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PROSITE documentation PDOC50126 |
The S1 domain of around 70 amino acids, originally identified in ribosomal protein S1, is found in a large number of RNA-associated proteins. It has been shown that S1 proteins bind RNA through their S1 domains with some degree of sequence specificity [1,2].
The solution structure of one S1 RNA-binding domain from Escherichia coli polynucleotide phosphorylase has been determined [3]. It displays some similarity with the cold shock domain (CSD) (see <PDOC00304>). Both the S1 and the CSD domain consist of an antiparallel β barrel of the same topology with 5 β strands. This fold is also shared by many other proteins of unrelated function and is known as the OB fold [4]. However, the S1 and CSD fold can be distinguished from the other OB folds by the presence of a short 3(10) helix at the end of strand 3. This unique feature is likely to form a part of the DNA/RNA-binding site [3].
Some of the proteins in which an S1 domain is found are listed below.
To identify S1 domains we developed 2 profiles, one is specific for bacterial, chloroplastic and eukaryotic IF-1 proteins. The other recognize all other S1 domains. Both profiles cover the whole domain.
Last update:December 2001 / First entry.
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PROSITE methods (with tools and information) covered by this documentation:
1 | Authors | Boni I.V. Isaeva D.M. Musychenko M.L. Tzareva N.V. |
Title | Ribosome-messenger recognition: mRNA target sites for ribosomal protein S1. | |
Source | Nucleic Acids Res. 19:155-162(1991). | |
PubMed ID | 2011495 |
2 | Authors | Ringquist S. Jones T. Snyder E.E. Gibson T. Boni I. Gold L. |
Title | High-affinity RNA ligands to Escherichia coli ribosomes and ribosomal protein S1: comparison of natural and unnatural binding sites. | |
Source | Biochemistry 34:3640-3648(1995). | |
PubMed ID | 7534475 |
3 | Authors | Bycroft M. Hubbard T.J. Proctor M. Freund S.M. Murzin A.G. |
Title | The solution structure of the S1 RNA binding domain: a member of an ancient nucleic acid-binding fold. | |
Source | Cell 88:235-242(1997). | |
PubMed ID | 9008164 |
4 | Authors | Murzin A.G. |
Title | OB(oligonucleotide/oligosaccharide binding)-fold: common structural and functional solution for non-homologous sequences. | |
Source | EMBO J. 12:861-867(1993). | |
PubMed ID | 8458342 |