[Family of ribosomal proteins S1 contains unique conservative domain].
Different representatives of bacteria have different number of amino acid residues in the ribosomal proteins S1. This number varies from 111 (Spiroplasma kunkelii) to 863 a.a. (Treponema pallidum). Traditionally and for lack of this protein three-dimensional structure, its architecture is represented as repeating S1 domains. Number of these domains depends on the protein's length. Domain's quantity and its boundaries data are contained in the specialized databases, such as SMART, Pfam and PROSITE. However, for the same object these data may be very different. For search of domain's quantity and its boundaries, new approach, based on the analysis of dicted secondary structure (PsiPred), was used. This approach allowed us to reveal structural domains in amino acid sequences of S1 proteins and at that number varied from one to six. Alignment of S1 proteins, containing different domain's number, with the S1 RNAbinding domain of Escherichia coli PNPase elicited a fact that in family of ribosomal proteins SI one domain has maximal homology with S1 domain from PNPase. This conservative domain migrates along polypeptide chain and locates in proteins, containing different domain's number, according to specified pattern. In this domain as well in the S1 domain from PNPase, residues Phe-19, Phe-22, His-34, Asp-64 and Arg-68 are clustered on the surface and formed RNA binding site.
Deriusheva
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EI
Machulin
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Selivanova
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Serdiuk
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IN
D001426:Bacterial Proteins / Q000737:chemistry* / Q000235:genetics; D030562:Databases, Protein; D004926:Escherichia coli / Q000737:chemistry / Q000235:genetics; D017434:Protein Structure, Tertiary; D012269:Ribosomal Proteins / Q000737:chemistry* / Q000235:genetics; D013149:Spiroplasma / Q000737:chemistry* / Q000235:genetics; D014210:Treponema pallidum / Q000737:chemistry* / Q000235:genetics
D001426:Bacterial Proteins; D012269:Ribosomal Proteins