Learn how easy it is to sync an existing GitHub or Google Code repo to a SourceForge project!

## Re: [PyMOL] draw the axes

 Re: [PyMOL] draw the axes From: Pierre Rizkallah - 2010-02-05 11:00:09 ```Hi Peter, I have just been doing a similar exercise. The answer is to introduce two new atoms and draw a bond between them: 1. Choose two points along one of the dimensions (x, y or z) that would be the limits of the axis you want to draw. 2. Use the equation of the axis (vector) to calculate the other two coordinates. 3. Add the two new atoms into the PDB file. You can call them water. 4. Bond water1,water2 5. Select object, water1 or water2 6. Hide object, everything 7. Show sticks, object That will give a solid stick to display your axis. Then proceed as normal. There might be a simpler or faster way, but this one works. Good Luck. Pierre ******************************************************** Dr. Pierre Rizkallah, Senior Lecturer in Structural Biology, WHRI, School of Medicine, Cardiff University, Heath Park, CF14 4XN email: rizkallahp@... phone + 44 29 2074 2248 >>> peter hudson 05/02/10 9:43 AM >>> Hello all I am working on a proetin having different domains. I would like to make movie and draw some axis on my structure which represent the axis of libration and translation. Movie would present the domain conformation changes and its relevence with biology. I checked on the pymol wiki but i find hard to make picture like this through pymol. I am novice in scripting. I have enclosed a example image in the attachment.If anybody helps me, i wiould be thankfull. Hello all Thanks in advance peter ```

 Re: [PyMOL] draw the axes From: Pierre Rizkallah - 2010-02-05 11:00:09 ```Hi Peter, I have just been doing a similar exercise. The answer is to introduce two new atoms and draw a bond between them: 1. Choose two points along one of the dimensions (x, y or z) that would be the limits of the axis you want to draw. 2. Use the equation of the axis (vector) to calculate the other two coordinates. 3. Add the two new atoms into the PDB file. You can call them water. 4. Bond water1,water2 5. Select object, water1 or water2 6. Hide object, everything 7. Show sticks, object That will give a solid stick to display your axis. Then proceed as normal. There might be a simpler or faster way, but this one works. Good Luck. Pierre ******************************************************** Dr. Pierre Rizkallah, Senior Lecturer in Structural Biology, WHRI, School of Medicine, Cardiff University, Heath Park, CF14 4XN email: rizkallahp@... phone + 44 29 2074 2248 >>> peter hudson 05/02/10 9:43 AM >>> Hello all I am working on a proetin having different domains. I would like to make movie and draw some axis on my structure which represent the axis of libration and translation. Movie would present the domain conformation changes and its relevence with biology. I checked on the pymol wiki but i find hard to make picture like this through pymol. I am novice in scripting. I have enclosed a example image in the attachment.If anybody helps me, i wiould be thankfull. Hello all Thanks in advance peter ```