October 08, 2010
Volume 285Issue 41p31087-31906, e99972-e99973
Open Access
On The Cover: The image shows a predictive consensus tertiary RNA structure for the human APP IRE
based on the two equally probable secondary structures reported. The structure was
generated using the Assemble software (an interactive graphical tool to analyze and
build RNA architectures at the two-dimensional and three-dimensional levels) by Jossinet
et al. (Jossinet, F., Ludwig, T. E., and Westhof, E. (2010) Bioinformatics, doi: 10.1093/bioinformatics/btq321), which referenced established RNA constructs
for complex tertiary motifs. An RNA sequence structure from a 70 S ribosome (Protein
Data Bank (PDB) entry 1VOR:B 1133–1141) was used as a custom motif model for the AGA
apical loop (shown in yellow), accounting for the transient G-C interactions around the 3-nucleotide core. The
1–5 G-bend was predicted using an analogous internal RNA loop from a ribosomal protein
L1-mRNA complex (PDB entry 2HW8:B 7–12, 21–30), which also lacked significant internal
interactions. The G-C helices were predicted by Assemble (red helices in the image), as were the G-bulges. The image was generated by Sohan Mikkilineni,
MIT. For details see the article by Cho et al., pages 31217–31232....Show more
On The Cover: The image shows a predictive consensus tertiary RNA structure for the human APP IRE
based on the two equally probable secondary structures reported. The structure was
generated using the Assemble software (an interactive graphical tool to analyze and
build RNA architectures at the two-dimensional and three-dimensional levels) by Jossinet
et al. (Jossinet, F., Ludwig, T. E., and Westhof, E. (2010) Bioinformatics, doi: 10.1093/bioinformatics/btq321), which referenced established RNA constructs
for complex tertiary motifs. An RNA sequence structure from a 70 S ribosome (Protein
Data Bank (PDB) entry 1VOR:B 1133–1141) was used as a custom motif model for the AGA
apical loop (shown in yellow), accounting for the transient G-C interactions around the 3-nucleotide core. The
1–5 G-bend was predicted using an analogous internal RNA loop from a ribosomal protein
L1-mRNA complex (PDB entry 2HW8:B 7–12, 21–30), which also lacked significant internal
interactions. The G-C helices were predicted by Assemble (red helices in the image), as were the G-bulges. The image was generated by Sohan Mikkilineni,
MIT. For details see the article by Cho et al., pages 31217–31232.
