It's about time for some more pictures. I picked tRNA because of a course about modelling nucleic acids which I am doing these days.
The secondary structure looks like this, the clover leaf. The amino acid is bound at the top, the anticodon at the bottom. The lines represent the base pairing.
For the 3D structure you have to first consider that helices are formed with base pairing - twist around all those parts. In tRNA there is an important tertiary element, the connection between the left and right loop - fold the molecule. You will get something like this.
The open end is shown in read, the anticodon green, the right loop yellow, the left loop cyan.
The open end:
The anticodon loop:
These three bases are probably the anticodon. They are GAA which correctly codes for Phe which this piece of tRNA is supposed to do.
If you want to move the molecule yourself you can find the link to a jmol applet from the pdb.
Macrocycles, flexibility and biological activity: A tortuous pairing - Here's an interesting paper from the Jacobson, Wells and Walsh labs at UCSF and Stanford that seeks to demonstrate how restricting the flexibility of macr...
3 days ago