# This is a Rasmol script to demonstrate tRNA structure 1qf6.
# In order to automatically load PDB file you may insert the following line 
# load    1qf6.pdb      

define hel1 1-7B, 66-72B
define hel2 49-53B, 61-65B     
define hel3 39-44B, 26-31B
define hel4 10-13B, 22-25B
define hel hel1, hel2, hel3, hel4
echo  tRNA helices are defined as hel1, ..., hel4   
define anticodon 34-36B
echo anticodon is defined as anticodon
define loop1 14-22B
define loop2 54-60B
define loop loop1, loop2
echo tRNA loops are defined as loop1, loop2
define knot1 26B, 44B
define knot2 27B, 43B
define knot3 49B, 66B
define knot knot1, knot2, knot3
echo tRNA knots are defined as knot1, knot2
define lend 73-76B
echo free 3'-end is defined as lend
 
restrict *B
wireframe 80

echo enjoy structure of E.coli glutamine tRNA

select hel
color green
echo Helices is blue green.

select anticodon 
color red
echo CGU anticodon is in red

select loop1
color blue
select loop2
color pink
echo D-loop is blue & T-loop is pink
 
select knot
color purple
echo Knots is in purple!
 
select lend
color brown
echo 3'-end is brown.

echo Now you can study the 3D-structure of this pretty tRNA