Nuclease escape elements protect messenger RNA against cleavage by multiple viral endonucleases

Mandy Muller; Britt A. Glaunsinger

lysates were subjected to western blotting to measure protein levels of GADD45B, the 842 KSHV proteins K8.1 and ORF59, and GAPDH (as a loading control). 843 844 Figure S3 : Clustal W alignment of IL-6 SRE and GADD45B 3'UTR. 845 846 Figure S4 : In-line probing of the IL-6 (left) and GADD45B (right) predicted stem-loop. 32 P-847 labeled RNA (NR, no reaction) and products resulting from partial digestion with nuclease 848 T1 (T1; cuts after G residues), partial digestion with alkali (-OH), and spontaneous cleavage 849 during a 24h incubation are shown. Product bands corresponding to G residues (generated 850 by T1 digestion) are labeled with black arrows. Predicted paired or unpaired residues are 851 marked on the right of each gel and are shown on the RNA fold diagrams. 852 853 Figure S5 : Network representation of the full set of proteins identified by ChIRP-MS for 854 either the IL-6 or GADD45B 3'UTR. Purple nodes represent proteins that were previously 855 identified using an in vitro pulldown/MS-based assay [27] . 856 857 858 Table S1 : List of proteins identified by ChIRP-MS. Proteins in bold were in common 859 between the IL-6 and GADD45B 3' UTR datasets. Background proteins found in the control 860