The NMR average structure of TAR RNA complex with arginine amide was obtained from the Protein Data Bank, access code 1arj. Only the nucleic acid chain is presented.

• Nucleotides highlighted in red represent high-affinity binding sites for AAC and Tat peptide. Binding of AAC to this site is not inhibited by excess tRNA.
• Nucleotides highlighted in blue represent low-affinity binding sites for AAC and aminoglycosides (e.g., neomycin B). Binding of AAC to this site is inhibited by a 10-fold excess of tRNA.
• Nucleotides highlighted in yellow represent sites of major conformational changes induced by AAC binding to TAR. These positions are cleaved by RNase A in the TAR-AAC complex, but are not cleaved in the absence of AAC.
• Small green balls represent proposed Mg²⁺ and Ca²⁺ binding sites.
• The big yellow ball represents the UO₂ ²⁺ binding site.

This file was last modified on Monday, 25-Dec-2000 16:50:43 IST.