Plant Transcription factor database - Universität Potsdam
version: 3.0

Populus trichocarpa RWP-RK Family

Description

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:

References

There are 18 gene models in this family



Gene modelDescriptionDomains
199748 gw1.IX.213.1 PB1 RWP-RK
199753 gw1.IX.218.1 PB1 RWP-RK
206707 gw1.V.2108.1 PB1 RWP-RK
216379 gw1.VII.684.1 PB1 RWP-RK
292822 gw1.64.474.1 PB1 RWP-RK
293904 gw1.66.577.1 PB1 RWP-RK
295617 gw1.744.1.1 PB1 RWP-RK
413996 gw1.III.1099.1 PB1 RWP-RK
551239 eugene3.00020554 RWP-RK
576230 eugene3.00160365 PB1 RWP-RK
751173 fgenesh4_pg.C_LG_I000776 PB1 RWP-RK
760356 fgenesh4_pg.C_LG_V000408 RWP-RK
763202 fgenesh4_pg.C_LG_VI001512 RWP-RK
767702 fgenesh4_pg.C_LG_IX000753 PB1 RWP-RK
772444 fgenesh4_pg.C_LG_XII000219 RWP-RK
775684 fgenesh4_pg.C_LG_XV000112 RWP-RK
798353 fgenesh4_pm.C_LG_II000042 PB1 RWP-RK
803976 fgenesh4_pm.C_LG_IX000023 PB1 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