Plant Transcription factor database - Universität Potsdam
version: 3.0

Oryza sativa subsp. indica 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 12 gene models in this family

Gene modelDescriptionDomains
OsIBCD000892 Chr01_1310,2826,,,1,2826, PB1 RWP-RK
OsIBCD000962 Chr01_1408,1134,,,1,1134, RWP-RK
OsIBCD002242 Chr01_3572,1272,,,1,1272, RWP-RK
OsIBCD004986 Chr02_369,2160,,,1,2160, PB1 RWP-RK
OsIBCD007954 Chr02_5102,699,,,1,699, RWP-RK
OsIBCD008743 Chr03_289,2850,,,1,2850, PB1 RWP-RK
OsIBCD014837 Chr04_3507,3183,,,1,3183, PB1 RWP-RK
OsIBCD015266 Chr04_4122,1077,,,1,1077, RWP-RK
OsIBCD019907 Chr06_1214,2433,,,1,2433, PPR RWP-RK
OsIBCD028711 Chr09_2223,1020,,,1,1020, RWP-RK
OsIBCD029309 Chr09_3128,2529,,,1,2529, PB1 RWP-RK
OsIBCD032354 Chr11_1200,2847,,,1,2847, 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