific factor (SF-1) able to bind to conserved AGGTCA consensus
motif in the proximal promoter regions of steroid hydroxylases
CYP11A, CYP11B2, and CYP21 genes,
suggesting that this factor was a member of the nuclear receptor
superfamily (337 ). FTZ-F1 was eventually cloned from an adrenal gland
cDNA library based on its homology to the RXRß DBD (338 ). The
FTZ-F1 gene generates several distinct isoforms through
alternative splicing and promoter usage (339 340 341 ). A second closely
related gene, FTZ-Fß, has also been identified and may be
an important regulator of the
-fetoprotein locus and the CYP7A gene
(342 343 344 ). During development, FTZ-F1
expression is first detected
at 9.0 d.p.c. in the urogenital ridge (345 ). At 1010.5 dpc,
FTZ-F1
expression is associated with the precursors of adrenal
steroidogenic tissue and gonadal steroid-producing cells. FTZ-F1
expression is also detected in the ventromedial hypothalamic nucleus
(VMH) after 11.5 d.p.c. and in the pituitary gland after 13.5
d.p.c. Pituitary FTZ-F1
expression precedes the onset of FSH
expression in gonadotropes, suggesting that FTZ-F1
might either
directly regulate FSH gene transcription or regulate gonadotrope
differentiation (346 ). In adult mice, FTZ-F1
expression is highest
in steroid-secreting cells of the adrenal gland and gonads; lower
level expression is present in the spleen and pituitary gonadotropes
(340 ). FTZ-F1
is a monomeric receptor that binds to HREs with the
consensus sequence TCAAGGTCA (see Ref. 108 ). FTZ-F1
target genes
include steroidogenic enzymes (reviewed in Ref. 337 ), Müllerian
inhibiting substance (MIS) and its receptor (347 348 ), the pituitary
glycoprotein
-subunit (349 ), the LH ß-subunit (350 ), the ACTH
receptor (351 ), the steroidogenic acute regulatory protein (StAR)
(352 353 354 ), oxytocin (355 ), and the orphan nuclear receptor DAX-1 (356 357 ), all supporting an important role for FTZ-F1
in steroid
metabolism and sexual differentiation.
FTZ-F1
usually constitutively activates gene expression, and its
activity is regulated by phosphorylation: in vitro, protein
kinase A-induced phosphorylation of FTZ-F1
reduces the receptors
DNA-binding affinity, while in vivo, FTZ-F1
phosphorylation may regulate cAMP-dependent gene induction (358 359 360 ).
In addition, phosphorylation of the AF-1 domain (located in the hinge
region) leads to increased SF-1 transcriptional activity via direct
recruitment of the coactivator GRIP-1 (361 ). These observations suggest
a way by which peptide hormones such as ACTH could regulate steroid
synthesis via ligand-independent activation of SF-1. However, recent
studies have shown that certain oxysterols, distinct from those
regulating the activity of LXR
, increase FTZ-F1
transcriptional
activity (362 ). The oxysterol 25-hydroxy-cholesterol is the most
efficacious FTZ-F1
inducer (EC50 5 µM),
while 26-hydroxy-cholesterol (EC50 5 µM),
27-hydroxy-cholesterol (EC50 5 µM), and
21-hydroxy-pregnenolone (EC50 11 µM) are less
efficient FTZ-F1
activators, and the potent LXR activator
22(R)-hydroxycholesterol does not alter FTZ-F1
activity. Although
oxysterol treatment results in increased FTZ-F1
activity