<html> <head> <title> Lesson 11 </title> </head> <h1 align=center> Garlic Tutorial </h1> <h2 align=center> Lesson 11 - Creating Small Structure </h2> <hr size="3"> In this lesson you will learn how to create a short alpha helix. The structure created using the method described here may be saved as any other structure. <br><br> Before starting with this lesson, read something about the command <a href="../commands/cre.html"> CREATE </a> . <br><br> Step 1 - start garlic (if not started already): <br><br> <font color=RED> garlic <br><br> </font> Step 2 - prepare a short sequence (polyalanine, eight residues): <br><br> <font color=RED> seq = ala ala ala ala ala ala ala ala <br><br> </font> Step 3 - initialize the secondary structure (let's play with an alpha helix): <br><br> <font color=RED> str = hhhh hhhh <br><br> </font> Step 4 - create a short alpha helix: <br><br> <font color=RED> create <br><br> </font> Step 5 - save your structure: <br><br> <font color=RED> save test.pdb <br><br> </font> Step 6 - discard the structure: <br><br> <font color=RED> dis all <br><br> </font> That's all! <br><br> <hr size="3"> </html>
