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Nucleic Acids Research, 1992, Vol. 20, No. 11 2861-2864
© 1992

MOLECULAR BIOLOGY

RNP-1, an RNA-binding motif is conserved in the DNA-binding cold shock domain

David Landsman

National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health Building 38A, Room 8N-807, Bethesda, MD 20894, USA

Received January 17, 1992. Revised April 30, 1992. Accepted April 30, 1992.

Sequence analysis has shown that there is a short motif of 8 amino acids, corresponding to the RNP-1 motif found in canonical RNA-binding domains, which is common to two families of apparently unrelated proteins. Many RNA-binding proteins contain the RNP-1 and RNP-2 motifs in an RNA-binding domain. The cold shock domain (CSD) family of proteins, which includes several transcription factors which have been shown to bind to DNA, has now been identified to contain a motif similar to RNP-1. A non-redundant protein sequence database was searched with regular expressions and with a weight/residue position matrix of the RNP-1 motif resulting in the identification of numerous known members of the RNA-binding family of proteins. In addition, the search identified that the CSD-containing family of proteins includes a motif which is almost identical to the RNP-1 motif. A determination of the statistical significance of this analysis showed that the RNP-1 motifs from these two families of proteins are indeed similar.


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