Mapped base methylated nucleotides of S. cervisiae 25S rRNA and equivalent nucleotides in Haloarcula marismortui and E. coli.

^a sites from Maden, 1990 and Bakin, Lane, and Ofengand, 1994.

^b numbering in PDB entry 1JJ2. Asterisks indicate the corresponding nucleotides not visible in the crystal structure of the large subunit H. marismortui at 2.4 angstroms (Klein, et al., 2001; Ban, et al., 2000).

^c numbering and modified nucleotides according to Genbank entry J01695, annotated at the Gutell lab Comparative RNA website (www.rna.icmb.utexas.edu) (Cannone, et al., 2002).

^d Cannone, J. J., S. Subramanian, M. N. Schnare, J. R. Collett, L. M. D'Souza, Y. Du, B. Feng, N. Lin, L. V. Madabusi, K. M. Muller, N. Pande, Z. Shang, N. Yu, and R. R. Gutell et al., 2002.

^e Numbering according to Ofengand and Bakin, 1997 J. Mol. Biol. 266:246-268 ; Gutell et al., 1993 NAR 21:3055-3074.

^f Noted as preliminary in Bakin, Lane, and Ofengand, 1994.

^g Noted as preliminary in Bakin, Lane, and Ofengand, 1994. Lapeyre and Purushothoman, 2004 presents data that supports the presence of this modification although in earlier drafts they noted "this modified nucleotide is not present in stoichiometric amount when compared to other modified nucleotides of the A-loop."

Mapped base methylated nucleotides of S. cervisiae 18S rRNA and equivalent nucleotides in Haloarcula marismortui and E. coli.

^aSites according to Maden, 1990; Bakin and Ofengand, 1995; Ofengand, J., and M. J. Fournier. 1998. The pseudouridine residues of ribosomal RNA: number, location, biosynthesis, and function. In H. Grosjean and R. Benne (ed.), Modification and Editing of RNA: the Alteration of RNA Structure and Function. ASM Press.

^bE. coli numbering according to Genbank entry J01695, annotated at the Gutell lab Comparative RNA website. (Cannone, et al., 2002).

^cSequence from Johnston, M., L. Hillier, L. Riles, K. Albermann, B. Andre, W. Ansorge, V. Benes, M. Bruckner, H. Delius, E. Dubois, A. Dusterhoft, K. D. Entian, M. Floeth, A. Goffeau, U. Hebling, K. Heumann, D. Heuss-Neitzel, H. Hilbert, F. Hilger, K. Kleine, P. Kotter, E. J. Louis, F. Messenguy, H. W. Mewes, J. D. Hoheisel, and et al. 1997. accessible at the Saccharomyces Genome Database (Issel-Tarver, L., K. R. Christie, K. Dolinski, R. Andrada, R. Balakrishnan, C. A. Ball, G. Binkley, S. Dong, S. S. Dwight, D. G. Fisk, M. Harris, M. Schroeder, A. Sethuraman, K. Tse, S. Weng, D. Botstein, and J. M. Cherry. 2002.), secondary structure annotated at the Gutell lab Comparative RNA website (Cannone, J. J., S. Subramanian, M. N. Schnare, J. R. Collett, L. M. D'Souza, Y. Du, B. Feng, N. Lin, L. V. Madabusi, K. M. Muller, N. Pande, Z. Shang, N. Yu, and R. R. Gutell et al., 2002.)

^dnumbering according to Bakin and Ofengand, 1995 NAR 23:3290-3294.