PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Raphanus raphanistrum
Species TF ID Description
RrC10331_p1MIKC_MADS family protein
RrC1094_p2MIKC_MADS family protein
RrC10995_p1MIKC_MADS family protein
RrC11168_p2MIKC_MADS family protein
RrC11244_p1MIKC_MADS family protein
RrC12193_p1MIKC_MADS family protein
RrC12761_p2MIKC_MADS family protein
RrC13077_p1MIKC_MADS family protein
RrC13197_p1MIKC_MADS family protein
RrC14020_p1MIKC_MADS family protein
RrC149_p6MIKC_MADS family protein
RrC1514_p2MIKC_MADS family protein
RrC1523_p4MIKC_MADS family protein
RrC15252_p1MIKC_MADS family protein
RrC152_p3MIKC_MADS family protein
RrC15922_p1MIKC_MADS family protein
RrC17408_p1MIKC_MADS family protein
RrC17819_p1MIKC_MADS family protein
RrC1868_p3MIKC_MADS family protein
RrC18900_p1MIKC_MADS family protein
RrC226_p3MIKC_MADS family protein
RrC2271_p1MIKC_MADS family protein
RrC2400_p1MIKC_MADS family protein
RrC2497_p2MIKC_MADS family protein
RrC2563_p1MIKC_MADS family protein
RrC25_p9MIKC_MADS family protein
RrC2703_p3MIKC_MADS family protein
RrC2764_p2MIKC_MADS family protein
RrC302_p8MIKC_MADS family protein
RrC3080_p2MIKC_MADS family protein
RrC338_p4MIKC_MADS family protein
RrC3472_p1MIKC_MADS family protein
RrC3695_p1MIKC_MADS family protein
RrC4106_p1MIKC_MADS family protein
RrC422_p2MIKC_MADS family protein
RrC426_p8MIKC_MADS family protein
RrC4407_p1MIKC_MADS family protein
RrC4693_p4MIKC_MADS family protein
RrC4938_p2MIKC_MADS family protein
RrC5251_p1MIKC_MADS family protein
RrC5342_p1MIKC_MADS family protein
RrC5510_p4MIKC_MADS family protein
RrC5740_p1MIKC_MADS family protein
RrC591_p2MIKC_MADS family protein
RrC6092_p1MIKC_MADS family protein
RrC6240_p2MIKC_MADS family protein
RrC625_p4MIKC_MADS family protein
RrC625_p5MIKC_MADS family protein
RrC6291_p2MIKC_MADS family protein
RrC6330_p1MIKC_MADS family protein
RrC646_p5MIKC_MADS family protein
RrC6965_p3MIKC_MADS family protein
RrC7281_p2MIKC_MADS family protein
RrC7683_p1MIKC_MADS family protein
RrC7897_p1MIKC_MADS family protein
RrC7998_p1MIKC_MADS family protein
RrC871_p1MIKC_MADS family protein
RrC9242_p1MIKC_MADS family protein
RrC9858_p1MIKC_MADS family protein
MIKC_MADS (MIKC-type MADS) Family Introduction

The best studied plant MADS-box transcription factors are those involved in floral organ identity determination. Analysis of homeotic floral mutants resulted in the formulation of a genetic model, named the ABC model, that explains how the combined functions of three classes of genes (A, B, and C) determine the identity of the four flower organs (reviewed by Coen and Meyerowitz, 1991). Arabidopsis has two A-class genes (AP1 and AP2 [Bowman et al., 1989]), two B-class genes (PI and AP3), and a single C-class gene (AG), of which only AP2 is not a MADS-box gene. Recently, it was shown that the Arabidopsis B- and C-function genes, which control petal, stamen, and carpel development, are functionally dependent on three highly similar MADS-box genes, SEP1, SEP2, and SEP3 (Pelaz et al., 2000). Interestingly, only when mutant knockout alleles of the three SEP genes were combined in a triple sep1 sep2 sep3 mutant was loss of petal, stamen, and carpel identity observed, resulting in a flower composed of only sepals. This example shows that redundancy occurs in the MADS-box gene family, which complicates reverse genetic strategies for gene function analysis. The SHP genes provide another example of MADS-box gene redundancy. shp1 and shp2 single mutants do not exhibit any phenotypic effect, whereas in the double mutant, development of the dehiscence zone is disturbed in the fruit, resulting in a failure to release seeds (Liljegren et al., 2000)[1].

It has been proposed that there are at least 2 lineages (type I and type II) of MADS-box genes in plants, animals, and fungi. Most of the well-studied plant genes are type II genes and have three more domains than type I genes from the N to the C terminus of the protein:intervening (I) domain (~30 codons), keratin-lik e coiled-coil (K) domain (~70 codons), and Cterminal (C) domain (variable length). These genes are called the MIKC-type and are specific to plants[2].

The MADS-box is a DNA binding domain of 58 amino acids that binds DNA at consensus recognition sequences known as CArG boxes [CC(A/T)6GG] (Hayes et al., 1988; Riechmann et al., 1996b). The interaction with DNA has been studied in detail for the human and yeast MADS-box proteins thanks to the resolved crystal structures (Pellegrini et al., 1995; Santelli and Richmond, 2000). The I domain is less conserved and contributes to the specification of dimerization. The K domain is characterized by a coiled-coil structure, which facilitates the dimerization of MADS-box proteins (Davies et al., 1996; Fan et al., 1997). The C domain is the least conserved domain; in some cases, it has been shown to contain a transactivation domain or to contribute to the formation of multimeric MADS-box protein complexes (Egea-Cortines et al., 1999; Honma and Goto, 2001)[1].

1.Parenicova L, de Folter S, Kieffer M, Horner DS, Favalli C, Busscher J, Cook HE, Ingram RM, Kater MM, Davies B, Angenent GC, Colombo L.
Molecular and phylogenetic analyses of the complete MADS-box transcription factor family in Arabidopsis: new openings to the MADS world.
Plant Cell. 2003 Jul;15(7):1538-51.
PMID: 12837945
2.Nam J, dePamphilis CW, Ma H, Nei M.
Antiquity and evolution of the MADS-box gene family controlling flower development in plants.
Mol Biol Evol. 2003 Sep;20(9):1435-47. Epub 2003 May 30.
PMID: 12777513