Home  |  Contact
PROSITE documentation PDOC51141 [for PROSITE entry PS51141]

Zinc finger SBP-type profile





Description

SQUAMOSA promoter binding proteins (SBPs) form a major family of plant-specific transcription factors related to flower development. They share a highly conserved DNA-binding domain that contains two zinc-binding sites. Among the 11 possible ligands for the zinc atoms that are conserved in the SBP zinc finger, only 8 are used. The SBP zinc finger follows the general pattern C-x4-C-x16-C-x2-[HC]-x15-C-x2-C-x3-H-x11-C. Three other histidines are well conserved but not involved in zinc binding [1,2].

In vitro experiments show that the SBP zinc finger preferentially binds the consensus sequence -TNCGTACAA- [3]. However, little is known of the physiological functions of these putative transcriptional regulators beyond their ability to bind DNA.

The solution structure of the SBP zinc finger has been solved (see <PDB:1UL4>) [2]. The first four Cys or His coordinate one zinc ion and the last four coordinate the other. It can be viewed as two structural subdomains, each subdomain containing a single zinc-binding pocket. The N-terminal subdomain consists of two short α helices whereas the C-terminal one contains a three-stranded antiparallel β-sheet.

Last update:

July 2005 / First entry.

-------------------------------------------------------------------------------

Technical section

PROSITE method (with tools and information) covered by this documentation:

ZF_SBP, PS51141; Zinc finger SBP-type profile  (MATRIX)


References

1AuthorsKlein J. Saedler H. Huijser P.
TitleA new family of DNA binding proteins includes putative transcriptional regulators of the Antirrhinum majus floral meristem identity gene SQUAMOSA.
SourceMol. Gen. Genet. 250:7-16(1996).
PubMed ID8569690

2AuthorsYamasaki K. Kigawa T. Inoue M. Tateno M. Yamasaki T. Yabuki T. Aoki M. Seki E. Matsuda T. Nunokawa E. Ishizuka Y. Terada T. Shirouzu M. Osanai T. Tanaka A. Seki M. Shinozaki K. Yokoyama S.
TitleA novel zinc-binding motif revealed by solution structures of DNA-binding domains of Arabidopsis SBP-family transcription factors.
SourceJ. Mol. Biol. 337:49-63(2004).
PubMed ID15001351
DOI10.1016/j.jmb.2004.01.015

3AuthorsCardon G. Hohmann S. Klein J. Nettesheim K. Saedler H. Huijser P.
TitleMolecular characterisation of the Arabidopsis SBP-box genes.
SourceGene 237:91-104(1999).
PubMed ID10524240



PROSITE is copyrighted by the SIB Swiss Institute of Bioinformatics and distributed under the Creative Commons Attribution-NonCommercial-NoDerivatives (CC BY-NC-ND 4.0) License, see prosite_license.html.

Miscellaneous

View entry in original PROSITE document format
View entry in raw text format (no links)