Plant Transcription factor database - Universität Potsdam
version: 3.0

Arabidopsis lyrata RWP-RK Family


Schauser et al. 2005: Genetic studies in Lotus japonicus and pea have identified Nin as a core symbiotic gene required for establishing symbiosis between legumes and nitrogen fixing bacteria collectively called Rhizobium. Sequencing of additional Lotus cDNAs combined with analysis of genome sequences from Arabidopsis and rice reveals that Nin homologues in all three species constitute small gene families. In total, the Arabidopsis and rice genomes encode nine and three NIN-like proteins (NLPs), respectively. We present here a bioinformatics analysis and prediction of NLP evolution. On a genome scale we show that in Arabidopsis, this family has evolved through segmental duplication rather than through tandem amplification. Alignment of all predicted NLP protein sequences shows a composition with six conserved modules. In addition, Lotus and pea NLPs contain segments that might characterize NIN proteins of legumes and be of importance for their function in symbiosis. The most conserved region in NLPs, the RWP-RK domain, has secondary structure predictions consistent with DNA binding properties. This motif is shared by several other small proteins in both Arabidopsis and rice. In rice, the RWP-RK domain sequences have diversified significantly more than in Arabidopsis. Database searches reveal that, apart from its presence in Arabidopsis and rice, the motif is also found in the algae Chlamydomonas and in the slime mold Dictyostelium discoideum. Thus, the origin of this putative DNA binding region seems to predate the fungus-plant divide.

Members of this family
  SHOULD possess RWP-RK domain

Domain alignments

This family is also present in:


There are 16 gene models in this family

Gene modelDescriptionDomains
331662 fgenesh1_pm.C_scaffold_8001005 RWP-RK
338787 fgenesh1_pg.C_scaffold_2000886 RWP-RK
339639 fgenesh1_pg.C_scaffold_2001738 RWP-RK
352841 fgenesh1_pg.C_scaffold_7000014 PB1 RWP-RK
358861 fgenesh1_pg.C_scaffold_8002648 RWP-RK
472103 fgenesh2_kg.1__2057__AT1G18790.1 RWP-RK
472297 fgenesh2_kg.1__2251__AT1G20640.2 PB1 RWP-RK
474894 fgenesh2_kg.2__24__AT1G64530.1 PB1 RWP-RK
476788 fgenesh2_kg.2__1918__AT1G76350.1 PB1 RWP-RK
483462 fgenesh2_kg.4__2522__AT2G43500.1 PB1 RWP-RK
491087 fgenesh2_kg.7__520__AT4G35590.1 RWP-RK
491122 fgenesh2_kg.7__555__AT4G35270.1 PB1 RWP-RK
492460 fgenesh2_kg.7__1893__AT4G24020.1 PB1 RWP-RK
867401 Al_scaffold_0005_2880 PB1 RWP-RK
875028 Al_scaffold_0003_3669 PB1 RWP-RK
920151 scaffold_103100001.1 RWP-RK

General references

Schauser, L; Roussis, A; Stiller, J; Stougaard, J. 1999. A plant regulator controlling development of symbiotic root nodules. Nature 402(6758):191-5 PUBMEDID:10647012