{PDOC00303}
{PS00351; TFIID}
{BEGIN}
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* Transcription factor TFIID repeat signature *
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Transcription factor TFIID  (or TATA-binding protein, TBP) [1,2] is a  general
factor  that  plays  a  major  role  in  the  activation  of  eukaryotic genes
transcribed by RNA polymerase II.   TFIID binds specifically  to  the TATA box
promoter element which lies close to the position of transcription initiation.

There is a remarkable degree of sequence  conservation of  a C-terminal domain
of about 180 residues in TFIID from various eukaryotic sources. This region is
necessary and sufficient for TATA box binding. The most significant structural
feature of this domain is the presence of two conserved repeats of a 77 amino-
acid region. The intramolecular symmetry  generates a saddle-shaped  structure
that sits astride the DNA [3].

Drosophila TRF (TBP-related factor) [4] is  a  sequence-specific transcription
factor that also binds to the TATA box and is highly similar to TFIID.

Archaebacteria also possess a TBP homolog [5].

We have derived a signature pattern  that  spans  the  last 50 residues of the
repeated region.

-Consensus pattern: Y-x-[PK]-x(2)-[IF]-x(2)-[LIVM](2)-x-[KRH]-x(3)-P-[RKQ]-
                    x(3)-L-[LIVM]-F-x-[STN]-G-[KR]-[LIVMA]-x(3)-G-[TAGL]-[KR]-
                    x(7)-[AGCS]-x(7)-[LIVMF]
-Sequences known to belong to this class detected by the pattern: ALL.
-Other sequence(s) detected in Swiss-Prot: NONE.
-Last update: December 2004 / Pattern and text revised.

[ 1] Hoffmann A., Sinn E., Yamamoto T., Wang J., Roy A., Horikoshi M.,
     Roeder R.G.
     Nature 346:387-390(1990).
[ 2] Gash A., Hoffmann A., Horikoshi M., Roeder R.G., Chua N.-H.
     Nature 346:390-394(1990).
[ 3] Nikolov D.B., Hu S.-H., Lin J., Gasch A., Hoffmann A., Horikoshi M.,
     Chua N.-H., Roeder R.G., Burley S.K.
     "Crystal structure of TFIID TATA-box binding protein."
     Nature 360:40-46(1992).
     PubMed=1436073; DOI=10.1038/360040a0
[ 4] Crowley T.E., Hoey T., Liu J.-K., Jan Y.N., Jan L.Y., Tjian R.
     "A new factor related to TATA-binding protein has highly restricted
     expression patterns in Drosophila."
     Nature 361:557-561(1993).
     PubMed=8429912; DOI=10.1038/361557a0
[ 5] Marsh T.L., Reich C.I., Whitelock R.B., Olsen G.J.
     "Transcription factor IID in the Archaea: sequences in the
     Thermococcus celer genome would encode a product closely related to
     the TATA-binding protein of eukaryotes."
     Proc. Natl. Acad. Sci. U.S.A. 91:4180-4184(1994).
     PubMed=8183889

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