{PDOC00302}
{PS00350; MADS_BOX_1}
{PS50066; MADS_BOX_2}
{BEGIN}
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* MADS-box domain signature and profile *
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A number of transcription factors  contain a conserved domain of 56 amino-acid
residues, sometimes known as the MADS-box domain. They are listed below:

 - Serum  response  factor  (SRF)  [1],  a mammalian transcription factor that
   binds to the Serum Response Element (SRE). This is a short sequence of dyad
   symmetry located 300 bp  to the 5' end of the transcription initiation site
   of genes such as c-fos.
 - Mammalian  myocyte-specific  enhancer  factors  2A  to 2D (MEF2A to MEF2D).
   These proteins  are  transcription  factor  which binds specifically to the
   MEF2 element  present  in  the  regulatory  regions of many muscle-specific
   genes.
 - Drosophila myocyte-specific enhancer factor 2 (MEF2).
 - Yeast  GRM/PRTF  protein  (gene  MCM1) [2], a  transcriptional regulator of
   mating-type-specific genes.
 - Yeast arginine metabolism regulation protein I (gene ARGR1 or ARG80).
 - Yeast transcription factor RLM1.
 - Yeast transcription factor SMP1.
 - Arabidopsis thaliana  agamous  protein (AG) [3],  a  probable transcription
   factor  involved  in  regulating  genes  that  determines stamen and carpel
   development in wild-type flowers.   Mutations in  the AG gene result in the
   replacement of the stamens by petals and the carpels by a new flower.
 - Arabidopsis  thaliana  homeotic proteins Apetala1 (AP1), Apetala3 (AP3) and
   Pistillata (PI)  which  act  locally  to specify the identity of the floral
   meristem and to determine sepal and petal development [4].
 - Antirrhinum majus and tobacco homeotic protein deficiens (DEFA) and globosa
   (GLO) [5].  Both proteins are transcription factors involved in the genetic
   control of  flower  development.    Mutations  in  DEFA  or  GLO  cause the
   transformation of petals into sepals and of stamina into carpels.
 - Arabidopsis thaliana putative transcription factors AGL1 to AGL6 [6].
 - Antirrhinum majus morphogenetic protein DEF H33 (squamosa).

In SRF, the conserved domain has been shown [1] to  be involved in DNA-binding
and dimerization.  We have derived a pattern that spans the complete length of
the domain. The profile also spans the length of the MADS-box.

-Consensus pattern: [RGS]-x-[RKS]-x(5)-[IL]-x-[DNGSK]-x(3)-[KR]-x(2)-T-[FY]-x-
                    [RK](3)-x(2)-[LIVM]-x-[KE]-K-[AT]-x-[EQ]-[LIVM]-[STA]-x-L-
                    x(4)-[LIVM]-x-[LIVM]-[LIVMT]-[LIVM]-x(6)-[LIVMFC]-x(2)-
                    [FYLS]
-Sequences known to belong to this class detected by the pattern: ALL.
-Other sequence(s) detected in Swiss-Prot: NONE.

-Sequences known to belong to this class detected by the profile: ALL.
-Other sequence(s) detected in Swiss-Prot: NONE.

-Last update: April 2006 / Pattern revised.

[ 1] Norman C., Runswick M., Pollock R., Treisman R.
     "Isolation and properties of cDNA clones encoding SRF, a transcription
     factor that binds to the c-fos serum response element."
     Cell 55:989-1003(1988).
     PubMed=3203386
[ 2] Passmore S., Maine G.T., Elble R., Christ C., Tye B.-K.
     "Saccharomyces cerevisiae protein involved in plasmid maintenance is
     necessary for mating of MAT alpha cells."
     J. Mol. Biol. 204:593-606(1988).
     PubMed=3066908
[ 3] Yanofsky M.F., Ma H., Bowman J.L., Drews G.N., Feldmann K.A.,
     Meyerowitz E.M.
     "The protein encoded by the Arabidopsis homeotic gene agamous
     resembles transcription factors."
     Nature 346:35-39(1990).
     PubMed=1973265; DOI=10.1038/346035a0
[ 4] Goto K., Meyerowitz E.M.
     "Function and regulation of the Arabidopsis floral homeotic gene
     PISTILLATA."
     Genes Dev. 8:1548-1560(1994).
     PubMed=7958839
[ 5] Troebner W., Ramirez L., Motte P., Hue I., Huijser P., Loennig W.-E.,
     Saedler H., Sommer H., Schwartz-Sommer Z.
     EMBO J. 11:4693-4704(1992).
[ 6] Ma H., Yanofsky M.F., Meyerowitz E.M.
     "AGL1-AGL6, an Arabidopsis gene family with similarity to floral
     homeotic and transcription factor genes."
     Genes Dev. 5:484-495(1991).
     PubMed=1672119

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