PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Chlorella variabilis NC64A
SBP Family
Species TF ID Description
estExt_fgenesh3_pg.C_130036SBP family protein
estExt_fgenesh3_pg.C_130070SBP family protein
estExt_fgenesh3_pg.C_300018SBP family protein
estExt_fgenesh3_pg.C_40020SBP family protein
estExt_Genewise1Plus.C_380072SBP family protein
e_gw1.2.707.1SBP family protein
e_gw1.25.168.1SBP family protein
e_gw1.34.51.1SBP family protein
fgenesh3_pg.C_scaffold_17000101SBP family protein
fgenesh3_pg.C_scaffold_2000108SBP family protein
fgenesh3_pg.C_scaffold_25000062SBP family protein
fgenesh3_pg.C_scaffold_6000074SBP family protein
fgenesh3_pg.C_scaffold_9000137SBP family protein
gw1.9.419.1SBP family protein
gw1.9.427.1SBP family protein
IGS.gm_10_00046SBP family protein
IGS.gm_13_00158SBP family protein
IGS.gm_13_00253SBP family protein
IGS.gm_16_00040SBP family protein
IGS.gm_17_00054SBP family protein
IGS.gm_17_00084SBP family protein
IGS.gm_17_00096SBP family protein
IGS.gm_17_00097SBP family protein
IGS.gm_1_00776SBP family protein
IGS.gm_1_00779SBP family protein
IGS.gm_21_00140SBP family protein
IGS.gm_22_00154SBP family protein
IGS.gm_27_00028SBP family protein
IGS.gm_28_00045SBP family protein
IGS.gm_28_00074SBP family protein
IGS.gm_30_00030SBP family protein
IGS.gm_32_00096SBP family protein
IGS.gm_32_00112SBP family protein
IGS.gm_6_00065SBP family protein
IGS.gm_8_00029SBP family protein
IGS.gm_9_00430SBP family protein
SBP Family Introduction

SQUAMOSA promoter binding proteins (SBPs) form a major family of plant-specific transcription factors related to flower development. Although SBPs are heterogeneous in primary structure, they share a highly conserved DNA-binding domain (DBD) that has been suggested to be zinc binding. Here we report the NMR solution structures of DBDs of two SBPs of Arabidopsis thaliana, SPL4 and SPL7. The two share essentially the same structural features. Each structure contains two zinc-binding sites consisting of eight Cys or His residues in a Cys3HisCys2HisCys or Cys6HisCys sequence motif in which the first four residues coordinate to one zinc and the last four coordinate to the other. These structures are dissimilar to other known zinc-binding structures, and thus represent a novel type of zinc-binding motif. The electrostatic profile on the surface suggested that a continuous region, including all the conserved basic residues, is involved in the DNA binding, the mode of which is likely to be novel as well.

Yamasaki 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.
A novel zinc-binding motif revealed by solution structures of DNA-binding domains of Arabidopsis SBP-family transcription factors
J Mol Biol. 2004 Mar 12;337(1):49-63.
PMID: 15001351

SBP-box genes were first characterized as SQUAMOSA promoter binding proteins (SBPs) to regulate the expression of MADS-box genes in early flower development of A. majus (Klein et al., 1996). Since then, SBP-box genes have been identified in many plants including green alga, moss, silver birch, A. majus, Arabidopsis and maize. They play critical roles in regulating flower and fruit development as well as other physiological processes ([Moreno et al., 1997],[Eriksson et al., 2004], [Lannenpaa et al., 2004], [Arazi et al., 2005] and [Kropat et al., 2005]). It has been reported that Arabidopsis SPL3, SPL8 and SPL14 involves in flowering, sporogenesis, GA signaling and toxin resistance ([Cardon et al., 1997], [Unte et al., 2003], [Stone et al., 2005] and [Zhang et al., 2006]) while maize tga1 and tomato LeSPL-CNR affect fruit development ([Wang et al., 2005a] and [Manning et al., 2006]).

SBP-box genes encode proteins sharing a conserved DNA-binding domain of 79 amino acid residues. It has been proved that the DNA-binding domain of SBP-box genes is necessary and sufficient to bind to a palindromic GTAC core motif ([Klein et al., 1996], [Cardon et al., 1997], [Cardon et al., 1999], [Lannenpaa et al., 2004] and [Birkenbihl et al., 2005]). Studies on the NMR solution structure of the fragment of Arabidopsis SPL4 and SPL7 revealed that the DNA-binding domain of SBPs consisted of two separate zinc-binding sites. One zinc finger is C3H or C4 and the other is C2HC (Yamasaki et al., 2004 K. Yamasaki et al.,).

Guo AY, Zhu QH, Gu X, Ge S, Yang J, Luo J.
Genome-wide identification and evolutionary analysis of the plant specific SBP-box transcription factor family.
Gene. 2008 Jul 15;418(1-2):1-8.
PMID: 18495384