all-trans RA, 9-cis RA, has been shown to be the
naturally occurring, high-affinity, ligand for the
RXR. The binding of ligand to nuclear retinoid recep-
tors induces dimer formation and initiates transcrip-
tional activation of a target gene via the DNA
response element(s) in the promoter/regulatory region
of the gene. Retinoid receptors act in a dimeric con-
formation and bind to specific RA response elements
(RARE) within the 5
0
promoter/regulatory regions of
target genes. The DNA response elements are usually
a direct repeat (DR) of six nucleotides in a specific
sequence separated by a defined number of nucleotides
that vary depending on the type of DNA response
element. RAR/RXR heterodimers can activate or re-
press gene transcription, depending on the type of
RARE to which they bind in the promoter region of
a target gene. If the RAR/RXR heterodimer binds to a
DR-5 RARE, the RAR/RXR complex activates tran-
scription in response to the RAR ligand all-trans RA.
In contrast, RAR/RXR heterodimers bound to a
DR-1 RARE exhibit no response to RAR-specific
ligands and repress the response to RXR-specific
ligands such as 9-cis RA. Therefore, the RAR/RXR
heterodimer can be stimulatory, neutral, or inhibi-
tory, depending on ligand, all-trans RA or 9-cis RA,
and the DNA RARE to which it is bound. This is
partially explained by the fact that there is a specific
polarity to the binding of RAR and RXR hetero-
dimeric partners, determined by the DNA itself.
RAR/RXR heterodimers bind with the RXR occupy-
ing the upstream half-site of a DR-5 element, but this
orientation is reversed on a DR-1 element. Further
investigation of this polarity of RAR/RXR heterodi-
mer binding has shown that transactivation by RAR
bound to a DR-5 RARE involves the ligand-depend-
ent dissociation of a bound corepressor (discussed
below), but RAR bound to a DR-1 RARE does not
respond to ligand by dissociation of a bound core-
pressor. Therefore, transcription is not stimulated in
the later response. In this regard, the DNA itself
is considered an allosteric regulator of receptor–
accessory protein interaction.
0016 All of the RAR and RXR subtypes, a, b,andg, are
encoded by separate genes at distinct chromosomal
loci. However, the protein products encoded by these
genes have certain common modular structures, par-
ticularly in the DNA-binding and ligand-binding
domains, which define, in part, their membership
within the steroid/thyroid/retinoid superfamily. The
amino acid sequence of the RARs can be divided into
six regions (A–F). The amino acid sequence of
the RXR genes has a similar domain structure
to the RARs. Among the retinoid receptors, the
DNA-binding domain (C) is a highly conserved
region of approximately 70 amino acids that contains
two zinc fingers; the zinc-finger configuration is re-
sponsible for specific DNA response element recogni-
tion. According to Evans and colleagues, a sequence
of three amino acids within the first zinc finger (the P
box) determines recognition of the half-site sequence
of a DNA response element, and five amino acids in
the second zinc finger (the D box) are critical
for recognition of the spacing between half-sites.
Nuclear magnetic resonance spectroscopy of the
DNA-binding domain indicates a secondary structure
comprising three a-helices; the first helix is postulated
to fit across the major groove of the DNA response
element. In this orientation, the third helix interacts
with the minor groove of the DNA, such that Lys and
Arg residues make contact with the phosphate back-
bone and stabilize protein–DNA interactions. This
third helix in the DNA-binding domain is also
thought to mediate protein–protein interaction re-
quired for dimer formation. The ligand-binding
domain (E) is also highly conserved among the RAR
and RXR genes and mediates the ligand-dependent
transcriptional activation function. The amino-
terminal region (A) is less well conserved and is sub-
type-specific. Both regions A and B are responsible for
ligand-independent transcriptional activation. The
amino-terminal part of domain D may function as a
nuclear localization site.
0017In addition to subtype differences in RARs and
RXRs, there are also different mRNA isoforms for
each gene. These isoforms are generated by different
transcription start sites and alternative splicing,
which affects the 5
0
untranslated region (UTR) and
the A domain such that either a deleted or altered A
region is combined with a common B–F region.
0018The biological activity of vitamin A metabolites is
further extended by the interaction of the retinoid
receptors with other members of the receptor super-
family. The RXRs serve as heterodimeric partners
with RARs, thyroid hormone receptors (TR), and
the vitamin D receptors (VDR) and have been
shown to increase the affinity of RAR, VDR, and
TR, for their respective response elements (favored
DR motifs DR-2/DR-5, DR-3, and DR-4, respect-
ively), and to activate transcription in the presence
of the appropriate ligand. This indicates a central role
for the RXR as a heterodimeric partner with the other
nuclear receptors of this superfamily. Interestingly,
only one ligand is required to stimulate the hetero-
dimeric complex and affect transcriptional acti-
vation. However, the RXR is unique in that it can
function as a homodimer. In this capacity, it can
stimulate gene transcription favoring the DR-1 hor-
mone response element and is dependent upon the
9-cis RA ligand. The RXR also forms a heterodimeric
complex with the peroxisome proliferator-activated
4962 RETINOL/Physiology