Using the lactoperoxidase-catalyzed iodination system as a probe for exposed proteins, the location of ribosomal proteins on 50-S subunits of Escherichia coli was examined. These studies demonstrated that a t least three of the proteins in the 50-S ribosome are iodinated and may be termed exposed proteins. Most of the proteins, on the other hand, are not iodinated and can be classified as buried or partially buried proteins. Unfolding of the 50-5 ribosome by the removal of Mg2+ resulted in a decreased organization of the ribosome structure and allowed all the proteins except one to be iodinated.The Escherichia coli 50-5 subunit is composed of approximately 34 distinct proteins [l]. The studies of Traut et al. [I] have suggested that, except for two of these proteins, the remaining exist in one copy per ribosome. A question which remains unresolved is the arrangement of these proteins within the subunit structure. Specifically, in the present study the topography of the 50-S subunit has been investigated to establish which proteins are buried and which are exposed or on the surface of the ribosome. To answer this question, advantage has been taken of the lactoperoxidase-catalyzed halogenation system which, under the conditions employed, is a macromolecular probe for exposed proteins in organized macromolecular systems [Z].
MATERIALS AND METHODSThe methionine and arginine-required mutant of E. coli strain K711 (RCrel) was used throughout these studies. The bacteria were grown at 37 "C with shaking in minimal media [3] supplemented with I1 mM glycerol 0.33 mM L-methionine and 0.24mM L-arginine. Bacteria were grown to an absorbance a t 575 nm of 0.1 and incubated for three generations in the presence of tritiated tyrosine to label all proteins uniformly with tritium. The 30-S and 50-S ribosomal subunits were isolated as previously described [4]. The cells, collected by centrifugation, were washed with 10 mM Tris-HC1,6 mM 2-mercaptoethanol, 30nM ammonium chloride buffer pH 7.4, supplemented with 10 nM magnesium acetate and resuspended in 3 ml of Tris-mercaptoethanol-NH4ClEnzymes. Lactoperoxidase (EC 1.11.1.-).32 Eur. J. Uiochem., Vo1.33 buffer plus 1OmM Mg2+. Cells were broken in a French pressure cell a t 6000 to 8000 lb/in2 and the debris removed as previously described [4]. The ribosomes were pursed as outlined earlier [4]. To fractionate monosomes into subunits, approximately 125 Azao units (one A,,, unit is equal t o an absorbance of I a t 260 nm in a cuvette of light path 1 cm) were layered on 27 ml of a linear 5 to ZOO/, sucrose gradient in Tris-mercaptoethanol-NH4Cl buffer plus 10 mM Mg2+ and centrifuged a t 21500 rev./& for 10 h in an SW 25.1 rotor. Gradients were collected through an ISCO ultraviolet Monitor (Instruments Specialties Company) and the peaks corresponding to 30-S and 50-S ribosomal subunits collected. The 50-S fraction was placed in a length of dialysis tubing and concentrated by packing the tubing in fine granular sucrose. The concentrated sample was dialyzed against 50 mM Tris-acetate, 10 m...